genome.fa.s8.2.7.7.80.10.50.1000.12.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   

This is table  12  of  163  ( 19493 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)
3445072--3445295	39	5.8	38	71	6	153	26	20	29	23	1.99
3444996--3445344	78	4.5	78	81	2	328	28	19	27	24	1.98
3445639--3446795	49	23.7	50	70	12	556	17	27	18	36	1.93
3445604--3446145	99	5.6	99	85	5	689	16	27	18	36	1.93
3445855--3446131	89	3.0	91	88	5	396	15	28	20	35	1.93
3445604--3446129	188	2.7	190	85	4	695	16	27	19	36	1.93
3445954--3446255	99	3.1	99	84	5	355	16	27	19	36	1.93
3445971--3446795	98	8.4	98	87	3	948	17	26	18	37	1.93
3445962--3446801	49	17.1	49	74	6	678	17	26	18	37	1.93
3452757--3452932	30	6.0	29	79	14	182	33	3	28	34	1.74
3452737--3452940	59	3.5	59	89	2	302	34	3	27	33	1.75
3452767--3452940	29	6.0	29	80	14	180	33	2	28	35	1.72
3452854--3453039	99	1.9	100	84	7	254	37	2	23	37	1.69
3452952--3453133	30	6.1	30	80	6	172	35	1	22	40	1.64
3454734--3454846	29	4.0	28	82	11	131	54	7	0	37	1.34
3454734--3454847	57	2.0	58	84	8	153	55	7	0	36	1.33
3454775--3454841	17	4.2	17	72	18	63	58	5	0	35	1.23
3458109--3458176	20	3.6	19	72	22	63	66	1	0	32	1.01
3463603--3463654	19	2.8	17	76	23	52	38	0	0	61	0.96
3464383--3464438	27	2.1	27	86	0	76	26	1	1	69	1.08
3470314--3470350	18	2.1	18	100	0	74	45	0	0	54	1.00
3471051--3471084	17	2.0	17	88	0	50	76	5	2	14	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477648--3477714	31	2.1	32	88	2	100	29	10	14	44	1.79
3477968--3478020	26	2.0	27	89	10	83	41	7	5	45	1.56
3488426--3488480	25	2.2	26	78	15	62	21	1	18	58	1.49
3496626--3496664	21	2.0	18	85	14	51	64	0	2	33	1.08
3503551--3503595	24	1.9	23	82	13	56	53	0	4	42	1.21
3507637--3507674	20	1.9	20	94	0	67	44	10	13	31	1.77
3512930--3512972	17	2.6	17	77	3	52	32	0	0	67	0.91
3522971--3523262	59	5.0	58	80	9	224	35	7	28	28	1.85
3523008--3523158	30	5.2	28	69	15	101	33	7	30	27	1.86
3523008--3523262	59	4.4	59	88	2	354	35	7	27	29	1.84
3523007--3523262	117	2.2	117	87	2	354	35	7	27	29	1.85
3523008--3523295	29	9.9	29	69	9	149	35	6	27	30	1.82
3523008--3523295	59	4.9	58	84	8	261	35	6	27	30	1.82
3523007--3523295	117	2.5	115	83	6	323	35	6	26	30	1.83
3523216--3523320	30	3.6	29	82	6	122	36	1	23	38	1.66
3523418--3523743	163	2.0	162	88	1	483	46	12	15	25	1.81
3523464--3523815	162	2.2	161	80	5	388	48	12	15	23	1.78
3525125--3525177	14	3.9	14	80	4	65	15	16	30	37	1.90
3525270--3525389	6	20.2	6	73	13	88	48	2	0	49	1.14
3525302--3525389	17	5.4	17	78	10	85	53	3	0	43	1.17
3542466--3542556	45	2.1	43	83	4	110	50	5	5	38	1.49
3546022--3546136	42	2.7	42	83	2	133	28	17	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546043--3546159	42	2.8	42	82	3	137	26	17	17	38	1.92
3546100--3546187	43	2.1	40	83	10	106	22	20	19	37	1.94
3553397--3553625	43	5.4	43	81	3	239	25	19	25	29	1.98
3553427--3553625	85	2.3	85	84	1	256	27	19	24	28	1.99
3553732--3553782	24	2.1	24	82	13	61	62	1	0	35	1.06
3560819--3560878	29	2.0	30	90	3	95	43	1	35	20	1.62
3562318--3562377	28	2.1	28	87	6	86	26	13	30	30	1.94
3562363--3562466	30	3.5	30	69	21	83	35	4	27	31	1.78
3562375--3562468	29	3.2	28	68	24	77	32	4	30	31	1.77
3562364--3562674	59	5.3	59	87	2	410	34	3	28	33	1.75
3562478--3562643	30	5.6	30	68	21	107	35	3	25	34	1.74
3562357--3562673	119	2.7	119	86	1	440	34	4	29	32	1.76
3564744--3564785	17	2.3	17	88	12	57	57	0	2	40	1.12
3570044--3570232	97	1.9	97	86	4	265	38	13	17	30	1.89
3570059--3570255	97	2.0	95	80	8	211	39	12	17	30	1.87
