genome.fa.s9.2.7.7.80.10.50.1000.62.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  62  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)
20112423--20112461	20	1.9	21	85	15	55	20	0	28	51	1.48
20123842--20123877	15	2.3	17	81	18	51	61	0	0	38	0.96
20136032--20136065	4	8.2	4	90	3	50	26	0	0	73	0.83
20136067--20136113	4	12.8	4	75	24	50	74	0	0	25	0.82
20161877--20161914	19	2.0	19	100	0	76	42	5	31	21	1.75
20171537--20171574	13	2.9	13	77	14	51	60	0	0	39	0.97
20175644--20175704	31	2.0	31	86	0	86	22	16	9	50	1.74
20179433--20179472	20	2.0	20	85	0	53	32	2	12	52	1.52
20181185--20181312	58	2.2	58	84	1	166	52	21	0	25	1.52
20181132--20181357	74	3.1	74	79	13	186	50	23	0	25	1.53
20181111--20181361	132	1.9	132	89	0	385	50	24	0	25	1.53
20184240--20184547	153	2.0	153	92	0	508	25	14	23	37	1.92
20188494--20188544	22	2.4	21	83	9	59	50	37	0	11	1.39
20188552--20188610	27	2.2	27	90	6	93	52	23	0	23	1.47
20188522--20188713	94	2.1	90	86	8	228	49	25	0	25	1.51
20195627--20195666	19	2.1	19	86	9	55	60	5	0	35	1.19
20196091--20196162	27	2.9	26	84	10	89	36	4	5	54	1.43
20204569--20204894	101	3.2	101	88	0	483	13	23	20	42	1.87
20204608--20204784	51	3.5	50	70	11	137	12	22	19	45	1.84
20204571--20204946	50	7.5	49	67	10	170	13	24	20	42	1.88
20206174--20206222	21	2.3	22	89	10	75	0	14	6	79	0.91
20211783--20211841	28	2.1	28	90	0	91	30	11	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20211914--20212224	59	5.3	58	74	10	212	34	2	24	37	1.71
20212056--20212312	87	2.9	87	85	2	327	35	1	24	39	1.63
20212061--20212312	29	8.6	29	79	6	240	36	1	23	39	1.62
20212968--20213062	17	5.6	17	83	0	109	56	5	2	35	1.33
20212994--20213043	23	2.2	23	85	7	66	54	6	4	36	1.44
20213416--20213465	22	2.3	22	92	0	82	46	6	24	24	1.75
20215244--20215285	21	2.0	21	85	0	57	9	0	14	76	1.02
20215255--20215341	20	4.1	21	76	15	72	8	3	20	67	1.31
20218309--20218343	18	2.0	18	88	5	54	34	5	0	60	1.21
20225710--20225742	16	1.9	18	88	11	52	45	18	3	33	1.65
20229494--20229534	2	20.5	2	85	9	57	46	0	48	4	1.23
20229954--20230023	18	3.6	19	80	14	63	67	1	2	28	1.14
20229964--20230024	18	3.0	20	84	13	65	68	1	1	27	1.08
20229982--20230026	19	2.3	20	85	11	58	75	0	0	24	0.80
20234906--20235020	57	2.0	57	83	5	142	41	17	13	26	1.87
20236263--20236308	21	2.2	21	100	0	92	32	21	13	32	1.92
20251590--20251644	10	5.3	10	75	20	51	65	1	0	32	1.03
20251580--20251647	17	3.6	18	77	16	57	66	1	1	30	1.10
20251590--20251652	20	3.1	21	84	11	78	68	1	0	30	0.99
20251608--20251650	18	2.2	20	88	8	63	76	0	0	23	0.78
20251810--20251855	19	2.4	19	82	10	58	39	0	0	60	0.97
20255152--20255469	20	15.8	20	85	2	368	11	18	29	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20255152--20255489	60	5.7	60	84	3	407	12	18	30	39	1.87
20257695--20257744	22	2.3	22	100	0	100	44	4	26	26	1.72
20261375--20261409	18	2.0	18	88	5	54	34	5	0	60	1.21
20264743--20264829	23	3.7	23	76	4	86	31	10	17	41	1.83
20265835--20265868	5	6.8	5	100	0	68	82	0	0	17	0.67
20270124--20270171	20	2.3	21	75	3	53	20	14	14	50	1.78
20270868--20271244	49	7.7	50	76	9	235	41	17	22	18	1.90
20270865--20271244	147	2.6	143	77	8	377	41	17	22	18	1.90
20272347--20272400	22	2.4	21	76	11	54	18	22	18	40	1.91
20273497--20273731	49	4.8	49	74	4	195	39	20	24	16	1.92
20273490--20273675	98	1.9	98	86	2	266	38	18	24	18	1.93
20273490--20273729	98	2.4	99	80	8	240	38	20	24	17	1.93
20274324--20274378	24	2.3	23	90	6	83	18	3	21	56	1.57
20275835--20275900	28	2.4	28	84	0	78	28	1	13	56	1.47
20279525--20279666	62	2.3	63	84	7	182	38	14	12	33	1.84
20280066--20280135	25	2.7	25	86	4	104	41	5	4	48	1.46
