genome.fa.s9.2.7.7.80.10.50.1000.42.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  42  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)
15474533--15474565	17	1.9	17	93	0	57	48	6	6	39	1.53
15482145--15482272	65	2.0	65	100	0	256	33	15	7	42	1.76
15487176--15487266	7	14.0	6	90	5	101	51	0	48	0	1.00
15503592--15503617	9	2.9	9	100	0	52	57	0	34	7	1.27
15504339--15504506	67	2.5	67	90	0	264	39	13	12	33	1.83
15504900--15505061	61	2.7	61	79	11	181	53	4	0	41	1.25
15508123--15508170	24	1.9	26	84	16	66	45	0	22	31	1.53
15508252--15508331	24	3.3	23	80	13	74	13	27	18	40	1.89
15508233--15508331	23	4.2	24	75	16	82	13	26	19	41	1.87
15517440--15517470	13	2.3	14	94	5	55	32	0	0	67	0.91
15517797--15517859	21	2.9	21	72	15	56	30	1	1	66	1.10
15521335--15521367	2	16.5	2	100	0	66	51	0	0	48	1.00
15529461--15529500	6	6.3	6	88	11	62	65	17	0	17	1.28
15562990--15563041	23	2.3	22	80	3	59	32	1	5	59	1.32
15574921--15574986	33	1.9	36	84	9	93	53	6	31	9	1.57
15576011--15576108	23	4.2	23	84	10	135	13	24	22	39	1.90
15576011--15576108	48	2.1	46	86	7	135	13	24	22	39	1.90
15576073--15576147	39	1.9	39	88	0	114	12	21	21	45	1.84
15583194--15583387	89	2.2	89	88	1	291	21	19	26	32	1.97
15586187--15586257	28	2.6	27	77	8	72	26	23	18	30	1.97
15608073--15608116	2	22.0	2	100	0	88	50	0	50	0	1.00
15608729--15608770	21	2.0	21	85	0	57	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15611042--15611433	29	13.5	29	75	12	272	36	3	24	34	1.74
15611042--15611434	58	6.8	58	78	9	367	36	3	24	35	1.74
15612466--15612545	3	26.0	3	77	5	79	36	6	0	57	1.24
15616726--15616771	7	6.4	7	92	2	65	45	36	0	17	1.49
15616730--15616781	14	3.5	14	79	10	59	44	36	0	19	1.51
15616730--15616781	21	2.3	24	87	9	74	44	36	0	19	1.51
15616774--15616829	20	2.8	20	88	2	76	58	28	0	12	1.34
15623039--15623346	29	10.6	29	69	22	166	35	1	29	33	1.69
15623054--15623207	30	5.3	29	72	23	119	35	2	30	31	1.72
15622941--15623245	58	5.2	58	78	8	293	37	1	27	33	1.68
15622941--15623245	117	2.6	117	83	7	363	37	1	27	33	1.68
15623026--15623293	116	2.3	116	84	5	328	35	2	30	32	1.70
15625282--15625347	6	11.7	6	70	12	50	56	3	1	39	1.24
15625282--15625350	11	6.2	11	72	12	52	53	2	1	42	1.24
15625284--15625320	17	2.2	17	95	0	65	54	5	2	37	1.38
15625313--15625356	17	2.6	18	85	10	65	59	4	0	36	1.18
15628361--15629006	330	2.0	329	86	3	924	45	19	13	21	1.85
15635872--15635915	23	2.0	22	82	13	54	36	18	0	45	1.49
15641003--15641034	15	2.1	15	100	0	64	40	9	12	37	1.75
15649629--15649653	12	2.1	12	100	0	50	36	32	0	32	1.58
15650333--15650516	42	4.4	41	80	8	160	40	18	18	22	1.92
15650314--15650516	84	2.4	84	79	7	189	40	17	18	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15650378--15650529	42	3.6	41	81	8	162	40	19	19	21	1.91
15650575--15650777	88	2.3	89	86	4	275	33	24	2	38	1.71
15655219--15655301	32	2.5	32	82	7	96	27	3	7	61	1.39
15658594--15658631	9	4.2	9	80	12	51	44	10	13	31	1.77
15658695--15658728	11	3.2	11	95	4	61	73	5	0	20	1.04
15659893--15659949	24	2.4	24	90	0	87	50	10	14	24	1.73
15659905--15659955	24	2.1	24	100	0	102	56	7	11	23	1.61
15663736--15663794	29	2.0	30	93	3	102	49	15	6	28	1.70
15665029--15665135	56	1.9	56	84	3	144	45	3	1	48	1.31
15666731--15667069	29	11.5	29	79	8	305	35	24	2	38	1.69
15666730--15667069	59	5.8	60	79	7	288	35	24	2	37	1.68
15678933--15679938	78	12.9	77	86	1	1237	26	30	18	24	1.98
15679906--15680173	42	6.4	41	77	12	233	32	26	16	25	1.96
15679931--15680207	46	6.5	42	81	9	271	34	23	16	24	1.95
15679890--15680167	82	3.3	82	83	7	312	33	25	17	24	1.97
