genome.fa.s4.2.7.7.80.10.50.1000.125.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  125  of  193  ( 23090 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)
39517110--39517178	35	1.9	36	82	8	88	52	7	1	39	1.38
39519237--39519278	23	2.0	22	82	17	54	57	0	0	42	0.99
39520503--39520530	3	9.3	3	100	0	56	67	0	0	32	0.91
39521283--39521344	31	2.0	32	93	3	108	33	8	4	53	1.52
39523077--39523196	37	3.0	41	65	20	117	24	10	10	55	1.65
39523038--39523196	79	2.0	80	92	1	266	20	10	10	58	1.60
39524329--39524624	130	2.3	130	95	1	524	51	8	10	29	1.65
39525173--39525590	208	2.0	207	99	0	827	37	14	8	39	1.76
39531973--39532021	10	4.8	10	83	11	64	32	0	0	67	0.91
39531973--39532021	21	2.4	20	93	3	80	32	0	0	67	0.91
39532070--39532123	27	2.0	26	82	10	65	24	0	12	62	1.30
39533088--39533121	17	1.9	17	88	5	50	67	2	2	26	1.19
39564041--39564234	53	3.6	53	87	0	289	25	15	23	34	1.95
39566792--39566864	32	2.3	32	97	0	137	6	34	2	56	1.40
39567091--39567162	21	3.4	21	86	0	99	40	23	15	20	1.91
39570863--39570895	8	4.1	8	88	11	50	0	12	3	84	0.72
39574519--39574710	52	3.7	52	86	5	246	28	15	25	31	1.95
39575285--39575362	21	3.6	21	91	5	111	25	5	32	37	1.78
39576890--39576981	19	4.9	19	82	2	114	23	29	18	28	1.98
39576898--39576998	37	2.7	37	79	1	112	26	27	19	25	1.99
39582593--39582647	21	2.6	21	97	0	101	25	23	9	41	1.83
39584896--39584935	21	1.9	21	94	0	71	37	25	15	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39590643--39590682	20	1.9	22	90	10	66	65	5	12	17	1.44
39590868--39590913	20	2.3	20	100	0	92	47	13	8	30	1.72
39591046--39591072	14	1.9	14	100	0	54	29	18	14	37	1.91
39595443--39595661	109	2.0	109	98	0	420	30	14	18	37	1.90
39607631--39607889	30	8.7	30	77	7	237	36	1	22	39	1.65
39608310--39608378	22	3.1	22	89	0	102	13	36	27	23	1.92
39612435--39612759	59	5.5	57	79	10	316	39	0	23	36	1.61
39612435--39612759	29	11.1	29	79	10	331	39	0	23	36	1.61
39614269--39614301	14	2.3	15	89	5	50	21	9	21	48	1.77
39618259--39618372	27	4.3	26	77	5	106	32	23	18	25	1.97
39623764--39623841	26	3.0	26	78	12	79	29	24	21	24	1.99
39629818--39629962	47	3.2	47	69	15	158	48	22	2	26	1.63
39629782--39629968	90	2.1	88	93	3	322	48	24	2	24	1.64
39633015--39633052	20	1.9	20	94	0	67	23	10	10	55	1.65
39635505--39635563	31	1.9	31	89	6	93	32	10	10	47	1.71
39641425--39641475	21	2.5	20	81	9	57	54	1	9	33	1.44
39642673--39642697	13	1.9	13	100	0	50	4	16	8	72	1.24
39642891--39642938	21	2.4	21	86	6	64	27	0	27	45	1.54
39644475--39644499	5	5.0	5	100	0	50	60	0	0	40	0.97
39647917--39647963	12	3.8	12	78	10	58	44	0	4	51	1.21
39647897--39647968	26	2.8	26	95	2	128	45	0	4	50	1.21
39648756--39648850	31	3.2	31	70	22	94	29	17	8	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39648754--39648924	59	2.9	58	81	9	202	25	15	11	47	1.79
39649047--39649237	89	2.1	89	81	1	213	44	13	16	25	1.84
39653276--39653344	2	34.5	2	100	0	138	50	0	49	0	1.00
39655254--39655303	25	2.0	24	85	11	66	10	0	20	70	1.16
39656853--39656999	23	6.3	23	78	12	117	40	19	26	13	1.89
39656938--39657015	23	3.4	23	85	0	111	42	19	24	14	1.88
39660292--39660455	83	2.0	83	82	0	202	32	6	14	46	1.70
39661709--39662105	29	13.7	28	68	17	177	36	1	23	38	1.65
39661710--39662104	57	6.8	58	82	8	423	35	1	24	38	1.65
39661768--39662104	116	2.9	116	87	6	452	35	1	24	38	1.63
39661860--39662121	30	9.0	30	75	13	100	36	1	23	37	1.66
39662294--39662368	33	2.3	33	95	0	132	57	10	12	20	1.64
39663203--39663264	6	10.3	6	77	6	54	38	0	0	61	0.96
39663203--39663264	9	6.9	9	74	7	54	38	0	0	61	0.96
39663212--39663264	15	3.5	15	80	14	56	41	0	0	58	0.98
39663205--39663272	33	2.1	33	86	5	93	39	1	0	58	1.07
