genome.fa.s9.2.7.7.80.10.50.1000.105.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  105  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)
34168084--34168214	20	6.2	20	70	20	63	21	4	3	70	1.18
34177631--34177677	16	2.9	16	72	15	51	68	0	0	31	0.90
34184141--34184191	18	2.7	18	80	17	50	21	1	3	72	1.11
34192723--34192747	13	1.9	13	100	0	50	52	8	8	32	1.60
34194754--34194800	20	2.3	20	81	0	67	21	14	12	51	1.76
34198169--34198197	15	1.9	15	100	0	58	24	0	27	48	1.51
34204100--34204148	24	2.0	26	88	8	75	61	0	2	36	1.08
34213010--34213051	20	2.1	20	86	8	59	69	4	23	2	1.20
34213858--34213895	15	2.4	16	82	4	51	65	0	0	34	0.93
34213848--34213895	16	3.1	15	78	6	51	68	0	0	31	0.90
34214602--34214647	22	2.1	22	84	4	58	23	34	15	26	1.94
34217314--34217376	24	2.6	24	89	0	99	50	11	14	23	1.74
34225528--34225562	16	2.2	16	90	10	54	28	17	2	51	1.59
34225963--34226006	21	2.1	21	82	0	52	43	25	13	18	1.86
34226517--34226580	24	2.7	24	95	0	110	20	26	28	25	1.99
34227638--34227687	21	2.4	21	86	0	73	32	14	2	52	1.53
34230548--34230606	19	3.1	19	85	0	82	28	18	27	25	1.98
34230588--34230640	26	2.0	26	85	10	72	32	18	18	30	1.96
34233592--34234226	140	4.4	142	79	12	601	43	11	3	42	1.56
34233585--34234226	288	2.2	282	84	6	821	43	11	3	42	1.55
34234077--34234124	18	2.6	19	77	12	55	58	10	2	29	1.43
34234109--34234158	22	2.2	23	86	10	68	38	8	0	54	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34233977--34234226	136	1.8	136	84	5	333	44	10	3	40	1.57
34234647--34234712	3	22.0	3	90	6	107	65	0	3	31	1.08
34234735--34234759	11	2.3	11	100	0	50	76	0	24	0	0.80
34235155--34235319	42	3.9	42	82	0	195	36	21	16	24	1.94
34235719--34235771	9	5.5	10	80	17	60	7	9	0	83	0.83
34245012--34245385	51	7.5	51	66	16	129	44	9	2	43	1.48
34245205--34245249	21	2.2	21	88	4	65	53	2	0	44	1.13
34244868--34245497	155	4.3	147	81	10	658	44	9	2	43	1.50
34245921--34245951	3	10.3	3	100	0	62	64	0	0	35	0.94
34248973--34249036	28	2.3	28	81	8	76	20	14	21	43	1.87
34249071--34249127	22	2.6	22	86	5	71	14	28	24	33	1.94
34250957--34251101	72	2.0	72	100	0	290	33	4	17	44	1.68
34252169--34252219	11	4.4	12	75	9	61	45	0	1	52	1.12
34252169--34252219	6	8.8	6	78	8	61	45	0	1	52	1.12
34252169--34252215	17	2.8	17	93	0	85	44	0	2	53	1.12
34252220--34252249	14	2.1	14	93	0	51	50	20	6	23	1.71
34254002--34254207	29	7.0	29	76	9	152	38	23	0	36	1.62
34254002--34254208	59	3.5	59	82	9	244	38	23	0	36	1.62
34254575--34254764	96	2.0	97	83	7	244	27	18	14	38	1.91
34258736--34258784	25	2.0	25	100	0	98	40	6	8	44	1.59
34263389--34263447	13	4.6	13	73	12	59	42	16	22	18	1.89
34263389--34263447	19	3.1	18	77	18	66	42	16	22	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34263538--34263572	8	4.5	8	89	7	54	17	0	42	40	1.49
34263523--34263572	23	2.2	24	82	17	70	14	2	40	44	1.56
34263532--34263572	15	2.7	15	88	3	55	14	0	41	43	1.45
34263536--34263587	23	2.3	23	89	0	77	19	1	38	40	1.63
34267676--34267782	40	2.7	40	89	5	171	30	28	25	15	1.96
34267815--34268023	47	4.4	47	79	2	177	30	24	23	21	1.99
34267815--34268023	94	2.2	94	77	1	213	30	24	23	21	1.99
34270461--34270487	13	2.1	13	100	0	54	37	7	25	29	1.83
34271069--34271137	24	2.8	24	76	8	77	43	11	13	31	1.79
34271069--34271138	25	2.8	25	78	6	81	42	11	12	32	1.79
34274834--34274886	28	2.0	26	88	7	79	73	1	3	20	1.08
34275144--34275283	9	15.6	9	66	18	60	30	2	2	65	1.16
34275209--34275282	25	2.8	26	82	10	71	32	1	1	64	1.10
34275145--34275283	72	1.9	72	84	8	185	30	2	2	64	1.17
34279948--34279974	10	2.7	10	100	0	54	25	11	29	33	1.91
34293011--34293074	22	2.8	23	84	11	71	23	7	0	68	1.15
