genome.fa.s3.2.7.7.80.10.50.1000.88.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  88  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)
28819243--28819272	14	2.1	14	100	0	60	26	6	13	53	1.64
28819302--28819346	21	2.1	21	88	8	65	6	0	24	68	1.13
28826450--28826517	32	2.1	32	94	0	118	23	19	19	38	1.93
28826590--28826621	15	2.0	17	88	11	50	34	0	3	62	1.11
28831977--28832217	41	5.9	41	87	0	349	30	21	31	15	1.95
28835334--28835507	8	18.9	9	67	22	53	43	1	5	50	1.32
28835336--28835883	18	29.3	18	65	19	155	43	2	4	49	1.35
28835277--28835763	112	4.3	112	96	0	884	44	2	5	47	1.40
28835671--28835903	8	25.8	9	64	27	54	43	1	2	52	1.23
28835277--28835894	112	5.6	111	86	6	565	43	2	4	49	1.36
28835277--28835844	225	2.5	224	91	2	838	43	2	5	48	1.38
28835810--28835903	8	11.8	8	73	22	74	43	0	1	55	1.06
28835824--28835903	30	2.6	30	88	11	110	42	0	1	56	1.07
28835810--28835903	18	4.7	21	74	19	60	43	0	1	55	1.06
28835925--28835991	33	2.1	33	97	2	127	43	5	8	41	1.60
28841423--28841579	66	2.4	65	81	1	206	42	15	25	16	1.87
28841566--28841603	11	3.5	11	80	20	53	28	23	47	0	1.52
28841565--28841617	21	2.5	21	93	0	88	32	20	47	0	1.51
28841818--28841846	15	1.9	15	100	0	58	13	3	34	48	1.60
28842736--28842772	18	2.0	20	89	10	60	16	0	8	75	1.02
28846107--28846166	12	4.9	12	74	10	50	30	15	15	40	1.87
28846166--28846227	28	2.2	28	82	5	72	53	14	9	22	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28846423--28846455	7	5.0	7	85	14	52	15	72	0	12	1.12
28849171--28849220	22	2.3	22	96	0	91	36	16	20	28	1.93
28852408--28852479	28	2.6	28	90	0	108	43	23	12	20	1.86
28855642--28855699	30	1.9	30	86	13	84	44	8	5	41	1.57
28858634--28858685	22	2.4	22	87	9	72	55	3	1	38	1.29
28864391--28864454	19	3.4	19	91	6	96	45	10	4	39	1.60
28874259--28874452	97	2.0	97	100	0	388	38	4	21	36	1.73
28879895--28880040	58	2.5	57	82	11	181	45	2	0	51	1.17
28879955--28880040	26	3.1	26	71	18	82	48	0	1	50	1.08
28880204--28880248	16	2.8	16	86	0	63	24	31	6	37	1.81
28880201--28880253	16	3.3	16	81	0	61	30	26	5	37	1.79
28881877--28881917	21	2.0	21	85	0	55	53	2	41	2	1.27
28883278--28883322	23	2.0	23	95	0	81	44	13	0	42	1.43
28884966--28884996	15	2.1	15	93	0	53	35	9	9	45	1.70
28885695--28885728	11	2.9	12	86	8	52	0	17	0	82	0.67
28890775--28890806	3	10.7	3	100	0	64	34	0	0	65	0.93
28891948--28891982	12	2.9	12	91	0	52	45	0	20	34	1.51
28896489--28896522	3	11.3	3	100	0	68	32	0	0	67	0.91
28899790--28899885	48	2.0	48	100	0	192	29	10	12	47	1.74
28904043--28904084	17	2.4	18	84	11	61	38	0	7	54	1.28
28904055--28904118	17	3.8	17	71	17	53	46	3	3	46	1.34
28905967--28906081	29	4.0	29	80	10	128	42	26	0	29	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28906045--28906199	29	5.3	29	62	14	75	31	31	3	33	1.74
28906032--28906256	59	3.8	59	85	2	285	34	31	2	32	1.72
28906032--28906287	118	2.2	117	82	6	290	33	30	3	32	1.75
28918305--28918946	200	3.2	200	92	0	1032	35	21	23	19	1.96
28919280--28919321	17	2.4	18	84	11	61	38	0	7	54	1.28
28919292--28919355	17	3.8	17	71	17	53	46	3	3	46	1.34
28921605--28921659	21	2.7	21	85	2	76	27	3	12	56	1.53
28924373--28924414	16	2.6	16	81	7	50	23	2	2	71	1.10
28925008--28925602	39	14.9	40	70	14	367	25	18	22	33	1.96
28924947--28925599	80	8.2	79	90	3	902	25	17	22	33	1.96
28933832--28933862	8	3.8	8	95	4	53	41	12	22	22	1.88
28938449--28938490	16	2.6	16	81	7	50	23	2	2	71	1.10
28939936--28939973	19	2.1	19	85	14	53	23	7	7	60	1.51
28943117--28943194	36	2.2	36	90	0	120	26	10	25	37	1.88
28943219--28943266	24	2.0	24	88	8	71	58	2	10	29	1.43
