genome.fa.s8.2.7.7.80.10.50.1000.33.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  33  of  135  ( 16172 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)
13355471--13355507	10	3.6	10	88	3	56	70	0	29	0	0.88
13359495--13360111	308	2.0	308	100	0	1234	32	18	21	28	1.96
13361206--13361619	160	2.6	157	75	15	379	30	8	7	52	1.61
13361928--13362086	41	4.0	41	80	11	172	0	30	0	68	0.99
13361992--13362090	31	3.1	32	80	12	123	0	31	1	67	0.97
13362004--13362083	36	2.3	35	91	2	124	0	30	1	68	0.97
13362007--13362090	28	2.9	28	81	13	89	0	30	1	67	0.98
13368404--13368575	73	2.4	73	87	2	240	26	23	23	26	2.00
13368475--13369241	114	6.7	114	89	0	1124	25	22	25	26	2.00
13369250--13369330	41	2.0	42	90	2	128	17	18	34	29	1.94
13369860--13369900	21	2.0	20	85	4	55	19	0	41	39	1.52
13370159--13370428	137	2.0	137	99	0	531	44	12	14	27	1.82
13370375--13370603	107	2.1	108	88	4	349	47	12	12	27	1.77
13370513--13370679	90	1.9	90	94	2	300	49	10	10	29	1.70
13373934--13374238	43	7.2	42	84	4	344	25	18	28	28	1.98
13377315--13377453	9	14.3	9	70	14	64	23	2	16	57	1.50
13377310--13377499	38	4.9	38	78	10	197	25	2	15	57	1.49
13380909--13380940	14	2.3	14	94	0	55	12	3	21	62	1.43
13382292--13382344	23	2.2	24	77	16	56	67	1	15	15	1.31
13384261--13384296	17	2.1	18	89	5	56	66	2	0	30	1.06
13396058--13396100	15	2.8	15	78	3	50	72	0	23	4	1.04
13407559--13407587	12	2.3	13	94	5	51	51	0	41	6	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13410160--13410184	10	2.5	10	100	0	50	76	0	8	16	1.02
13410205--13410242	19	2.0	20	89	5	60	55	0	2	42	1.14
13412345--13412383	17	2.6	14	84	15	51	56	2	2	38	1.27
13412367--13412403	19	1.9	19	94	0	65	62	0	0	37	0.96
13412471--13412527	13	4.2	13	75	6	51	56	3	1	38	1.27
13412593--13412648	27	2.1	27	84	12	73	75	7	12	5	1.18
13416838--13416906	29	2.4	28	90	7	111	28	20	26	24	1.99
13417249--13417308	19	3.2	19	63	13	52	35	3	18	43	1.67
13417232--13417308	37	2.1	37	100	0	154	35	2	18	44	1.63
13419390--13419423	13	2.6	13	90	0	50	0	5	17	76	0.98
13434486--13434516	9	3.4	9	95	0	53	22	0	0	77	0.77
13434723--13434778	19	2.9	19	69	10	51	37	0	3	58	1.15
13436165--13436219	24	2.3	23	82	14	67	34	0	0	65	0.93
13438173--13438250	41	1.9	41	89	0	120	23	20	29	26	1.99
13438275--13438334	30	2.0	31	87	9	88	33	18	20	28	1.96
13438534--13438561	14	2.0	14	100	0	56	28	14	21	35	1.92
13438720--13438754	15	2.4	14	86	9	52	22	0	37	40	1.55
13438741--13438781	21	2.0	20	85	4	55	19	0	41	39	1.52
13438769--13438828	22	2.7	22	86	0	84	25	0	41	33	1.55
13439002--13439050	14	3.4	15	83	8	66	28	0	32	38	1.57
13439037--13439077	21	2.0	20	85	4	55	19	0	41	39	1.52
13442726--13442833	44	2.5	44	82	8	132	24	13	26	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13442835--13442930	43	2.2	43	90	0	147	20	16	30	32	1.95
13442724--13442934	107	2.0	109	86	3	302	22	15	27	34	1.95
13444868--13444925	17	3.1	17	71	21	53	44	5	20	29	1.73
13447133--13447165	16	2.0	17	88	5	50	30	6	3	60	1.36
13448270--13448298	14	2.1	14	100	0	58	51	13	0	34	1.42
13450371--13450424	27	2.0	27	100	0	108	33	18	18	29	1.95
13455455--13455572	57	2.1	58	88	1	175	44	6	18	29	1.75
13460332--13460430	39	2.5	39	91	0	162	23	11	21	44	1.84
13460757--13460793	19	1.9	19	100	0	74	32	32	8	27	1.86
13463494--13463559	21	3.1	21	82	8	89	27	27	22	22	1.99
13465053--13465092	19	2.1	19	86	9	55	20	25	35	20	1.96
13468711--13468838	41	3.1	41	80	2	150	27	27	21	23	1.99
13472806--13472831	11	2.4	11	100	0	52	30	0	0	69	0.89
13474052--13474134	42	2.0	43	87	2	123	24	16	25	33	1.96
13474054--13474145	42	2.2	42	82	2	103	28	17	23	30	1.97
