genome.fa.s6.2.7.7.80.10.50.1000.99.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  99  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)
31610405--31610437	8	4.1	8	96	0	57	12	15	33	39	1.84
31621851--31621934	27	3.2	26	77	12	82	70	4	0	25	1.07
31621848--31621914	36	1.9	34	85	11	91	70	5	0	23	1.09
31621877--31621933	19	3.1	19	72	10	55	73	3	0	22	0.98
31621922--31621993	19	3.6	19	71	14	56	58	2	1	37	1.21
31621941--31621990	22	2.3	22	82	6	57	56	4	2	38	1.30
31624964--31626419	523	2.8	524	84	6	1757	23	12	25	38	1.90
31624695--31626597	265	7.2	265	78	8	1458	23	13	25	37	1.92
31632951--31632987	3	12.3	3	100	0	74	32	0	0	67	0.91
31634593--31634623	2	15.5	2	100	0	62	48	0	0	51	1.00
31639651--31639956	153	2.0	153	99	0	603	41	10	9	38	1.71
31640443--31640560	60	2.0	59	83	6	148	35	17	11	35	1.85
31642668--31642744	11	7.2	10	87	10	100	27	31	0	41	1.56
31642741--31642796	28	2.0	29	92	3	96	39	1	5	53	1.34
31642786--31642815	15	2.1	15	93	6	53	16	0	6	76	0.99
31643913--31643937	7	3.6	7	100	0	50	28	0	16	56	1.41
31644429--31644507	30	2.6	30	78	4	88	31	43	16	8	1.79
31644580--31644622	18	2.4	18	84	0	50	16	25	13	44	1.85
31656919--31656982	31	2.1	31	84	0	83	35	10	7	45	1.68
31657992--31658303	155	2.0	156	99	0	617	32	16	12	38	1.86
31660024--31660063	20	2.0	20	95	0	71	25	2	10	62	1.39
31660904--31660946	21	2.0	21	100	0	86	37	9	0	53	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31661179--31661208	11	2.7	11	89	0	51	70	0	30	0	0.88
31661233--31661271	19	2.0	21	85	10	55	23	0	10	66	1.22
31661317--31661351	3	11.3	3	87	6	52	31	0	5	62	1.18
31661350--31661690	3	114.0	3	99	0	675	0	0	33	66	0.92
31662122--31662157	18	2.0	18	94	0	63	33	8	47	11	1.69
31665977--31666005	14	2.1	14	100	0	58	13	34	27	24	1.93
31667607--31667666	27	2.2	27	78	0	66	18	30	23	28	1.98
31667731--31667776	24	1.9	24	90	0	74	54	0	6	39	1.26
31667730--31667789	24	2.4	25	81	10	70	51	0	6	41	1.28
31668213--31668269	25	2.2	25	81	9	62	57	3	0	38	1.16
31678600--31678657	30	2.0	29	96	3	107	37	17	10	34	1.84
31684681--31684711	15	2.1	15	93	0	53	29	12	22	35	1.91
31689561--31689622	10	6.2	10	81	7	72	66	6	0	27	1.16
31689561--31689631	29	2.4	29	81	6	81	64	7	1	26	1.27
31689561--31689631	20	3.5	20	79	11	56	64	7	1	26	1.27
31690013--31690102	46	2.0	46	95	0	162	45	14	10	30	1.77
31692618--31692643	2	13.0	2	100	0	52	50	0	0	50	1.00
31694602--31695423	407	2.0	408	99	0	1630	39	10	7	42	1.69
31701859--31701889	3	10.3	3	100	0	62	0	32	0	67	0.91
31702154--31702487	135	2.5	129	83	8	374	17	14	15	52	1.75
31705213--31705248	18	1.9	19	88	5	56	50	2	25	22	1.63
31709216--31709256	21	2.0	21	95	0	73	21	12	19	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31715173--31715383	103	2.0	106	84	5	277	28	12	16	42	1.85
31719164--31719198	12	2.9	12	86	0	52	22	5	20	51	1.68
31721787--31721829	4	10.8	4	100	0	86	74	0	0	25	0.82
31721992--31722208	93	2.4	94	82	4	255	31	18	10	38	1.85
31722270--31722336	25	2.5	26	79	13	75	67	0	2	29	1.06
31722270--31722364	18	5.4	17	72	21	63	66	0	4	29	1.10
31722283--31722364	19	4.4	18	76	13	69	64	0	3	31	1.11
31722283--31722364	10	8.9	9	72	17	62	64	0	3	31	1.11
31722599--31722670	9	8.0	9	73	17	60	33	0	2	63	1.08
31724231--31724302	35	2.2	33	82	12	85	34	16	33	15	1.90
31733388--31733450	27	2.4	27	79	7	69	44	1	3	50	1.27
31734786--31734851	22	3.2	21	74	14	66	62	0	1	36	1.05
31734780--31734842	11	5.9	11	78	14	78	55	0	1	42	1.09
31734780--31734843	10	6.1	10	76	16	51	54	0	1	43	1.09
31743143--31743188	12	3.8	11	81	18	56	0	15	0	84	0.62
31743140--31743187	20	2.3	21	86	13	73	0	14	0	85	0.60