20282722--20282799	34	2.3	34	88	2	122	47	1	19	32	1.57
20296823--20296974	74	2.1	74	98	1	297	26	17	20	35	1.95
20303810--20303839	14	2.1	14	93	0	51	36	0	0	63	0.95
20305269--20305437	23	7.4	23	80	4	191	46	13	5	34	1.66
20305269--20305437	69	2.5	69	84	3	218	46	13	5	34	1.66
20309199--20309299	36	2.8	36	86	0	121	20	22	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20320931--20321067	36	3.8	36	91	0	229	19	24	18	37	1.93
20325436--20325466	7	4.4	7	100	0	62	0	41	0	58	0.98
20331194--20331297	28	3.7	28	88	2	147	24	21	24	30	1.99
20332064--20332110	20	2.4	20	85	3	60	36	6	14	42	1.72
20336882--20336951	28	2.5	28	93	4	115	20	17	27	35	1.94
20344742--20344874	20	6.6	20	77	4	99	41	20	18	19	1.91
20344753--20344843	13	6.8	13	72	14	78	40	21	18	18	1.91
20344742--20344843	40	2.5	40	82	6	118	42	21	18	17	1.90
20344847--20344898	27	1.9	27	92	0	86	38	23	17	21	1.93
20345877--20345999	23	5.3	23	81	1	138	47	14	3	34	1.60
20345883--20345999	46	2.5	46	80	0	153	47	13	3	35	1.60
20354881--20354935	21	2.6	21	85	5	67	29	14	23	32	1.94
20357384--20357423	9	4.4	9	90	0	62	45	0	37	17	1.49
20357901--20357957	22	2.6	21	83	10	69	57	5	1	35	1.31
20358461--20358485	13	1.9	13	100	0	50	40	0	0	60	0.97
20358968--20359003	18	1.9	18	88	5	54	72	13	2	11	1.23
20358961--20359048	41	2.1	43	87	8	128	64	12	3	19	1.41
20359201--20359292	23	4.1	23	79	4	91	56	27	7	8	1.57
20359233--20359307	23	3.3	23	86	3	98	56	25	9	9	1.61
20360801--20360902	53	1.9	53	84	6	134	29	1	7	60	1.36
20361139--20361291	57	2.6	58	81	10	168	49	13	13	24	1.76
20362565--20362625	30	2.0	30	100	0	122	40	9	3	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20370847--20370891	21	2.0	21	87	8	63	66	8	15	8	1.43
20371139--20371193	21	2.6	21	91	0	83	30	23	21	23	1.99
20379329--20379376	19	2.4	19	79	6	51	41	2	2	54	1.24
20385910--20385984	13	6.2	13	72	20	63	41	22	20	16	1.90
20385914--20385989	20	3.5	20	73	22	71	36	25	21	17	1.94
20385927--20385989	27	2.3	27	80	0	81	34	25	22	17	1.95
20386092--20386157	15	4.0	15	78	21	78	21	0	33	45	1.52
20386053--20386152	20	5.2	20	77	13	111	18	1	34	47	1.55
20386105--20386178	21	3.8	21	79	20	106	21	0	33	44	1.53
20386092--20386185	36	2.6	36	98	1	179	21	0	34	44	1.52
20388149--20388272	62	2.0	62	100	0	248	27	35	6	30	1.82
20392469--20392531	13	4.8	13	75	13	58	46	23	15	14	1.83
20392472--20392534	20	3.2	20	90	0	99	41	25	17	15	1.89
20392525--20392575	11	4.6	11	87	0	75	23	25	31	19	1.98
20392510--20392567	22	2.5	24	91	5	93	27	27	27	17	1.97
20392609--20392643	15	2.4	15	90	4	54	14	5	31	48	1.67
20392618--20392664	20	2.3	20	96	0	85	12	2	34	51	1.52
20392640--20392669	15	2.0	15	100	0	60	20	0	33	46	1.51
20393900--20393947	18	2.7	18	86	0	69	35	29	18	16	1.93
20397658--20397700	21	2.0	21	95	0	77	34	23	23	18	1.96
20397645--20397697	14	3.9	14	77	5	54	39	24	18	16	1.91
20397746--20397802	24	2.4	24	96	0	105	21	7	31	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20404445--20404485	20	2.0	21	90	4	66	39	24	19	17	1.92
20404543--20404592	21	2.4	21	96	0	91	10	4	36	50	1.55
20405841--20405917	30	2.5	30	97	2	145	22	38	0	38	1.54
20409007--20409083	36	2.1	36	82	0	91	40	22	9	28	1.84
20409830--20409872	21	2.0	22	81	4	52	37	11	18	32	1.87
20413830--20413900	25	2.8	24	76	16	65	38	0	33	28	1.57
20413968--20414014	18	2.7	18	74	6	53	31	2	14	51	1.55
20415029--20415085	29	1.9	30	89	3	89	26	3	12	57	1.50
20417032--20417195	30	5.6	30	79	12	146	39	26	1	33	1.64
20417036--20417195	29	5.4	29	78	10	139	39	25	1	33	1.64

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