3570501--3570633	59	2.3	59	84	5	162	34	4	24	36	1.76
3570553--3570665	30	3.8	29	78	14	124	34	2	26	36	1.71
3572295--3572328	17	2.0	18	88	11	54	47	0	8	44	1.34
3577193--3577231	20	1.9	21	84	5	53	64	12	0	23	1.28
3578235--3578325	43	2.1	44	87	4	130	49	1	6	42	1.36
3583655--3583714	30	2.0	28	81	15	68	60	3	0	36	1.14
3591751--3591780	14	2.1	14	93	0	51	63	0	10	26	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3591775--3591811	18	2.1	19	85	10	51	51	0	2	45	1.15
3593988--3594034	25	1.9	24	82	4	58	51	17	17	14	1.77
3603397--3603441	22	2.1	22	91	4	74	40	0	6	53	1.27
3607125--3607164	15	2.5	17	84	8	57	65	0	0	35	0.93
3610673--3610764	29	3.1	30	81	6	107	33	19	1	45	1.58
3610673--3610765	30	3.1	29	80	10	107	33	20	1	45	1.58
3610746--3610971	29	7.7	29	65	23	107	32	26	4	36	1.77
3610718--3611029	59	5.3	58	80	9	310	33	25	3	37	1.74
3610756--3610915	30	5.4	30	70	24	108	30	28	6	35	1.82
3610718--3611024	118	2.6	117	79	8	345	33	24	3	38	1.73
3610776--3610928	29	5.2	29	73	21	131	32	26	5	35	1.79
3611130--3611161	16	2.1	16	94	5	57	9	12	12	65	1.47
3615856--3615894	9	4.3	9	86	0	51	82	0	17	0	0.68
3616668--3616742	5	15.0	5	76	15	50	81	2	13	2	0.91
3616668--3616741	25	3.1	24	75	22	75	82	2	12	2	0.88
3616668--3616742	26	2.9	25	81	13	82	81	2	13	2	0.91
3616693--3616741	21	2.5	19	86	6	71	83	4	10	2	0.85
3618440--3619150	200	3.5	200	88	2	1041	36	21	22	19	1.96
3619417--3619453	17	2.2	17	90	0	56	59	2	0	37	1.12
3619447--3619492	19	2.4	19	89	7	67	58	13	4	23	1.52
3620297--3620329	15	2.2	15	94	0	57	51	0	3	45	1.16
3621476--3621550	30	2.5	31	78	6	84	40	10	1	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3621507--3621871	59	6.2	58	83	6	380	33	24	3	38	1.71
3621594--3621743	29	5.1	28	68	26	80	34	28	4	33	1.76
3621536--3621806	117	2.3	117	88	3	402	34	27	2	35	1.72
3621634--3621789	30	5.3	29	66	21	76	31	30	3	35	1.74
3621542--3621878	176	1.9	176	82	4	421	32	27	3	36	1.75
3625750--3625775	12	2.2	12	100	0	52	42	7	0	50	1.31
3625874--3625919	13	3.4	13	81	6	56	39	0	0	60	0.97
3632691--3632727	11	3.4	11	92	0	56	5	8	5	81	0.99
3633316--3633367	21	2.5	20	79	14	61	23	15	23	38	1.92
3639294--3639350	29	2.0	28	83	10	71	49	0	7	43	1.29
3640245--3640289	19	2.4	19	81	7	56	37	0	4	57	1.19
3641090--3641124	16	2.2	16	100	0	70	11	5	5	77	1.12
3642311--3642454	52	2.8	52	83	2	164	27	17	24	30	1.97
3642940--3642987	23	2.1	24	84	7	64	31	6	16	45	1.72
3648575--3648619	23	2.0	23	82	8	56	11	22	20	46	1.81
3648614--3648716	45	2.3	45	86	3	136	12	22	28	36	1.91
3648614--3648716	22	4.6	22	87	3	134	12	22	28	36	1.91
3651609--3651642	18	1.9	17	94	5	59	55	5	35	2	1.39
3651877--3652003	52	2.4	52	85	0	173	26	14	25	33	1.95
3652211--3652240	15	2.0	15	93	0	51	36	6	20	36	1.79
3652179--3652235	24	2.4	23	73	18	55	33	3	22	40	1.71
3652179--3652236	22	2.5	22	72	27	57	34	3	22	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3652555--3652602	23	2.1	24	84	7	64	31	6	16	45	1.72
3655318--3655507	29	6.5	29	86	8	235	35	2	24	37	1.68
3655258--3655507	58	4.4	57	83	8	253	33	3	26	36	1.74
3655317--3655507	87	2.2	87	85	2	267	35	2	24	37	1.70
3655317--3655507	30	6.6	29	85	7	208	35	2	24	37	1.70
3656489--3656547	21	2.8	21	82	7	66	49	3	0	47	1.18
3656494--3656571	19	4.2	18	73	5	57	51	5	0	43	1.24
3656492--3656547	19	2.8	21	78	10	62	50	3	0	46	1.19
3659159--3659198	15	2.6	15	85	14	55	10	12	0	77	0.99
3660124--3660184	5	10.8	5	81	13	59	75	1	3	19	1.03

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