genome.fa.s2.2.7.7.80.10.50.1000.17.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  17  of  135  ( 16151 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)
4639259--4639333	6	13.6	5	78	10	51	58	0	1	40	1.06
4639259--4639334	11	6.8	11	77	8	73	57	0	1	40	1.07
4639639--4639802	52	3.4	51	71	23	172	31	15	16	37	1.90
4639585--4640138	92	6.0	92	91	2	704	29	16	18	35	1.93
4639571--4640138	277	2.1	276	83	4	714	29	16	19	35	1.93
4652254--4652313	28	2.1	28	84	6	77	28	11	25	35	1.91
4652418--4652609	30	6.4	30	80	8	162	36	2	23	37	1.69
4652354--4652550	59	3.3	57	80	9	198	37	3	26	32	1.72
4652401--4652609	59	3.5	58	82	6	217	35	2	24	37	1.69
4652449--4652624	30	5.9	29	83	3	163	35	2	25	36	1.71
4653804--4653838	18	1.9	18	94	0	61	37	14	2	45	1.59
4653755--4653815	3	20.3	3	100	0	122	34	0	0	65	0.93
4653875--4653909	12	2.8	12	95	4	61	37	0	0	62	0.95
4654433--4654466	17	2.1	16	89	10	52	29	17	23	29	1.97
4654563--4654652	6	15.8	6	75	13	57	58	0	1	40	1.05
4654564--4654661	17	5.8	16	80	9	106	58	1	1	39	1.12
4654580--4654655	11	6.8	11	77	8	73	57	0	1	40	1.07
4654910--4654987	33	2.3	35	80	10	101	33	0	11	55	1.36
4654910--4654999	33	2.8	32	78	13	87	31	0	13	55	1.38
4656231--4656260	14	2.1	14	93	0	51	63	16	0	20	1.31
4656589--4656622	18	1.9	17	88	5	50	52	2	0	44	1.16
4657274--4657303	6	5.0	6	100	0	60	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4657266--4657303	18	2.1	18	90	0	58	15	5	0	78	0.91
4659433--4659474	17	2.4	17	92	4	66	21	19	2	57	1.52
4663257--4663377	31	4.1	31	74	15	121	28	11	9	51	1.68
4663245--4663435	89	2.1	89	80	5	208	25	13	11	50	1.74
4663585--4663751	60	2.8	59	79	6	156	54	8	13	23	1.66
4663936--4663960	13	1.9	13	100	0	50	48	0	8	44	1.32
4664695--4664736	17	2.5	17	84	7	59	57	0	2	40	1.12
4664684--4664734	20	2.6	19	84	9	59	56	0	3	39	1.18
4664684--4664739	23	2.7	19	75	21	58	55	0	5	39	1.23
4665133--4665169	2	18.5	2	100	0	74	51	0	0	48	1.00
4672840--4672969	57	2.3	59	82	6	151	29	16	10	43	1.81
4675448--4675504	28	2.1	28	83	9	73	54	1	0	43	1.10
4690774--4690805	15	2.0	17	88	11	50	0	18	6	75	1.01
4695820--4695857	3	12.7	3	100	0	76	34	0	0	65	0.93
4698079--4698104	3	8.7	3	100	0	52	34	0	0	65	0.93
4698678--4698731	9	5.8	9	80	10	56	22	5	0	72	1.05
4698678--4698731	28	1.9	28	85	7	74	22	5	0	72	1.05
4698682--4698731	19	2.6	19	87	9	66	20	6	0	74	1.03
4701185--4701222	20	1.9	20	88	0	58	44	5	18	31	1.72
4708690--4708768	38	2.1	38	85	2	106	29	21	10	39	1.86
4711472--4711515	14	3.1	14	83	0	61	45	0	0	54	0.99
4712678--4712724	25	1.9	24	86	4	67	48	2	0	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4717421--4717792	117	3.2	117	86	3	507	32	5	30	31	1.81
4717421--4717792	59	6.4	59	85	1	489	32	5	30	31	1.81
4717526--4717822	29	10.1	29	65	14	110	32	5	28	32	1.81
4717910--4718233	163	2.0	162	83	6	415	45	13	15	25	1.83
4719900--4719941	6	7.0	6	82	17	52	50	0	2	47	1.14
4719909--4719951	11	3.8	11	84	3	50	53	2	2	41	1.26
4720240--4720742	68	7.4	68	79	10	491	26	19	17	36	1.94
4720305--4720773	33	14.0	33	73	13	377	25	19	18	36	1.94
4720373--4720773	101	4.0	101	91	3	598	25	19	17	36	1.94
4720277--4720773	202	2.4	199	82	10	619	25	19	17	36	1.94
4732702--4733310	59	10.4	59	88	1	823	34	5	28	31	1.80
4733222--4733340	31	3.9	31	75	17	117	36	4	26	33	1.76
4733232--4733340	30	3.6	30	73	20	111	35	3	26	33	1.74
4733428--4733751	163	2.0	162	85	6	442	45	13	15	25	1.83
4735420--4735461	6	7.0	6	82	17	52	50	0	2	47	1.14
