1.indiatimes.com
The Internet subsidiary of The Times of India Group, it includes news stories with links to various information sources.
Global Rank: 141
Rank in India: 11

2. rediff.com
Rediff.com is a news, information, entertainment, and shopping portal. It also provides free e-mail and many other services.
Global Rank: 204
Rank in India: 13

3. flipkart.com
Flipkart is an e-commerse company and a leading destination for online shopping in India.
Global Rank: 287
Rank in India: 15
4. in.com
In.com lets you find the best in News, Music, Videos and Games from more than 16,000 websites. I also offers an email service, which happens to be the shortest email (@in.com) service available on the Internet
Global Rank: 361
Rank in India: 23

5. naukri.com
Naukri.com is India’s No. 1 job site. It is a recruitment platform that provides hiring-related services to corporates/ recruiters in India and overseas.
Global Rank: 423
Rank in India: 24

6. hdfcbank.com
Banking website for Indians and NRIs.
Global Rank: 470
Rank in India: 26

7. irctc.co.in
The Indian Railway Catering and Tourism Corporation offers online rail ticket booking and checking of ticket reservation status. It includes train schedules, availability of tickets, and a travel planner.
Global Rank: 493
Rank in India: 34

8. icicibank.com
Website of the ICICI Bank. It offers a wide range of banking products and financial services.
Global Rank: 551
Rank in India: 35

9. ndtv.com
Website of the NDTV Channel. Covers news stories from all over India and the world.
Global Rank: 508
Rank in India: 37

10. quikr.com
Quikr is an India-based online marketplace for people to sell and buy things such as apartments, cars, jobs, services, used goods, events and more.
Global Rank: 635
Rank in India: 41

11. snapdeal.com
Snapdeal.com is the largest online marketplace in India. It features products across various categories such as Mobiles, Electronics, Fashion accessories, Apparel, Footwear, Home and Kitchen, Sports, Books, Restaurants, Entertainment and Spas.
Global Rank:  656
Rank in India:  45

12. justdial.com
Just Dial is India’s No.1 local search engine which provides comprehensive updated information. Services are available in all major Indian cities and across the United States.
Global Rank:  651
Rank in India: 46

13. moneycontrol.com
MoneyControl.com is India’s leading financial information source. It provides news, views and analysis on equity / stock markets, commodities, personal finance, mutual funds, insurance and loans.
Global Rank:  688
Rank in India: 48

14. oneindia.in
Oneindia.in is an Indian Internet portal in Hindi, Kannada, Malayalam, Tamil & Telugu.
Global Rank:  579
Rank in India: 49

15. sulekha.com
Sulekha.com is an Indian Community of residents as well as NRIs.
Global Rank:  705
Rank in India: 52

16. shaadi.com
Shaadi.com, one of India’s best known brands and the world’s largest matrimonial service.
Global Rank:  557
Rank in India: 53

17. way2sms.com
India’s No.1 Messaging Portal.
Global Rank:  687
Rank in India: 54

18. indianrail.gov.in
The official site of the Indian Railways. It provides information on trains, fares and availability.
Global Rank:  809
Rank in India: 62

19. onlinesbi.com
Website of the State Bank of India providing online banking facilities to customers.
Global Rank:  811
Rank in India: 63

20. jabong.com
Jabong.com is an Indian Online fashion & Apparel store.
Global Rank:  884
Rank in India: 64

21. tataindicom.com
Offers wireless broadband internet, landline phones and mobile phones connetion for consumers.
Global Rank:  874
Rank in India: 68

22. bhaskar.com
The online Dainik Bhaskar newspaper.
Global Rank:  886
Rank in India: 69

23. admagnet.net
Ad Magnet is an indian digital advertising network.
Global Rank:  897
Rank in India: 74

24. homeshop18.com
HomeShop18.com is an online retail marketing and distribution venture.
Global Rank:  1,057
Rank in India: 71

25. makemytrip.com
MakeMyTrip.com is an Indian online travel agency.
Global Rank:  1,053
Rank in India: 82

26. icicibank.co.in
Banking site
Global Rank:  1,067
Rank in India: 88

27. airtel.in
Website of Bharti Airtel
Global Rank:  1,247
Rank in India: 90

28. indiamart.com
A leading marketplace which matches buyers and suppliers.
Global Rank:  1,177
Rank in India: 93

29. axisbank.com
Provides information about services offered, interest rates, corporate banking and downloadable forms. It also includes services like internet, phone and ATM banking.
Global Rank:  1,361
Rank in India: 94

30. airtelforum.com
Official forum of Airtel. It contains discussions on Airtel connections.
Global Rank:  1,377
Rank in India: 95

31. yebhi.com
Yebhi.com is an Indian Online shopping, E-commerce portal for Home, Lifestyle & Fashion.
Global Rank:  1,516
Rank in India: 96

