genome.fa.s9.2.7.7.80.10.50.1000.31.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  31  of  182  ( 21729 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)
12130297--12130390	23	4.0	23	75	16	86	11	25	19	43	1.84
12131354--12131386	11	3.0	11	83	16	50	6	18	3	72	1.18
12132395--12132444	14	3.6	14	71	17	50	22	8	16	54	1.68
12132479--12132519	17	2.3	18	91	4	66	53	0	2	43	1.13
12133345--12133441	32	3.2	31	69	21	89	46	0	1	52	1.07
12133337--12133458	58	2.1	59	90	4	196	47	0	0	51	1.06
12133583--12133629	16	2.9	16	81	9	60	29	25	4	40	1.75
12133868--12133892	11	2.3	11	100	0	50	28	0	0	72	0.86
12138640--12138709	20	3.5	20	77	11	79	37	7	7	48	1.58
12145325--12145349	7	3.6	7	100	0	50	0	36	0	64	0.94
12146631--12146679	21	2.4	20	82	3	62	69	4	4	22	1.23
12153723--12153780	29	2.0	29	83	6	73	29	24	17	29	1.97
12156099--12156562	256	1.8	256	99	0	910	30	19	16	33	1.94
12158475--12158579	31	3.5	29	66	20	72	36	3	25	34	1.74
12158467--12158668	59	3.4	60	86	2	282	34	3	29	32	1.74
12158476--12158638	30	5.4	30	63	15	86	36	3	26	33	1.72
12158500--12158667	29	5.7	30	65	21	77	35	2	29	32	1.73
12160550--12160639	6	16.0	6	70	17	68	52	2	2	43	1.26
12160550--12160627	17	4.6	17	80	6	88	52	1	2	43	1.23
12160902--12161014	57	2.0	57	89	3	174	29	21	8	40	1.83
12160956--12161584	75	8.4	75	90	2	958	30	18	16	34	1.93
12160956--12161584	151	4.2	150	89	2	958	30	18	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12160956--12161584	226	2.8	226	95	0	1082	30	18	16	34	1.93
12161533--12161848	38	8.4	38	70	13	231	32	21	15	30	1.94
12161571--12161908	75	4.5	75	94	0	595	33	21	15	29	1.94
12173874--12174190	58	5.4	58	81	6	318	31	3	31	33	1.74
12174056--12174160	30	3.6	28	74	14	95	29	2	32	35	1.72
12176112--12176156	6	8.0	6	78	14	51	51	2	0	46	1.13
12176112--12176155	11	4.0	11	82	11	54	50	2	0	47	1.13
12176112--12176157	17	2.7	18	87	9	62	52	2	0	45	1.13
12178829--12178855	2	13.5	2	100	0	54	51	0	0	48	1.00
12180018--12180089	19	3.8	18	70	13	56	50	2	1	45	1.25
12188188--12188309	44	2.7	44	79	9	113	32	8	11	47	1.69
12188180--12188326	46	3.2	46	76	9	113	33	8	12	46	1.71
12189591--12189682	20	4.6	20	84	2	96	20	16	28	34	1.94
12189649--12189700	20	2.6	20	84	0	68	15	15	34	34	1.89
12190604--12190637	18	2.0	17	88	11	52	58	5	8	26	1.51
12193669--12193703	13	2.7	13	95	0	61	28	8	22	40	1.84
12193887--12193949	24	2.7	22	80	7	63	44	0	3	52	1.17
12193905--12193960	24	2.4	23	80	8	60	50	0	1	48	1.11
12197767--12197797	15	2.1	15	93	0	53	54	0	0	45	0.99
12199659--12199698	21	1.9	21	85	10	55	5	37	12	45	1.64
12205959--12205994	17	2.1	17	90	10	56	27	0	5	66	1.13
12208317--12208385	19	3.9	18	75	16	65	69	0	1	28	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12208337--12208417	19	4.3	18	77	14	58	65	2	2	29	1.18
12208377--12208417	19	2.1	20	90	4	66	68	4	2	24	1.22
12208523--12208564	22	2.0	22	90	4	68	23	0	4	71	1.05
12208687--12208767	19	4.4	18	72	12	67	28	2	1	67	1.11
12208716--12208766	17	3.1	17	78	10	61	25	3	0	70	1.04
12208692--12208766	9	8.9	8	74	16	55	28	2	1	68	1.12
12210638--12210664	6	4.5	6	100	0	54	48	0	33	18	1.49
12214279--12214343	31	2.1	31	82	5	78	36	10	15	36	1.82
12224395--12224555	71	2.3	70	83	3	189	30	14	23	31	1.94
12224661--12224716	21	2.7	21	78	15	62	25	12	26	35	1.91
12232733--12232775	21	2.0	21	95	0	77	30	23	4	41	1.74
12234969--12235003	3	11.7	3	93	0	61	31	0	65	2	1.07
12241215--12241257	22	1.9	23	85	4	61	58	4	0	37	1.19
12241225--12241251	14	1.9	14	100	0	54	59	0	0	40	0.98
12242110--12242160	7	7.3	7	86	0	57	43	1	15	39	1.58
12242321--12242376	29	1.9	29	81	0	67	51	1	1	44	1.22
