genome.fa.s6.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  3  of  109  ( 13028 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
776093--776139	16	2.9	16	83	0	67	25	31	2	40	1.68
778374--778412	16	2.6	15	84	8	53	0	15	0	84	0.62
778374--778411	13	2.9	13	81	11	51	0	15	0	84	0.63
778913--778955	19	2.4	19	88	7	63	69	0	2	27	1.00
779149--779296	46	3.3	46	89	2	230	29	22	14	33	1.93
788427--788491	32	2.0	32	93	0	112	33	18	12	35	1.88
798927--798995	35	2.0	35	83	11	88	44	4	4	46	1.43
805217--805251	17	2.0	18	94	5	63	65	0	34	0	0.93
809934--810010	31	2.5	32	80	6	86	41	1	6	50	1.36
810466--810512	23	2.0	23	100	0	94	34	21	8	36	1.84
810686--810989	162	1.9	163	88	2	459	43	15	7	33	1.74
818094--818127	2	17.5	2	93	6	61	50	0	0	50	1.00
821366--821427	31	2.0	31	90	6	99	45	4	9	40	1.58
825539--825613	39	1.9	39	100	0	150	34	18	21	25	1.96
829452--829482	15	2.1	15	100	0	62	25	22	0	51	1.48
840237--840278	22	1.9	22	100	0	84	47	0	14	38	1.44
841267--841291	13	1.9	13	100	0	50	56	8	12	24	1.62
850247--850428	59	3.2	57	81	8	199	35	14	12	37	1.84
851648--851697	27	1.9	27	84	15	70	48	0	20	32	1.50
851644--851701	25	2.4	23	76	23	57	46	0	18	34	1.50
860083--860112	14	2.1	14	100	0	60	20	13	6	60	1.55
862094--862663	60	9.6	60	82	4	575	23	18	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
880326--880359	17	1.9	18	94	5	61	58	0	0	41	0.98
885989--886052	29	2.1	31	85	5	87	29	14	9	46	1.75
886566--886646	41	2.0	41	95	4	146	34	14	19	30	1.92
894586--895024	89	4.8	90	78	7	400	47	18	6	27	1.74
894669--895006	182	1.9	181	86	0	487	46	17	7	28	1.75
896477--896524	24	2.0	24	87	4	69	33	10	14	41	1.80
896836--896889	27	2.0	27	82	7	65	37	9	0	53	1.33
902106--902200	44	2.1	44	94	1	163	28	13	9	48	1.74
905325--905372	22	2.2	22	85	7	62	58	4	0	37	1.18
912990--913055	31	2.1	31	94	0	114	43	10	9	36	1.71
915353--915408	2	28.0	2	100	0	112	50	0	0	50	1.00
927589--927622	13	2.4	14	90	9	52	20	0	0	79	0.73
933842--933875	17	2.0	17	94	0	59	29	14	14	41	1.86
934769--934810	21	2.0	21	85	0	57	42	0	16	40	1.48
935270--935335	26	2.6	25	79	11	71	16	24	24	34	1.95
935373--935431	24	2.5	24	82	0	82	18	28	18	33	1.95
937612--937683	36	2.0	36	97	0	135	25	12	29	33	1.92
939874--939899	11	2.4	11	100	0	52	61	0	0	38	0.96
940576--940610	18	2.1	18	89	10	56	25	0	0	74	0.82
945114--945149	18	2.0	18	88	0	54	50	0	5	44	1.25
959028--960638	809	2.0	809	93	0	2769	27	24	17	30	1.97
968733--968780	21	2.3	21	81	0	60	12	50	10	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974265--974393	42	3.1	42	79	8	154	41	16	24	17	1.89
974327--974394	21	3.2	22	72	19	63	41	16	26	16	1.88
978606--978678	27	2.6	28	80	8	78	63	1	2	32	1.17
978607--978678	36	2.0	36	86	5	101	63	1	2	31	1.17
978654--978731	31	2.5	30	83	8	86	60	3	2	33	1.28
978696--978788	19	4.8	19	70	18	66	61	5	3	30	1.34
978685--978788	39	2.6	39	73	18	99	60	4	2	31	1.32
978608--978801	9	19.7	10	67	16	59	62	3	2	31	1.26
978608--978787	10	18.7	9	70	17	87	61	3	2	32	1.26
978735--978799	20	3.2	20	75	14	62	64	3	3	29	1.23
979328--979396	19	3.9	17	75	18	54	31	0	4	63	1.14
979341--979454	9	11.9	9	69	18	54	28	0	5	64	1.21
979355--979408	27	2.0	27	85	7	74	31	0	5	62	1.18
979345--979454	19	5.8	20	72	15	65	28	0	5	65	1.21
980673--980697	11	2.3	11	100	0	50	52	0	8	40	1.31
987220--987273	19	2.8	20	77	8	58	24	0	7	68	1.15
989002--989035	15	2.4	14	90	5	50	44	8	0	47	1.34