32. reliancenetconnect.co.in
Website of Reliance communications which deals in Internet connectivity.
Global Rank:  1,309
Rank in India: 99

33. myntra.com
Myntra.com is a rapidly growing Indian online shopping retailer focused on fashion and casual lifestyle products.
Global Rank:  1,401
Rank in India: 100

34. billdesk.com
BillDesk is  an online bill paying site.
Global Rank:  1,405
Rank in India: 103

35. intoday.in
Online site of the India Today magazine.
Global Rank:  1,419
Rank in India: 109

36. bookmyshow.com
Bookmyshow.com lets you Search, Choose & Book movie tickets in the simplest, easiest and the smartest way.
Global Rank:  1,474
Rank in India: 113

37. hindustantimes.com
Official site of The Hindustan times. It provides mainly news stories.
Global Rank:  1,249
Rank in India: 115

38. Site containing Adult Content

39. india.com
India.Com Email is a free, advertising-supported email service .
Global Rank:  1,278
Rank in India: 121

40. timesjobs.com
TimesJobs.com is an Indian employment website operating in India and Middle East.
Global Rank:  1,561
Rank in India: 127

41. naaptol.com
Naaptol is one of India’s largest comparison based social shopping portal.
Global Rank:  1,871
Rank in India: 128

42. axisbank.co.in
Axisbank.co.in facilitates customers with online banking etc.
Global Rank:  1,808
Rank in India: 132

43. thehindu.com
News portal. Official site of The Hindu newspaper.
Global Rank:  1,469
Rank in India: 133

44. sify.com
Sify is an Indian broadband internet provider
Global Rank:  1,766
Rank in India: 144

45. tatadocomo.com
Tata DOCOMO is Tata Teleservices Limited’s telecom service on the GSM platform.
Global Rank:  2,327
Rank in India: 146

46. asklaila.com
Asklaila is an Indian internet and mobile services company offering a digital commerce platform of marketplaces.
Global Rank: 1,961
Rank in India: 148

47. rcom.co.in
Reliance communications official website
Global Rank: 2,087
Rank in India: 153

48. shine.com
It has a unique job-matching technology along with career guidance, resume services and industry information.
Global Rank: 2,090
Rank in India: 157

49. infibeam.com
Infibeam.com is an e-commerce company. It is an online retailer for books, electronics, and automobiles in India.
Global Rank: 2,168
Rank in India: 161

50. reliancebroadband.co.in
Site dealing in Reliance Broadband connections.
Global Rank: 2,268
Rank in India: 163

51. ibibo.com
Ibibo is a site offering  a variety of applications under its social network.
Global Rank: 2,138
Rank in India: 164

52. eenadu.net
Eenadu.net  is an Indian Telugu-language online newspaper site.
Global Rank: 1618
Rank in India: 167

53. cardekho.com
CarDekho is an online service community that offers auto enthusiasts a friendly site where they can find their dream car.
Global Rank: 2,258
Rank in India: 168

54. indiandating.com
IndianDating is popular dating site in India.
Global Rank: 5,736
Rank in India: 171

55. firstpost.com
Firstpost.com tracks news from India and around the world.
Global Rank: 1,899
Rank in India: 172

56. fashionandyou.com
Fashionandyou.com is India’s No.1 private sales club and is a leader in the online Fashion, Luxury & Lifestyle industry.
Global Rank: 2,659
Rank in India: 176

57. sakshi.com
Sakshi.com is the official site of a Telugu media group. It mainly contains news stories.
Global Rank: 2,099
Rank in India: 177

58. carwale.com
CarWale is an automotive website.
Global Rank: 2,668
Rank in India: 182

59. shopclues.com
ShopClues.com is an online shopping store.
Global Rank: 2,973
Rank in India: 185

60. Site containing Adult Content

61. santabanta.com
SantaBanta.com is a site containing varied contents ranging from gossips to wallpapers to SMS and jokes.
Global Rank: 1,837
Rank in India: 190

62. cleartrip.com
Cleartrip.com is a travel site which makes travel simple.
Global Rank: 2,539
Rank in India: 192

63. ideacellular.com
Deals in idea cellular connections.
Global Rank: 2,614
Rank in India: 196

64. ccavenue.com
CCAvenue is one of India’s top onine marketplace possessing transactional capabilities with all Credit Card brands, major online banking institutions, mobile payment and cash cards options.
Global Rank: 2,861
Rank in India: 198

65. 99acres.com
99acres.com is an internet portal dedicated to Real Estate.
Global Rank: 2,919
Rank in India: 204

66. yatra.com
Yatra.com is an Indian online travel agency and a travel search engine.
Global Rank: 2,874
Rank in India: 205

67. click.in         
A top Indian classified.
Global Rank: 2,832
Rank in India: 206