15682102--15682438	59	5.7	58	76	7	272	35	23	2	38	1.68
15682044--15682441	89	4.5	89	75	10	286	35	23	2	39	1.66
15682109--15682334	119	1.9	118	82	6	287	34	22	2	41	1.66
15682249--15682420	86	2.0	88	82	8	210	36	28	2	32	1.70
15682065--15682438	29	12.8	29	74	12	158	34	23	2	39	1.67
15682065--15682438	30	12.8	29	79	7	283	34	23	2	39	1.67
15684229--15684267	18	2.1	19	85	4	53	33	12	12	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15684347--15684393	22	2.1	23	84	11	62	27	21	0	51	1.48
15684650--15684687	18	2.1	18	90	5	58	26	26	0	47	1.52
15686657--15686716	28	2.2	27	83	13	79	51	6	15	26	1.67
15693812--15693858	21	2.2	21	84	0	58	8	17	14	59	1.59
15697040--15697079	21	1.9	21	89	0	62	57	0	12	30	1.36
15697087--15697127	21	2.0	21	90	0	64	43	7	12	36	1.70
15699068--15699116	26	1.9	25	84	12	64	16	12	0	71	1.14
15699682--15699785	50	2.1	50	100	0	208	39	15	11	33	1.83
15700089--15700124	16	2.2	17	90	5	56	58	0	0	41	0.98
15700285--15700326	22	1.9	22	85	0	57	57	4	11	26	1.54
15700292--15700345	11	4.7	11	81	4	54	55	3	14	25	1.56
15711841--15711887	18	2.4	20	86	10	62	46	2	51	0	1.13
15712399--15712466	32	2.1	32	94	0	118	35	2	0	61	1.11
15716828--15716879	15	3.4	15	80	17	54	50	34	5	9	1.59
15716968--15717031	7	9.7	7	78	8	55	17	18	21	42	1.89
15716961--15717043	40	2.0	41	86	6	116	16	20	20	42	1.90
15716956--15717039	27	3.1	27	81	6	73	17	22	22	36	1.94
15716961--15717042	20	4.1	20	82	3	94	17	20	20	41	1.90
15717167--15717196	12	2.4	12	94	5	51	23	0	20	56	1.42
15722523--15722619	41	2.4	41	85	0	122	32	5	22	39	1.76
15730912--15730966	29	1.9	28	85	3	74	47	12	0	40	1.42
15731058--15731122	31	2.1	31	88	5	96	33	9	12	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15731341--15731371	15	2.1	15	100	0	62	32	6	6	54	1.51
15734801--15734949	43	3.5	43	79	9	144	38	22	6	32	1.79
15736890--15736914	2	12.5	2	100	0	50	52	0	0	48	1.00
15740953--15741015	31	2.0	31	87	0	90	42	7	14	34	1.75
15743447--15743507	31	2.0	31	87	6	88	45	8	9	36	1.67
15748699--15748737	20	2.0	20	89	0	60	41	5	25	28	1.77
15752470--15752494	10	2.5	10	100	0	50	32	8	20	40	1.81
15755750--15755820	27	2.7	27	79	10	69	29	1	4	64	1.20
15759852--15759885	2	17.0	2	100	0	68	50	0	0	50	1.00
15759949--15759977	13	2.2	13	100	0	58	44	20	17	17	1.86
15760200--15760230	13	2.5	13	94	5	55	41	0	3	54	1.16
15760916--15761033	61	1.9	63	80	3	141	36	20	5	37	1.77
15766618--15766672	21	2.7	20	80	8	67	29	1	1	67	1.11
15773170--15773215	23	2.0	23	95	0	83	39	13	19	28	1.89
15773320--15773368	24	2.0	24	88	8	71	44	6	14	34	1.70
15773593--15773626	17	1.9	18	88	5	52	47	2	2	47	1.32
15774021--15774160	15	9.1	15	66	12	77	56	2	0	40	1.16
15774074--15774170	10	9.0	10	67	16	52	56	1	1	41	1.13
15774001--15774106	27	3.7	29	73	7	99	56	1	0	40	1.16
15774001--15774113	30	3.9	28	75	8	102	57	1	0	39	1.15
15774021--15774172	77	2.0	78	85	6	211	56	1	0	40	1.15
15774058--15774160	45	2.2	46	89	3	154	58	0	0	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15774172--15774293	59	2.0	61	89	6	187	45	0	1	51	1.16
15774194--15774305	59	1.9	60	84	1	154	47	2	0	50	1.15
15774478--15774514	16	2.3	16	90	0	56	27	27	0	45	1.54
15775751--15775802	25	2.1	25	96	0	95	32	7	3	55	1.46
15780385--15780433	25	2.0	25	100	0	98	24	20	22	32	1.98
15788429--15788507	30	2.6	31	77	4	88	30	24	5	40	1.76
15794264--15794336	29	2.4	30	84	6	94	38	0	1	60	1.06
15794311--15794348	9	4.2	9	96	0	67	28	0	0	71	0.87
15802555--15802706	78	1.9	78	89	0	232	36	27	23	11	1.90
15803524--15803580	29	2.0	29	82	6	71	29	0	7	63	1.21

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