39663917--39664295	173	2.2	173	87	0	526	20	22	19	36	1.95
39664358--39664628	125	2.2	125	87	3	395	21	22	19	36	1.95
39664146--39664831	334	2.1	334	90	1	1097	22	22	18	36	1.95
39664491--39665008	209	2.5	209	86	0	705	23	21	17	36	1.94
39665485--39665857	50	7.7	50	74	11	292	15	30	18	36	1.91
39665485--39665740	101	2.5	99	77	8	300	15	30	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39666793--39666836	13	3.2	15	81	12	51	4	13	0	81	0.83
39666783--39666830	10	4.8	10	87	5	62	2	18	0	79	0.84
39666803--39666850	19	2.7	18	84	15	57	8	10	0	81	0.88
39666777--39666850	10	8.0	9	76	7	60	5	14	0	79	0.90
39671540--39671839	29	10.2	29	75	12	179	34	2	25	37	1.69
39671634--39671839	59	3.5	58	80	5	200	35	2	24	36	1.71
39671585--39671839	58	4.4	58	79	5	203	35	2	23	38	1.68
39672895--39672946	18	2.9	18	82	0	59	34	0	1	63	1.06
39673594--39673683	17	5.4	17	90	5	130	53	1	1	44	1.15
39673594--39673683	6	16.0	6	79	15	95	53	1	1	44	1.15
39673612--39673683	11	6.4	12	85	9	73	55	1	0	43	1.08
39673612--39673683	22	2.8	27	84	14	82	55	1	0	43	1.08
39673709--39673761	25	2.1	25	100	0	106	52	20	11	15	1.72
39677460--39677535	31	2.5	31	86	4	109	25	17	11	46	1.82
39677714--39677867	31	5.2	31	64	23	96	42	10	22	24	1.84
39677701--39677867	60	2.8	59	83	6	221	44	10	20	25	1.82
39684166--39684283	33	3.8	32	77	8	109	50	10	15	24	1.75
39684184--39684283	33	3.1	33	78	17	113	52	10	16	22	1.73
39691507--39691537	15	2.0	16	93	6	55	25	0	3	70	1.02
39702092--39702168	10	7.5	10	73	16	59	5	6	18	70	1.28
39702092--39702192	22	4.9	22	75	11	81	6	6	18	67	1.37
39702191--39702229	12	3.3	12	85	3	53	5	7	20	66	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39702191--39702238	21	2.2	22	81	7	53	8	6	18	66	1.39
39702202--39702298	43	2.2	44	81	1	106	9	4	20	65	1.37
39702209--39702272	31	2.1	30	82	11	76	7	6	21	64	1.43
39702416--39702470	22	2.6	21	80	5	65	25	0	9	65	1.22
39702416--39702460	12	4.1	11	80	11	56	22	0	8	68	1.16
39711920--39711958	3	13.0	3	94	0	69	66	2	0	30	1.05
39715324--39715359	18	2.1	18	89	5	56	41	0	25	33	1.55
39715653--39715689	18	2.1	18	89	0	56	48	0	27	24	1.51
39718974--39719033	21	2.8	22	85	7	70	15	11	1	71	1.22
39720385--39720413	13	2.2	13	100	0	58	65	13	0	20	1.26
39720700--39720761	30	2.1	30	87	6	90	45	0	1	53	1.10
39727412--39727444	5	6.6	5	100	0	66	39	18	0	42	1.50
39730895--39731218	165	2.0	165	98	0	621	36	16	17	29	1.92
39744609--39744665	27	2.2	26	87	9	82	68	8	0	22	1.17
39744608--39744665	26	2.3	23	83	13	71	67	8	0	24	1.18
39745449--39745480	2	16.0	2	100	0	64	50	0	0	50	1.00
39746288--39746382	45	2.1	47	86	9	135	52	14	0	32	1.42
39748344--39748368	2	12.5	2	100	0	50	48	0	0	52	1.00
39763909--39763971	23	2.7	24	82	7	76	26	12	15	44	1.83
39763994--39764058	27	2.4	27	78	0	67	55	10	9	24	1.63
39770357--39770396	6	6.7	6	85	0	53	80	0	15	5	0.88
39775168--39775205	19	2.0	20	89	5	60	26	26	0	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39775230--39775264	5	6.8	5	93	3	52	14	60	0	25	1.35
39778112--39778277	21	7.9	21	78	1	109	22	6	46	25	1.74
39778112--39778277	42	4.0	42	78	6	156	22	6	46	25	1.74
39778091--39778251	84	1.9	84	83	0	205	21	8	46	23	1.78
39778112--39778269	63	2.5	63	77	0	172	22	5	47	24	1.73
39778223--39778311	21	4.2	21	81	5	92	19	8	43	28	1.80
39778223--39778317	42	2.3	42	83	3	111	21	9	41	28	1.84
39778280--39778410	63	2.1	63	83	0	163	22	9	40	26	1.85
39778286--39778407	42	2.9	42	76	4	129	22	10	40	27	1.86
39778280--39778410	21	6.2	21	80	0	100	22	9	40	26	1.85

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   183   184   185   186   187   188   189   190   191   192   
          193