12242797--12242823	4	6.8	4	100	0	54	0	22	0	77	0.76
12258086--12258181	44	2.1	44	85	11	124	34	2	22	40	1.66
12258765--12258796	15	2.1	15	94	0	55	65	0	0	34	0.93
12259626--12259681	18	3.1	18	85	10	69	33	0	5	60	1.19
12259626--12259681	19	3.1	19	87	10	73	33	0	5	60	1.19
12265605--12265663	31	1.9	32	86	6	86	44	16	8	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12265757--12265799	22	2.0	22	86	4	61	23	0	6	69	1.12
12266008--12266033	6	4.3	6	100	0	52	15	0	15	69	1.20
12265983--12266039	18	3.3	18	79	13	66	22	0	8	68	1.17
12270805--12270836	15	2.0	17	88	11	50	56	15	0	28	1.40
12274279--12274558	48	5.8	48	94	0	416	19	14	42	23	1.88
12279276--12279553	30	9.5	30	67	18	156	32	3	32	32	1.76
12279248--12279585	59	5.8	59	88	1	457	31	4	32	31	1.77
12279300--12279582	30	9.7	28	69	19	123	31	3	32	32	1.74
12279612--12279994	162	2.3	162	89	2	579	42	13	17	26	1.86
12280566--12280600	16	2.1	17	89	5	54	45	17	20	17	1.85
12281602--12281636	11	2.9	12	87	12	54	42	0	0	57	0.99
12281606--12281649	18	2.5	17	82	17	54	52	0	0	47	1.00
12288359--12288462	37	2.7	38	76	5	93	31	26	19	22	1.97
12288553--12288585	12	2.8	12	90	0	57	21	24	0	54	1.45
12289900--12289928	11	2.6	11	100	0	58	58	0	27	13	1.36
12294514--12295494	328	3.0	328	96	0	1820	39	10	14	36	1.80
12304004--12304040	12	3.1	12	84	0	56	70	13	13	2	1.28
12304038--12304079	22	1.9	22	95	0	75	42	16	30	9	1.80
12323936--12324049	31	3.8	30	74	17	101	46	10	18	24	1.80
12323977--12324031	28	2.0	28	86	13	78	50	9	18	21	1.74
12324923--12324994	22	3.5	20	77	17	76	4	6	19	69	1.28
12325457--12325540	43	2.0	43	83	4	107	29	9	2	58	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12329510--12329534	5	5.0	5	100	0	50	40	40	0	20	1.52
12336608--12336658	20	2.5	20	83	6	57	11	7	1	78	1.04
12336985--12337024	20	2.0	20	85	5	53	12	12	5	70	1.33
12340377--12340460	42	2.0	42	83	0	105	23	39	15	21	1.92
12341432--12341490	22	2.7	22	77	12	59	57	3	1	37	1.25
12344800--12344848	23	2.1	23	88	7	73	57	0	2	40	1.10
12344805--12344854	18	2.7	18	81	12	57	54	0	2	44	1.11
12361915--12361967	28	1.9	28	92	3	90	47	1	3	47	1.31
12363044--12363105	26	2.4	25	74	10	63	54	1	0	43	1.09
12363009--12363141	61	2.2	59	87	11	182	54	0	1	43	1.15
12363156--12363212	18	3.3	18	69	18	57	47	0	3	49	1.18
12363154--12363229	34	2.2	34	88	6	109	43	0	2	53	1.14
12363198--12363260	15	4.1	15	74	8	63	42	0	4	52	1.22
12365781--12365883	30	3.5	29	78	17	122	36	3	25	33	1.74
12365659--12365903	118	2.1	117	82	6	291	33	5	30	30	1.80
12365659--12365911	58	4.3	58	79	9	255	33	5	30	31	1.79
12366774--12366823	22	2.3	21	76	6	55	8	24	4	64	1.38
12366953--12367068	3	38.0	3	75	11	94	36	2	1	59	1.21
12367781--12367841	23	2.7	23	85	7	81	59	4	0	36	1.19
12367780--12367858	6	13.8	6	71	10	58	56	3	1	37	1.25
12367780--12367886	17	6.3	17	79	7	101	56	5	1	36	1.34
12370579--12370621	10	4.3	10	87	0	59	46	9	25	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12371406--12371650	121	2.0	120	89	2	375	31	18	9	40	1.83
12377176--12377232	28	2.0	28	83	6	71	45	19	0	35	1.50
12380041--12380119	36	2.2	36	84	11	99	67	0	2	30	1.04
12382654--12382705	21	2.5	22	78	9	54	34	5	1	57	1.33
12386370--12386455	29	2.9	30	68	18	79	23	15	13	47	1.81
12386370--12386484	61	1.9	60	85	5	160	20	13	13	51	1.76
12386710--12386843	31	4.5	30	74	15	107	46	11	14	28	1.78
12386652--12386831	89	2.0	90	84	5	240	46	11	15	27	1.79
12387279--12387339	20	3.0	20	88	7	88	44	4	3	47	1.41
12403441--12403479	6	6.5	6	96	0	69	0	30	17	51	1.46

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   172   173   174   175   176   
          177   178   179   180   181   182