34293038--34293074	10	3.3	12	82	17	53	24	8	0	67	1.17
34294488--34294669	9	20.8	8	69	19	89	63	1	6	28	1.26
34294566--34294664	10	10.9	9	71	12	69	65	0	6	28	1.16
34294512--34294696	29	6.8	28	77	14	131	62	0	6	31	1.21
34294530--34294672	53	2.7	53	89	7	211	62	0	6	30	1.22
34294589--34294658	17	4.0	17	67	20	54	62	0	7	30	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34294488--34294669	19	10.4	16	69	19	89	63	1	6	28	1.26
34294672--34294704	17	1.9	17	88	11	50	63	0	0	36	0.95
34295485--34295538	25	2.2	25	86	6	74	40	0	1	57	1.09
34295548--34295616	9	7.7	9	71	12	52	27	4	2	65	1.26
34295540--34295620	18	4.6	18	70	11	60	32	3	2	61	1.26
34296139--34296192	27	2.0	27	96	0	99	42	3	12	40	1.61
34304721--34304765	21	2.1	21	100	0	90	73	4	8	13	1.23
34304721--34304775	21	2.6	19	91	5	65	72	3	10	12	1.24
34305578--34305620	19	2.3	19	84	8	52	58	4	0	37	1.19
34307101--34307145	22	2.1	21	83	4	54	42	4	24	28	1.74
34307971--34308145	51	3.5	50	91	0	251	33	14	22	29	1.94
34307965--34308196	102	2.3	100	82	5	261	32	15	23	29	1.95
34308776--34308832	21	2.5	24	86	8	75	28	5	28	38	1.78
34314040--34314177	66	2.1	66	98	1	269	28	10	28	32	1.90
34315321--34315526	101	2.1	98	80	9	220	33	14	22	29	1.93
34315494--34315608	58	2.0	58	79	6	126	34	13	22	29	1.92
34317847--34317888	21	2.0	21	81	9	50	42	0	7	50	1.30
34337985--34338043	25	2.3	26	88	2	84	23	15	28	32	1.95
34338008--34338061	26	2.1	26	82	0	63	24	22	24	29	1.99
34348870--34348897	6	4.7	6	100	0	56	85	0	14	0	0.59
34349006--34349063	29	2.0	29	100	0	116	37	24	3	34	1.72
34356021--34356079	29	2.0	29	86	0	82	22	23	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34356463--34356570	37	2.9	37	84	4	137	29	19	9	41	1.82
34360104--34360475	79	4.7	79	83	3	451	23	17	25	33	1.96
34371851--34371921	26	2.8	25	85	4	106	32	28	4	35	1.76
34377347--34377756	177	2.3	179	86	4	567	25	25	7	41	1.80
34392180--34392234	23	2.4	23	90	0	92	30	9	18	41	1.81
34392295--34392347	21	2.6	19	77	16	52	30	11	24	33	1.90
34393667--34393772	25	4.2	25	85	0	140	33	18	16	30	1.94
34395757--34395803	18	2.6	18	89	3	67	23	17	27	31	1.96
34396501--34396540	21	1.9	21	84	0	53	25	12	27	35	1.92
34396525--34396573	21	2.3	21	75	0	53	32	16	22	28	1.95
34401348--34401388	20	2.1	20	95	4	75	26	21	4	46	1.72
34410228--34410284	21	2.5	22	83	8	62	35	33	8	22	1.85
34410861--34411206	52	6.7	52	85	3	412	33	24	14	28	1.94
34411333--34411372	17	2.4	16	84	12	53	40	5	5	50	1.46
34412103--34412154	19	2.8	18	85	8	68	50	1	7	40	1.42
34413283--34413417	29	4.7	28	72	12	94	34	29	2	33	1.70
34413398--34413499	30	3.4	29	70	14	84	34	27	1	36	1.68
34413311--34413676	58	6.2	60	84	4	378	33	26	2	37	1.70
34413546--34413646	30	3.6	27	75	14	89	34	24	0	39	1.62
34413546--34413652	29	3.7	28	74	13	92	34	27	0	37	1.63
34417012--34417043	15	2.1	16	94	5	57	62	0	6	31	1.20
34418107--34418171	7	9.6	7	81	6	71	32	23	23	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34418107--34418171	20	3.2	20	82	2	76	32	23	23	21	1.98
34418107--34418178	27	2.7	27	80	8	92	33	22	22	22	1.97
34423807--34424047	52	4.7	52	88	4	337	32	24	15	27	1.95
34425386--34425437	21	2.5	21	81	6	61	28	13	26	30	1.94
34431899--34431976	21	3.7	21	71	0	75	30	16	21	30	1.96
34434474--34434512	19	2.1	19	85	9	53	51	12	2	33	1.54
34440657--34440707	18	2.8	19	77	16	54	62	0	0	37	0.95
34440681--34440713	17	1.9	17	93	0	57	54	0	0	45	0.99
34441147--34441304	79	2.0	79	94	0	280	29	19	17	34	1.94
34443376--34443613	30	7.9	29	81	5	215	39	3	20	36	1.70

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