genome.fa.s6.2.7.7.80.10.50.1000.29.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  29  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)
9564674--9564885	108	2.0	108	92	3	356	29	26	14	29	1.95
9564782--9564920	46	3.0	46	91	2	226	30	25	15	28	1.95
9564630--9564920	154	1.9	154	91	2	478	30	25	14	28	1.95
9565815--9566107	98	2.9	97	77	14	301	47	9	16	26	1.77
9565947--9566098	49	3.1	49	67	17	134	49	7	14	28	1.71
9566436--9566469	7	4.7	7	88	3	50	5	11	0	82	0.83
9570437--9570506	32	2.3	31	80	11	90	27	21	38	12	1.90
9571610--9571730	27	4.5	27	78	0	116	26	26	8	38	1.84
9571610--9571714	54	1.9	54	82	0	129	25	25	8	40	1.84
9571860--9571940	27	3.0	27	76	3	83	27	24	14	33	1.95
9571871--9571941	27	2.6	27	79	0	88	26	23	14	35	1.93
9573866--9574039	86	2.0	87	98	1	341	36	16	9	37	1.80
9575099--9575191	27	3.5	27	83	1	116	22	19	9	48	1.78
9589045--9589094	21	2.4	21	93	0	82	70	0	22	8	1.13
9590117--9590155	19	2.1	19	86	13	55	17	7	0	74	1.05
9590689--9590745	28	2.0	28	96	0	105	31	10	17	40	1.84
9594294--9594366	10	7.3	10	80	0	74	34	5	19	41	1.74
9594294--9594354	5	12.2	5	75	0	50	34	4	19	40	1.73
9594297--9594366	30	2.3	30	80	0	86	34	5	18	41	1.74
9597965--9597989	2	12.5	2	100	0	50	48	0	0	52	1.00
9599924--9599993	31	2.3	31	97	0	131	24	14	12	48	1.78
9599979--9600091	59	1.9	59	83	1	147	18	14	15	51	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9600010--9600091	29	2.8	30	77	3	94	19	17	15	47	1.83
9600840--9600883	22	1.9	24	86	9	65	29	0	2	68	1.02
9601606--9601639	11	3.0	11	91	4	50	47	2	0	50	1.16
9601848--9601912	23	2.8	23	76	4	69	56	0	0	43	0.99
9605713--9605763	21	2.5	21	90	9	79	21	11	11	54	1.68
9607369--9607406	20	1.9	20	88	0	58	34	0	0	65	0.93
9613841--9613866	13	2.0	13	100	0	52	53	0	0	46	1.00
9614569--9614631	28	2.2	28	97	0	117	49	6	11	33	1.64
9616830--9616891	25	2.4	27	78	15	76	35	24	22	17	1.95
9617051--9617116	27	2.5	26	79	13	73	39	21	19	19	1.93
9618725--9618836	34	3.3	34	80	6	102	32	8	13	45	1.74
9620327--9620406	2	41.0	2	71	9	58	52	2	3	41	1.33
9620847--9620965	29	4.1	28	75	9	80	62	1	5	31	1.27
9620825--9620945	19	6.2	18	69	21	66	63	0	3	32	1.16
9620834--9620987	39	3.8	41	73	11	115	62	1	5	30	1.25
9621424--9621456	10	3.2	10	91	8	57	27	0	0	72	0.85
9621424--9621456	11	3.1	11	95	4	59	27	0	0	72	0.85
9621444--9621475	16	2.0	16	93	0	55	31	3	0	65	1.08
9623056--9623090	17	2.1	17	94	5	63	28	2	0	68	1.04
9623061--9623103	17	2.6	16	82	10	50	37	2	0	60	1.10
9624034--9624071	19	2.0	20	89	5	60	28	0	2	68	1.03
9625540--9625578	19	1.9	19	90	10	60	2	20	0	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9627771--9628054	138	2.1	138	96	0	523	35	23	15	25	1.94
9628742--9628783	15	2.9	15	85	3	50	76	2	9	11	1.12
9628763--9628802	19	2.2	18	86	4	53	72	0	10	17	1.11
9639701--9639753	26	2.0	26	82	13	65	54	13	9	22	1.67
9644193--9644229	6	6.5	6	87	6	51	64	0	16	18	1.29
9646465--9646515	24	2.1	24	96	0	93	45	15	17	21	1.86
9647838--9647931	25	3.8	24	74	12	84	36	18	24	21	1.95
9647937--9647991	25	2.2	25	83	3	67	32	27	29	10	1.91
9647952--9648032	25	3.2	25	82	1	90	35	24	20	18	1.95
9656000--9656328	90	3.7	90	99	0	640	41	2	16	39	1.61
9658685--9658722	17	2.2	17	100	0	76	36	15	0	47	1.46
9658754--9658802	18	2.7	18	77	3	53	48	0	0	51	1.00
9660577--9660603	3	9.0	3	100	0	54	0	33	0	66	0.92
9669693--9669763	19	3.8	18	80	9	61	29	4	2	63	1.27
9669719--9669763	19	2.4	19	88	0	63	26	2	4	66	1.22
9669792--9669825	8	4.1	8	88	3	50	29	0	0	70	0.87
