genome.fa.s3.2.7.7.80.10.50.1000.90.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   

This is table  90  of  171  ( 20472 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)
29400626--29400670	22	2.0	22	95	0	81	11	22	24	42	1.86
29428505--29428569	28	2.3	28	100	0	130	43	7	6	43	1.58
29432318--29432384	23	2.9	23	93	0	107	25	10	19	44	1.82
29432311--29432379	12	5.8	12	70	14	54	24	11	20	43	1.85
29438774--29438822	13	3.4	14	76	18	55	51	0	0	48	1.00
29438891--29438973	36	2.3	35	79	6	87	49	1	4	44	1.31
29439663--29439724	30	2.1	30	82	8	74	50	9	0	40	1.35
29444477--29444514	17	2.3	16	90	4	58	71	0	2	26	1.00
29449044--29449084	9	4.8	9	82	11	50	46	2	0	51	1.14
29449052--29449084	16	2.0	17	88	5	50	48	0	0	51	1.00
29449440--29449487	25	1.9	25	95	0	87	33	18	12	35	1.89
29449862--29449916	22	2.5	22	85	5	67	27	0	5	67	1.12
29454049--29454392	52	6.6	52	91	0	544	27	14	22	34	1.93
29461287--29461361	26	3.0	24	71	7	69	20	26	18	34	1.95
29461276--29461394	50	2.4	50	84	0	139	20	25	16	37	1.93
29462914--29462960	13	3.5	13	73	21	51	53	2	2	42	1.25
29462914--29462970	28	2.0	28	93	0	96	52	5	1	40	1.34
29463084--29463128	14	3.0	15	75	12	56	60	0	0	40	0.97
29463910--29464007	51	1.9	50	82	10	119	38	17	1	42	1.56
29464020--29464103	21	4.2	19	68	17	53	61	4	0	33	1.17
29466686--29466935	91	2.8	90	88	3	344	34	22	11	32	1.89
29466703--29466972	91	3.0	91	85	0	261	32	21	12	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29482394--29482522	31	4.3	30	77	5	127	54	5	9	31	1.55
29482478--29482627	4	37.0	4	75	2	120	66	6	2	24	1.27
29482478--29482627	20	7.8	20	73	10	134	66	6	2	24	1.27
29482518--29482567	21	2.4	22	83	10	68	74	6	0	20	1.03
29482503--29482586	29	3.0	27	75	18	75	69	5	2	22	1.22
29482943--29482989	17	2.8	17	87	3	60	74	2	2	21	1.03
29482959--29483010	26	2.0	26	81	7	61	73	1	1	23	1.04
29489430--29489499	29	2.3	29	80	4	77	32	8	12	45	1.73
29491041--29491067	14	1.9	14	100	0	54	29	3	0	66	1.09
29495514--29495645	26	5.1	26	83	0	138	34	15	21	28	1.94
29495747--29496054	161	1.9	159	87	4	404	25	15	12	46	1.81
29496125--29496232	30	3.5	30	80	2	126	37	23	4	34	1.75
29496250--29496468	29	7.5	29	63	7	102	31	25	4	38	1.76
29496220--29496623	59	6.9	59	90	0	621	30	26	5	36	1.80
29500386--29500590	86	2.4	85	79	11	218	44	17	7	30	1.77
29500717--29500780	30	2.2	29	84	13	80	62	1	1	34	1.14
29501089--29501164	11	7.1	11	68	11	59	30	1	3	64	1.20
29501090--29501143	21	2.6	21	84	0	72	29	1	5	62	1.28
29501121--29501205	19	4.3	19	76	14	73	32	0	2	64	1.06
29501089--29501209	51	2.4	51	80	8	122	33	0	2	63	1.13
29501140--29501205	19	3.3	21	81	12	77	34	0	0	65	0.93
29501325--29501483	85	1.8	86	81	7	198	33	8	20	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29501781--29501882	26	3.8	26	77	11	98	67	1	0	29	1.08
29501815--29501883	36	1.9	35	85	8	95	65	1	1	31	1.11
29502012--29502206	90	2.2	88	78	6	212	34	9	16	39	1.80
29502707--29502737	14	2.2	14	94	0	53	48	0	0	51	1.00
29526735--29526782	21	2.3	20	93	6	87	25	33	12	29	1.92
29536517--29536610	17	5.5	17	68	13	50	28	8	19	43	1.80
29536536--29536616	34	2.4	34	78	0	90	30	8	18	41	1.80
29539336--29539360	7	3.6	7	100	0	50	56	32	0	12	1.36
29539404--29539443	21	1.9	21	89	0	62	17	0	30	52	1.45
29539411--29539460	21	2.4	21	82	0	55	20	2	36	42	1.63
29539487--29539536	20	2.4	21	86	6	75	24	2	30	44	1.65
29539485--29539556	34	2.1	34	81	0	81	20	4	33	41	1.72
29550492--29550640	75	2.0	76	95	1	273	49	4	14	32	1.61
29562522--29562731	91	2.3	91	95	0	375	29	24	19	26	1.98
29566402--29566458	22	2.6	23	80	5	73	35	21	19	24	1.96
29574216--29574937	377	1.9	377	88	1	1099	35	25	12	27	1.91