28943219--28943278	22	2.7	22	87	7	77	56	1	10	31	1.42
28950887--28950914	14	2.0	14	100	0	56	14	21	7	57	1.61
28958915--28958998	39	2.2	38	81	8	98	22	25	23	28	1.99
28965453--28965689	30	7.9	30	88	2	350	35	3	23	37	1.71
28965453--28965689	90	2.6	90	92	3	404	35	3	23	37	1.71
28966889--28966937	16	3.1	16	74	11	55	30	0	6	63	1.19
28967445--28967475	15	2.1	15	100	0	62	12	12	54	19	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28967652--28967735	6	13.8	6	77	12	73	48	2	0	48	1.14
28967677--28967742	17	4.1	16	79	13	73	53	4	0	42	1.21
28967681--28967730	25	2.0	25	88	0	73	54	4	0	42	1.19
28967674--28967735	31	2.0	31	90	6	99	53	3	0	43	1.17
28967652--28967745	42	2.2	43	81	3	102	48	3	0	47	1.17
28968750--28969145	2	200.0	2	97	2	764	50	0	49	0	1.00
28969583--28969626	19	2.4	18	84	3	52	38	0	4	56	1.20
28970909--28970954	20	2.1	21	84	11	58	63	6	2	28	1.31
28985337--28985525	62	3.0	62	74	18	185	53	3	2	40	1.30
28985526--28985560	17	2.1	17	89	10	54	28	5	5	60	1.43
28988834--28988892	31	1.9	31	92	0	100	52	11	11	23	1.71
28992781--28993063	141	2.0	140	88	3	417	30	15	24	30	1.95
28994888--28994958	35	2.0	35	84	10	92	2	7	25	64	1.32
28994902--28994951	23	2.2	23	88	0	73	2	6	24	68	1.23
28994913--28994972	20	2.8	21	85	7	68	1	3	25	70	1.12
28996279--28996318	20	2.0	21	85	14	57	42	5	0	52	1.23
28997195--28997235	2	20.5	2	100	0	82	51	0	0	48	1.00
28999342--28999391	2	25.0	2	100	0	100	50	0	0	50	1.00
29005439--29005536	23	4.2	23	83	10	126	12	23	22	41	1.87
29007074--29007114	21	1.9	22	90	5	66	36	0	0	63	0.95
29007063--29007120	23	2.4	24	74	8	64	46	0	0	53	1.00
29007061--29007117	24	2.4	23	77	11	62	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29011362--29011412	23	2.2	24	85	3	68	43	3	9	43	1.56
29011951--29012280	49	6.8	47	75	12	276	16	26	20	36	1.94
29011804--29012296	98	5.1	98	82	7	508	16	25	21	37	1.93
29012012--29012280	147	1.8	146	81	7	330	15	26	20	37	1.93
29023122--29023191	32	2.4	28	81	15	79	55	2	1	40	1.23
29023580--29023676	23	4.7	21	73	22	80	44	24	2	28	1.65
29023604--29023680	40	1.9	40	100	0	154	41	25	2	29	1.69
29023605--29023675	20	3.5	21	73	22	80	43	25	1	29	1.63
29023755--29023785	15	2.1	15	93	0	53	35	0	0	64	0.94
29024474--29024557	41	2.1	40	95	2	150	23	0	20	55	1.43
29024554--29024592	15	2.6	14	80	11	51	33	0	10	56	1.33
29025115--29025156	16	2.6	16	85	7	50	45	0	0	54	0.99
29025119--29025197	26	3.0	26	73	17	72	46	2	0	50	1.14
29026154--29026179	12	2.2	12	100	0	52	53	0	0	46	1.00
29026730--29026763	16	2.2	16	90	10	54	35	8	5	50	1.58
29039256--29039770	208	2.5	206	86	3	701	38	17	20	24	1.93
29039975--29040000	12	2.2	12	100	0	52	53	0	0	46	1.00
29051791--29051823	10	3.4	10	87	8	50	24	0	0	75	0.80
29056423--29056466	19	2.3	19	88	7	63	40	6	0	52	1.28
29057531--29057613	31	2.7	29	75	17	80	27	4	2	65	1.26
29057531--29057613	30	2.7	30	78	10	80	27	4	2	65	1.26
29060203--29060291	33	2.8	32	77	13	85	57	4	5	32	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29060518--29060569	23	2.2	23	79	3	59	46	17	7	28	1.75
29060601--29060678	38	2.1	38	100	0	156	62	15	2	19	1.43
29060711--29060755	23	1.9	24	90	4	74	51	13	15	20	1.76
29060711--29060763	24	2.3	23	86	3	70	52	15	13	18	1.74
29060711--29060763	12	4.5	12	80	4	63	52	15	13	18	1.74
29061293--29061348	26	2.1	26	86	6	76	50	0	3	46	1.19
29063284--29063335	27	1.9	27	84	0	68	40	21	26	11	1.87
29063514--29063583	4	17.2	4	80	14	81	67	0	32	0	0.91
29063514--29063583	25	2.9	24	80	16	90	67	0	32	0	0.91
29063514--29063583	33	2.2	32	89	7	106	67	0	32	0	0.91

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