31743132--31743188	25	2.2	24	84	9	69	0	15	0	84	0.63
31743131--31743183	8	5.8	9	79	16	56	0	18	0	81	0.70
31743457--31743525	17	3.9	17	76	12	68	0	28	0	71	0.87
31743882--31744037	29	5.2	29	77	12	156	40	5	18	35	1.73
31745238--31745369	64	2.0	66	92	4	223	37	21	15	25	1.93
31746236--31746296	1	61.0	1	76	0	59	3	0	8	88	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31746238--31746296	10	5.7	10	80	13	66	3	0	8	88	0.63
31746234--31746297	25	2.6	25	90	7	96	4	0	9	85	0.72
31753764--31753875	35	3.1	35	79	9	84	43	10	10	34	1.74
31753784--31753915	18	7.2	17	68	17	70	39	9	12	38	1.75
31753773--31753831	18	3.5	16	77	11	64	45	15	13	25	1.82
31753854--31753994	21	7.1	21	66	19	63	39	7	14	39	1.75
31753836--31753954	39	3.1	38	79	7	107	37	6	13	42	1.71
31753893--31753936	23	2.0	22	81	4	52	36	4	11	47	1.60
31753912--31754019	57	1.9	56	88	1	162	40	10	13	35	1.79
31753836--31753954	40	3.1	37	77	15	109	37	6	13	42	1.71
31753950--31753994	22	2.1	21	87	4	63	40	8	11	40	1.72
31753972--31754068	34	2.8	35	90	6	162	43	10	13	32	1.78
31753773--31754068	17	16.2	17	67	16	139	42	10	13	34	1.78
31755096--31755138	8	5.1	8	80	8	50	0	20	0	79	0.74
31755097--31755149	17	3.0	17	84	15	72	0	18	0	81	0.70
31755097--31755152	24	2.3	25	84	6	71	0	17	0	82	0.68
31755097--31755147	9	5.8	9	86	9	70	0	19	0	80	0.71
31755098--31755152	16	3.3	16	73	24	51	0	16	0	83	0.64
31755148--31755192	14	2.9	16	80	12	58	0	28	33	37	1.58
31755153--31755194	14	2.8	15	85	10	59	0	30	38	30	1.58
31755226--31755263	17	2.2	17	86	9	51	2	18	47	31	1.62
31755841--31755976	29	4.7	29	78	4	85	42	6	19	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31755872--31755984	29	3.9	29	80	4	120	42	5	17	34	1.72
31765199--31765387	98	1.9	97	88	3	281	39	12	7	39	1.73
31765537--31765570	17	1.9	18	88	5	52	38	2	0	58	1.13
31765747--31765800	28	1.9	28	85	7	74	44	11	0	44	1.39
31769435--31769476	16	2.5	17	81	14	52	35	2	0	61	1.09
31783821--31783936	56	2.1	56	85	4	153	26	14	12	45	1.81
31795990--31796050	29	2.1	28	82	8	70	47	14	13	24	1.80
31801158--31801205	18	2.6	17	75	12	51	60	4	0	35	1.16
31802834--31802914	29	2.9	29	75	10	80	23	2	9	64	1.36
31803608--31803661	26	2.0	27	86	10	76	59	12	0	27	1.34
31814883--31814917	2	18.0	2	94	5	63	51	0	0	48	1.00
31815115--31815150	12	3.1	12	92	4	56	47	5	8	38	1.57
31815631--31815684	26	2.0	28	85	7	76	53	20	1	24	1.55
31819417--31819622	84	2.5	83	79	7	195	47	9	4	38	1.56
31821530--31821576	19	2.5	19	74	12	53	55	4	4	36	1.39
31829831--31829886	26	2.4	22	76	11	58	42	0	7	50	1.30
31830594--31830618	2	12.5	2	100	0	50	48	0	0	52	1.00
31830715--31830760	24	1.9	24	100	0	92	47	13	6	32	1.68
31832689--31832843	61	2.6	61	77	5	170	38	7	20	34	1.79
31837447--31837491	13	3.1	14	81	15	56	48	2	0	48	1.13
31843296--31843584	153	1.9	154	86	3	413	29	24	13	31	1.94
31845777--31845806	15	2.0	15	100	0	60	60	13	6	20	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31855608--31855874	126	2.1	125	93	2	446	57	4	13	24	1.55
31855937--31856004	27	2.5	27	83	9	86	38	10	0	51	1.36
31856283--31856389	19	5.7	19	78	4	128	38	10	0	51	1.36
31856288--31856390	37	2.8	37	98	0	197	40	10	0	48	1.38
31856694--31856764	28	2.5	29	88	6	101	52	0	11	36	1.38
31857867--31857937	33	2.2	33	100	0	142	42	12	9	35	1.76
31860395--31860467	30	2.4	29	80	6	74	36	6	10	45	1.66
31861073--31861207	70	2.0	69	92	5	204	45	14	11	28	1.79
31870015--31870213	33	5.9	34	70	9	111	32	17	25	25	1.97
31869984--31870177	105	1.9	101	88	6	291	31	15	25	27	1.96

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