29575149--29575603	23	20.2	23	83	4	561	45	13	6	34	1.69
29575149--29575736	23	26.5	21	76	11	286	45	13	6	34	1.68
29575209--29575239	16	1.9	16	93	0	53	45	6	9	38	1.63
29575222--29575736	46	11.4	46	84	5	649	45	13	6	34	1.68
29575225--29575734	69	7.6	69	83	5	639	45	13	6	34	1.68
29575590--29575614	13	1.9	13	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29575569--29575639	36	2.0	36	91	0	115	46	5	4	43	1.46
29575546--29575660	59	1.9	59	92	0	194	46	9	4	40	1.56
29575521--29575685	82	2.0	82	92	0	276	47	10	4	37	1.59
29575501--29575708	105	2.0	105	91	0	335	46	10	5	37	1.61
29575226--29575731	128	3.8	128	84	6	539	45	13	5	35	1.67
29575454--29575734	151	1.9	151	91	0	463	46	11	5	36	1.63
29575297--29575720	151	2.9	151	79	8	245	45	12	6	34	1.67
29579227--29579255	14	2.1	14	100	0	58	27	27	24	20	1.99
29579489--29579519	11	2.7	12	95	5	55	0	29	0	70	0.87
29585706--29586299	296	2.0	296	94	0	1035	30	18	17	33	1.94
29591134--29591221	27	3.3	27	74	6	88	38	17	14	29	1.89
29591188--29591267	27	2.9	27	78	12	83	33	18	17	30	1.94
29591219--29591301	28	3.0	28	91	1	132	33	24	13	28	1.93
29591754--29591794	21	2.0	21	85	0	55	41	2	2	53	1.27
29595616--29595873	129	2.0	126	92	2	426	38	18	18	24	1.93
29606074--29606129	15	3.9	15	71	21	57	37	10	0	51	1.37
29606085--29606189	52	2.0	52	89	7	160	40	7	0	50	1.37
29606087--29606181	26	3.6	25	71	10	75	38	8	1	51	1.39
29608454--29608498	23	1.9	24	81	4	56	33	11	26	28	1.91
29607861--29609152	646	2.0	646	99	0	2530	30	13	20	35	1.92
29609100--29609144	23	1.9	24	81	4	56	33	11	26	28	1.91
29622121--29622904	198	4.0	198	96	0	1397	33	16	14	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29627026--29627146	41	3.0	41	72	3	109	27	25	10	36	1.89
29629199--29629223	3	8.3	3	100	0	50	32	0	0	68	0.90
29639790--29639830	20	2.0	21	95	4	75	43	21	0	34	1.53
29651164--29651211	19	2.5	19	83	6	53	25	22	22	29	1.99
29653733--29653796	19	3.5	17	77	10	56	34	1	3	60	1.22
29653732--29653798	27	2.5	26	80	11	73	32	1	2	62	1.19
29657264--29657317	15	2.9	19	71	28	53	66	3	14	14	1.38
29657492--29657528	2	18.5	2	100	0	74	0	48	0	51	1.00
29658850--29658891	18	2.3	18	79	0	57	73	4	2	19	1.12
29658894--29658933	20	2.0	20	90	4	64	57	0	2	40	1.12
29658903--29658949	20	2.2	20	85	7	58	59	2	0	38	1.09
29658939--29658994	29	1.9	29	88	0	85	58	8	1	30	1.39
29659423--29659616	29	6.8	26	70	19	70	34	2	5	58	1.32
29659413--29659475	19	3.4	19	74	20	62	30	4	4	60	1.38
29659415--29659489	29	2.8	25	69	23	62	32	4	4	60	1.34
29659413--29659601	9	20.0	9	71	13	107	33	2	4	59	1.30
29659500--29659601	10	10.6	10	78	12	99	36	0	3	58	1.23
29659499--29659580	26	3.3	26	68	25	86	34	0	3	62	1.13
29659498--29659599	48	2.1	48	98	0	195	34	0	3	60	1.21
29659510--29659616	20	5.5	18	76	12	70	37	1	4	56	1.31
29665452--29665492	19	2.2	19	100	0	82	56	14	0	29	1.39
29671144--29671198	23	2.4	22	82	8	65	43	3	1	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29671127--29671199	6	12.7	6	72	18	57	42	4	1	52	1.29
29671147--29671214	17	3.9	17	80	16	61	44	2	1	51	1.25
29671127--29671199	11	6.3	12	74	16	57	42	4	1	52	1.29
29671124--29671200	12	6.8	11	76	10	75	44	3	1	50	1.28
29671301--29671344	14	3.3	14	87	12	74	38	29	13	18	1.89
29671398--29671434	15	2.2	17	77	22	51	16	51	13	18	1.76
29671403--29671434	15	2.1	15	100	0	64	18	53	12	15	1.73
29673053--29673267	30	7.3	30	88	2	319	37	25	2	34	1.69
29673280--29673375	29	3.2	30	70	7	88	33	28	3	35	1.73
29685265--29685933	68	9.9	68	94	0	1101	33	18	20	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   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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171