68. dinamalar.com
Dinamalar.com is the online version of a daily newspaper published from various cities in India.
Global Rank: 2,143
Rank in India: 208

69. jeevansathi.com
Jeevansathi.com is an Indian matrimonial portal.
Global Rank: 2,868
Rank in India: 210

70. clickindia.com
Clickindia.com enables you to search, buy or sell, exchange and interact for common or complementary interests within or across local communities in India.
Global Rank: 2,924
Rank in India: 214

71. bsnl.co.in
Official site of the Bharat Sanchar Nigam Limited.
Global Rank: 3,135
Rank in India: 220

72. tyroodr.com
Tyroo is the largest ad-network in India to have its own world-class self-serve technology.
Global Rank: 3,147
Rank in India: 221

73. mysmartprice.com
MySmartPrice is an online price comparison engine which lets you find the best price of products in Mobiles, Books, Cameras, Electronics, Computers, Appliances and Personal Care products.
Global Rank: 3,413
Rank in India: 222

74. zomato.com
Zomato is an Indian website providing information related to restaurants, bars, pubs, clubs and events at such establishments in cities of India and UAE.
Global Rank: 3,358
Rank in India: 223

75. cricbuzz.com
Cricbuzz is a site dedicated to cricket. It provides the fastest ball-by-ball commentary and score.
Global Rank: 4,158
Rank in India: 224

76. airtel.com
Airtel’s global site
Global Rank: 2,566
Rank in India: 228

77. beamtele.com
A Connectivity and Communication Solutions Provider
Global Rank: 3,618
Rank in India: 235

78. magicbricks.com
A property site
Global Rank: 3,414
Rank in India: 239

79. timesofindia.com
Timesofindia.com is an Indian English-language daily newspaper site.
Global Rank: 3,523
Rank in India: 249 

80. 100bestbuy.com
Online shopping site.
Global Rank: 5,024
Rank in India: 254

81. indianexpress.com
Top Indian English language site containing news stories.
Global Rank: 2,825
Rank in India: 257

82. passportindia.gov.in
India government’s official passport delivery site.
Global Rank: 3,838
Rank in India: 258

83. india-forums.com
India-Forums.com is the no.1 Indian entertainment forum.
Global Rank: 2,416
Rank in India: 259

84. paytm.com
Online recharge site for mobile phones, DTH connections etc.
Global Rank: 3,609
Rank in India: 260

85. goibibo.com
Goibibo.com is one of the leading online travel sites in India.
Global Rank: 5,116
Rank in India: 261

86. bigrock.in
BigRock is an ICANN accredited internet domain name registrar and web hosting company.
Global Rank: 3,439
Rank in India: 262

87. gaana.com
Link directory to free online music resources.
Global Rank: 3,461
Rank in India: 264

88. jagran.com
Dainik Jagran homepage. The site is in Hindi.
Global Rank: 3,332
Rank in India: 266

89. rechargeitnow.com
Recharge your mobile and DTH services online
Global Rank: 3,716
Rank in India: 270

90. mouthshut.com
MouthShut.com is a user-generated content and consumer review website.
Global Rank: 3,427
Rank in India: 271

91. dnaindia.com
Daily News and Analysis official site containg mainly recent news stories.
Global Rank: 2,807
Rank in India: 272

92. inkfruit.com
Inkfruit is an online T-Shirt store, where t-shirt designs are submitted and voted for by the user community.
Global Rank: 4,004
Rank in India: 273

93. desidime.com
DesiDime.com is a completely free and user driven online shopping community.
Global Rank: 4,247
Rank in India: 277

94. hotklix.com
Hotklix. com is a social bookmarking site.
Global Rank: 2,736
Rank in India: 279

95. Site containing Adult Content

96. Site containing Adult Content

97. divyabhaskar.co.in
A popular Gujarati News portal
Global Rank: 3,763
Rank in India: 289

98. frankfinn.in
Official website of the Frankfinn Institute containing Air Hostess Training, Air Hostess Job, Cabin Crew Career, Indian Air Hostess, Air Hostess Academy.
Global Rank: 3,168
Rank in India: 290

99. manoramaonline.com
The web based version of English and Malayalam language daily.
Global Rank: 2,379
Rank in India: 291

100. raaga.com
Contains Hindi, Tamil, Telugu and Malayalam songs and videos.
Global Rank: 3,058
Rank in India: 293

The list ends here. I could have listed a few more, but 100 is enough I guess. The rankings may shuffle with time, yet these sites will still be considered the Top Indian Websites. You might have noticed a few sites such as olx.in, junglee.com, monsterindia.com, espncricinfo.com and tripadvisor.in not featured in this list, but strictly speaking they are not Indian sites. Anyways enjoy the list. You can also check outTop Indian Social Networking Sites you should join