4735429--4735471	11	3.8	11	84	3	50	53	2	2	41	1.26
4737330--4737368	20	1.9	20	84	5	51	7	7	12	71	1.29
4737688--4737818	58	2.3	57	77	4	138	37	10	15	36	1.82
4739324--4739409	19	4.3	19	82	14	95	37	0	4	58	1.19
4739324--4739409	20	4.3	20	82	11	97	37	0	4	58	1.19
4753034--4753096	26	2.4	26	91	0	99	39	11	25	23	1.88
4753438--4753470	16	2.1	16	100	0	66	57	12	0	30	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4753541--4753573	15	2.2	15	94	0	57	63	0	15	21	1.30
4756351--4756389	16	2.4	16	87	8	53	53	10	5	30	1.56
4760407--4760459	12	4.4	12	82	0	61	3	15	7	73	1.20
4764495--4764618	62	2.0	62	100	0	248	32	20	12	33	1.91
4769439--4769478	21	1.9	22	90	10	66	50	0	0	50	1.00
4769906--4769952	24	1.9	25	82	4	60	63	4	4	27	1.31
4770200--4770261	29	2.1	29	84	0	79	25	9	6	58	1.54
4772113--4772151	21	2.0	20	85	10	53	53	0	2	43	1.14
4772387--4772425	18	2.2	18	90	0	60	64	0	5	30	1.15
4775285--4775343	25	2.4	24	75	13	57	44	6	13	35	1.71
4777682--4777731	22	2.5	20	78	15	57	10	8	18	64	1.48
4777713--4777844	23	6.2	21	73	18	87	12	5	13	68	1.36
4777701--4777844	64	2.2	64	96	0	252	11	5	15	68	1.38
4777736--4777835	19	4.9	19	75	13	83	11	6	15	68	1.38
4777710--4777813	33	3.2	33	70	10	115	12	6	12	68	1.39
4777859--4777900	21	2.0	21	90	0	66	7	7	16	69	1.34
4777829--4777913	33	2.5	33	80	3	98	5	5	20	68	1.32
4777847--4777919	12	6.3	12	70	9	53	6	5	19	68	1.33
4779447--4779516	31	2.4	28	76	9	70	30	7	10	52	1.61
4780433--4780484	23	2.2	22	80	12	59	13	1	46	38	1.54
4810879--4810914	18	2.0	18	88	0	54	27	0	2	69	1.02
4813003--4813150	23	6.3	23	88	6	226	12	22	22	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4813003--4813200	71	2.8	69	85	9	235	12	23	21	42	1.86
4813003--4813200	23	8.5	23	82	9	204	12	23	21	42	1.86
4815708--4815787	31	2.6	31	85	0	97	43	11	16	28	1.82
4816301--4816355	18	3.4	18	67	27	59	23	21	14	40	1.90
4816283--4816361	30	2.6	30	93	0	131	25	26	16	31	1.96
4818604--4818634	10	3.0	10	95	4	53	38	19	0	41	1.51
4820122--4820252	71	1.9	70	82	4	167	23	20	8	47	1.77
4831284--4831526	59	4.2	59	87	5	325	37	2	25	35	1.68
4831289--4831511	117	1.9	117	88	1	340	36	2	25	35	1.69
4831309--4831622	29	10.8	29	69	18	134	37	1	22	37	1.66
4831500--4831699	30	6.9	29	69	8	120	38	3	20	39	1.68
4831566--4831683	60	2.0	60	88	3	175	38	3	18	39	1.68
4834233--4834267	18	1.9	18	88	0	52	14	8	11	65	1.46
4838572--4838603	3	10.7	3	100	0	64	68	0	0	31	0.90
4843013--4843067	24	2.3	24	87	0	74	27	14	9	49	1.73
4844173--4844256	34	2.5	34	96	0	150	55	8	1	34	1.37
4846208--4846256	21	2.3	22	85	3	64	20	14	36	28	1.92
4849279--4849343	24	2.8	23	72	4	67	52	6	1	40	1.36
4849279--4849351	24	3.1	23	72	5	65	50	5	1	42	1.34
4851724--4851753	2	15.0	2	100	0	60	50	0	0	50	1.00
4855088--4855274	51	3.6	51	85	2	223	27	24	14	33	1.94
4857125--4857160	16	2.2	17	90	5	56	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4858299--4858325	12	2.2	12	100	0	54	33	7	44	14	1.73
4860213--4860323	55	2.0	55	100	0	222	27	22	21	28	1.99
4864038--4864063	2	13.0	2	100	0	52	50	0	0	50	1.00
4864536--4864594	18	3.3	18	76	21	61	23	0	1	74	0.91
4864541--4864577	6	5.8	6	87	12	56	21	0	0	78	0.75
4867788--4867825	20	1.9	20	88	0	58	34	2	28	34	1.71
4867797--4867836	20	2.0	20	90	0	62	32	0	30	37	1.58
4867805--4868097	29	10.0	29	79	6	259	33	2	25	38	1.68
4867805--4868076	30	9.3	30	81	5	279	33	1	25	39	1.66
4867805--4868097	59	5.0	59	84	4	351	33	2	25	38	1.68

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