992610--992667	29	2.0	29	89	0	89	41	22	17	18	1.90
995712--995753	19	2.2	19	83	8	50	38	4	0	57	1.20
1008633--1008676	19	2.4	17	85	14	61	29	2	0	68	1.02
1012180--1012315	41	3.3	41	96	0	245	30	19	27	22	1.98
1012293--1012339	22	2.1	22	96	0	85	34	14	27	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012254--1012378	63	2.0	63	93	0	214	32	18	26	23	1.97
1012317--1012594	41	6.8	41	93	0	439	30	19	24	25	1.98
1012211--1012419	104	2.0	104	91	0	337	31	18	25	24	1.98
1014911--1014946	14	2.6	14	91	8	56	63	0	2	33	1.08
1018421--1018461	20	2.0	20	100	0	82	43	4	29	21	1.73
1019221--1019249	14	2.1	14	100	0	58	44	34	0	20	1.52
1020368--1020416	24	2.1	23	81	7	55	59	0	0	40	0.98
1025453--1025487	11	3.2	11	100	0	70	65	8	0	25	1.21
1025533--1025575	8	5.1	8	78	10	50	76	2	0	20	0.89
1026077--1026180	31	3.4	29	70	18	77	42	1	19	36	1.62
1027766--1028385	309	2.0	309	99	0	1224	42	13	7	36	1.74
1032778--1032843	9	7.1	9	70	13	53	31	1	3	63	1.19
1032809--1032841	17	1.9	17	93	0	57	27	3	0	69	1.03
1033624--1033657	16	2.1	16	89	10	52	26	2	0	70	1.01
1034888--1034929	21	2.0	22	90	4	68	14	9	2	73	1.18
1034890--1034942	22	2.5	21	81	9	54	11	11	7	69	1.35
1036361--1036392	16	2.1	16	88	11	50	21	6	0	71	1.07
1038408--1038441	10	3.5	10	96	4	61	52	0	0	47	1.00
1040542--1040601	27	2.2	28	87	3	86	65	0	5	30	1.14
1040552--1040607	14	4.0	14	86	4	78	66	0	1	32	1.03
1040552--1040607	27	2.0	27	93	6	94	66	0	1	32	1.03
1046898--1046922	13	1.9	13	100	0	50	8	16	32	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049046--1049107	24	2.7	23	82	2	61	27	17	29	25	1.98
1059012--1059080	29	2.4	29	85	7	88	42	0	4	53	1.20
1060205--1060250	20	2.3	20	92	0	74	36	15	0	47	1.45
1060221--1060264	20	2.2	20	83	0	52	36	15	4	43	1.68
1061694--1061740	24	2.0	22	84	8	58	27	2	4	65	1.22
1063832--1063872	18	2.3	18	88	12	59	46	0	0	53	1.00
1064770--1064822	23	2.3	23	93	0	88	41	22	9	26	1.84
1072080--1072110	15	2.0	16	93	6	55	54	0	12	32	1.38
1074795--1074860	31	2.1	31	88	5	98	39	12	13	34	1.82
1081940--1082005	31	2.1	31	88	5	98	34	13	12	39	1.82
1085006--1085071	31	2.1	31	88	5	98	39	12	13	34	1.82
1093882--1094176	89	3.3	88	72	11	256	30	17	22	29	1.97
1094239--1094594	44	7.9	44	73	7	207	32	21	20	26	1.97
1094239--1094500	90	2.9	90	79	8	232	33	20	19	25	1.97
1093868--1094360	181	2.7	182	82	4	593	31	18	21	28	1.97
1094239--1094500	95	2.9	89	79	8	244	33	20	19	25	1.97
1094244--1094594	139	2.6	133	80	5	364	32	20	20	26	1.97
1102467--1102708	121	2.0	120	95	2	434	33	8	13	44	1.74
1102703--1102728	11	2.4	11	100	0	52	38	15	7	38	1.76
1105608--1105648	15	2.8	15	85	14	59	12	2	0	85	0.70
1105615--1105647	7	4.9	7	92	7	59	12	0	0	87	0.53
1106382--1106430	18	2.8	18	84	3	55	14	30	38	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111627--1111667	2	20.5	2	89	0	64	48	4	0	46	1.23
1111627--1111667	12	3.4	12	96	0	73	48	4	0	46	1.23
1113936--1114129	99	2.0	99	91	2	318	35	11	18	35	1.86
1114219--1114263	16	2.6	17	82	6	56	60	2	4	33	1.29
1116680--1116814	67	2.0	67	95	0	243	20	18	32	28	1.96
1119422--1119663	113	2.1	114	97	1	459	40	10	6	42	1.66
1120018--1120042	11	2.3	11	100	0	50	68	8	16	8	1.38
1125530--1125592	30	2.1	30	93	0	108	57	14	3	25	1.52
1133774--1133798	1	25.0	1	100	0	50	0	0	0	100	0.00
1133673--1133809	72	1.9	72	92	5	233	25	5	12	56	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109