9669812--9669867	21	2.7	20	76	17	60	21	3	3	71	1.17
9669784--9669871	11	9.1	9	73	18	54	27	3	2	67	1.19
9670798--9670850	14	3.9	14	80	9	74	50	9	3	35	1.53
9670798--9670853	26	2.1	27	90	6	87	51	10	3	33	1.54
9673523--9673584	19	3.3	19	95	0	115	38	16	8	37	1.78
9674132--9674548	44	9.8	44	67	16	155	24	24	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9674163--9674315	76	2.0	77	98	1	299	19	27	22	30	1.98
9674253--9674548	44	6.8	44	73	13	184	26	23	20	29	1.99
9681331--9681377	19	2.4	19	89	3	67	46	0	6	46	1.28
9686439--9686496	23	2.5	23	76	15	66	34	12	17	36	1.87
9687149--9687311	42	3.9	41	77	8	148	41	16	15	26	1.89
9691940--9691975	16	2.2	16	90	0	54	47	2	2	47	1.31
9693412--9693438	2	13.5	2	100	0	54	51	0	0	48	1.00
9695949--9696013	32	2.0	32	96	0	121	43	24	4	27	1.74
9698712--9698765	27	2.0	27	96	0	99	33	22	12	31	1.92
9700776--9701216	125	3.5	125	92	0	731	30	17	21	30	1.96
9703970--9704178	53	3.8	53	77	10	208	40	7	8	44	1.63
9703970--9704280	165	1.9	165	96	0	577	39	8	8	44	1.63
9704359--9704562	22	9.4	22	90	2	333	24	0	30	44	1.58
9704329--9704382	15	3.8	15	71	14	60	24	0	29	46	1.53
9704359--9704562	43	4.7	44	92	1	333	24	0	30	44	1.58
9704359--9704562	65	3.1	65	88	3	313	24	0	30	44	1.58
9704550--9704575	13	2.0	13	100	0	52	15	0	46	38	1.46
9704826--9704886	21	2.9	22	78	9	56	9	21	37	31	1.86
9707568--9707638	32	2.3	31	82	4	97	30	15	15	38	1.89
9712870--9712910	4	10.2	4	89	0	64	75	21	0	2	0.92
9714474--9714655	49	3.7	49	72	11	149	23	26	21	29	1.99
9718129--9718610	238	2.0	239	93	0	831	31	21	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9730427--9730451	13	1.9	13	100	0	50	36	16	32	16	1.90
9740003--9740039	10	3.5	11	89	10	60	0	21	0	78	0.75
9740002--9740039	14	2.8	14	96	4	69	0	21	0	78	0.74
9744178--9744335	83	1.9	83	86	0	226	37	12	12	37	1.81
9744172--9744349	83	2.2	82	83	5	225	34	10	12	42	1.77
9744484--9744515	12	2.6	13	90	9	50	12	9	43	34	1.75
9745769--9745824	21	2.6	21	88	5	76	46	1	28	23	1.62
9745957--9746082	66	1.9	66	93	3	218	46	6	25	21	1.74
9748628--9748731	43	2.5	42	84	4	129	29	28	13	27	1.94
9754631--9754672	18	2.3	19	84	8	61	38	0	59	2	1.10
9769439--9769599	87	1.9	86	84	3	216	26	13	21	38	1.91
9772403--9772436	17	1.9	18	88	5	52	44	5	11	38	1.65
9775320--9775417	50	1.9	51	83	6	128	11	18	34	35	1.86
9776586--9776652	30	2.2	30	91	0	116	17	23	28	29	1.97
9777668--9777710	19	2.3	19	96	4	79	53	0	18	27	1.45
9778778--9778884	41	2.6	40	88	2	151	52	3	22	21	1.63
9779295--9779337	23	2.0	22	81	9	52	74	4	16	4	1.16
9782967--9783000	17	1.9	17	88	5	50	14	0	20	64	1.28
9790339--9790372	18	1.9	18	88	5	52	47	2	5	44	1.42
9790396--9790437	15	2.8	15	85	0	57	40	0	0	59	0.97
9790658--9790688	16	1.9	16	93	0	53	51	0	3	45	1.17
9791993--9792062	30	2.3	30	80	11	81	50	2	2	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9793106--9793138	2	16.5	2	100	0	66	48	0	0	51	1.00
9793975--9794058	34	2.4	34	86	2	105	41	11	16	29	1.84
9801407--9801455	21	2.4	21	86	3	64	40	0	2	57	1.10
9808462--9808505	22	2.0	22	100	0	88	40	22	9	27	1.84
9812907--9812961	15	3.5	15	72	13	56	10	50	9	29	1.68
9812918--9812976	18	3.5	17	71	15	59	16	50	5	27	1.66
9812906--9813015	33	3.3	33	87	2	141	14	51	9	24	1.71
9812999--9813092	36	2.6	36	93	0	152	23	44	12	19	1.85
9816008--9816033	2	13.0	2	100	0	52	50	0	0	50	1.00
9824364--9824447	29	2.9	30	73	5	91	26	19	22	32	1.97

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