13475798--13475830	16	2.0	17	88	5	50	27	3	18	51	1.60
13483508--13483548	19	2.2	18	87	12	57	51	0	4	43	1.23
13483537--13483571	17	2.0	18	88	5	54	57	0	0	42	0.99
13483901--13483927	12	2.2	12	100	0	54	14	7	0	77	0.97
13483931--13484151	89	2.5	90	84	4	286	33	8	22	35	1.85
13484392--13484449	10	6.4	9	74	20	50	36	0	0	63	0.94
13484418--13484575	72	2.2	73	96	3	293	41	5	8	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13487261--13487324	3	21.3	3	90	6	103	34	1	0	64	1.03
13487394--13487425	2	16.0	2	93	0	55	50	3	0	46	1.17
13497638--13497690	3	17.0	3	81	14	63	60	0	5	33	1.20
13497633--13497690	16	3.6	17	80	17	70	58	0	6	34	1.25
13499018--13499124	44	2.4	44	87	0	151	22	22	22	32	1.98
13499162--13500377	89	13.6	88	79	5	1129	31	22	14	31	1.94
13499161--13500353	134	8.9	134	87	2	1261	30	22	15	31	1.95
13499138--13500377	223	5.6	220	80	4	1103	31	22	15	31	1.95
13499162--13500377	45	27.2	45	78	3	1100	31	22	14	31	1.94
13501666--13501716	13	3.8	13	75	14	50	13	19	0	66	1.24
13501669--13501732	28	2.2	29	86	13	89	15	20	0	64	1.30
13501666--13501733	7	9.6	7	74	15	59	14	19	0	66	1.26
13506662--13506710	21	2.3	21	89	3	71	55	0	12	32	1.37
13511293--13511342	21	2.4	21	96	0	91	38	12	10	40	1.76
13511560--13511658	44	2.2	45	83	5	121	29	25	16	29	1.96
13512086--13512270	44	4.2	44	66	13	146	26	23	19	30	1.98
13512035--13512316	132	2.1	132	94	0	492	25	24	20	29	1.99
13513585--13513634	7	6.7	7	80	8	55	12	14	2	72	1.22
13513585--13513634	15	3.4	14	78	13	55	12	14	2	72	1.22
13513579--13513624	23	2.1	22	88	8	67	13	13	0	73	1.09
13513583--13513636	23	2.3	23	84	6	65	12	14	1	70	1.25
13518637--13518675	16	2.4	16	82	0	51	46	2	10	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13518667--13518794	68	1.9	67	95	3	231	40	4	8	46	1.55
13518751--13518778	9	3.1	9	100	0	56	32	0	10	57	1.33
13531931--13532021	45	2.0	45	85	2	121	37	28	6	27	1.82
13532002--13532069	16	4.2	16	96	0	127	38	35	0	26	1.57
13533426--13533471	3	15.3	3	82	8	58	65	0	2	32	1.05
13533426--13533487	15	4.2	15	78	10	56	66	1	1	30	1.11
13533426--13533483	24	2.3	24	82	8	62	65	1	1	31	1.13
13533930--13534005	21	3.7	21	82	7	111	38	11	7	42	1.71
13533943--13534006	19	3.3	19	86	4	83	39	14	6	40	1.71
13536065--13536102	19	2.0	19	89	0	58	23	7	0	68	1.16
13536111--13536164	25	2.1	26	86	10	76	31	7	0	61	1.24
13537525--13537553	14	2.1	14	100	0	58	44	0	20	34	1.52
13537887--13537932	19	2.4	18	82	10	56	21	19	10	47	1.80
13542064--13542893	89	9.3	88	86	3	871	31	19	23	25	1.98
13542064--13542893	45	18.6	45	83	3	784	31	19	23	25	1.98
13546091--13546184	48	2.0	48	89	4	145	19	14	25	40	1.90
13550097--13550132	17	2.0	19	89	10	58	38	0	0	61	0.96
13553360--13553393	11	3.2	11	83	8	52	11	11	8	67	1.42
13560178--13560216	16	2.4	16	86	0	51	28	20	7	43	1.79
13565664--13565710	18	2.5	20	76	13	55	51	10	0	38	1.37
13567446--13567476	9	3.4	9	90	0	53	25	12	22	38	1.90
13567529--13567565	9	4.1	9	92	0	65	45	13	10	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13568221--13568246	5	5.2	5	100	0	52	23	19	19	38	1.93
13570411--13570447	18	2.0	18	89	5	56	62	0	0	37	0.96
13570405--13570447	18	2.4	18	84	7	52	58	0	2	39	1.11
13570402--13570449	19	2.5	20	76	10	55	58	0	2	39	1.10
13570539--13570604	34	1.9	35	87	3	98	42	15	9	33	1.78
13571068--13571210	72	2.0	72	91	2	234	28	19	16	34	1.94
13579016--13579312	50	5.8	50	83	3	292	28	21	27	22	1.99
13585985--13586179	50	3.9	50	86	1	255	26	23	29	20	1.99
13585985--13586179	101	1.9	100	85	1	264	26	23	29	20	1.99
13585992--13586228	50	4.8	49	83	3	154	27	23	27	21	1.99

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135