genome.fa.s2.2.7.7.80.10.50.1000.18.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  18  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)
4869093--4869129	19	1.9	19	88	0	56	8	13	2	75	1.13
4869984--4870056	17	4.3	17	85	3	94	54	2	1	41	1.23
4870988--4871078	17	5.4	17	82	4	121	38	0	5	56	1.23
4871016--4871078	6	11.0	6	75	10	60	39	0	4	55	1.21
4871022--4871076	11	4.9	11	80	8	58	36	0	5	58	1.21
4871020--4871077	23	2.5	23	83	10	66	39	0	5	55	1.22
4872884--4873102	29	7.5	29	68	14	110	38	24	0	36	1.62
4872884--4873138	117	2.2	117	82	5	300	36	24	1	36	1.65
4872884--4873151	59	4.6	59	77	11	223	37	24	2	35	1.68
4876184--4876220	18	2.1	18	94	0	65	51	0	24	24	1.49
4876184--4876220	12	3.1	12	84	0	56	51	0	24	24	1.49
4877573--4877645	33	2.2	33	87	4	103	30	17	17	34	1.94
4880148--4880202	13	4.2	14	79	9	55	34	16	5	43	1.71
4882315--4882373	17	3.6	16	74	19	50	42	3	1	52	1.28
4883713--4883745	16	2.0	17	94	5	59	60	0	0	39	0.97
4885584--4885636	19	2.8	18	75	11	52	15	3	3	77	1.06
4885807--4885842	14	2.6	14	90	0	54	47	8	0	44	1.33
4885807--4885904	39	2.4	41	79	5	101	48	8	2	40	1.44
4887372--4887407	17	2.1	18	89	5	56	38	8	5	47	1.57
4890729--4890826	43	2.3	43	85	3	126	25	17	27	29	1.97
4894181--4894225	19	2.3	20	84	3	56	46	2	2	48	1.26
4897480--4897547	23	2.9	23	77	2	73	41	19	13	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4899154--4899190	5	7.8	5	96	3	60	0	13	0	86	0.57
4900083--4900127	23	2.0	24	86	8	67	51	8	0	40	1.33
4901760--4901832	31	2.3	33	75	13	82	43	4	2	49	1.36
4903824--4903869	23	2.0	23	83	8	58	21	19	23	34	1.96
4912538--4912586	20	2.6	19	80	6	55	53	4	4	38	1.39
4917029--4917062	3	11.3	3	100	0	68	32	0	0	67	0.91
4917332--4917395	31	2.1	31	96	0	119	34	4	6	54	1.46
4929743--4929767	2	12.5	2	100	0	50	52	0	0	48	1.00
4934531--4934589	23	2.6	23	91	2	93	45	22	23	8	1.79
4937540--4937573	15	2.4	14	90	9	52	38	0	0	61	0.96
4940748--4940814	32	2.1	31	83	8	82	26	2	4	65	1.26
4943645--4943677	14	2.3	15	89	5	50	45	0	0	54	0.99
4948080--4948120	22	1.9	21	85	5	55	60	24	4	9	1.47
4952002--4952052	21	2.4	21	86	0	75	47	13	11	27	1.78
4955918--4955976	3	19.7	3	79	10	59	33	0	0	66	0.92
4955911--4955980	19	3.3	21	71	18	65	30	0	0	70	0.88
4955918--4955976	8	7.6	8	82	17	56	33	0	0	66	0.92
4958331--4958377	19	2.4	21	73	20	57	36	0	10	53	1.36
4959380--4959418	13	2.8	14	92	7	62	20	2	2	74	1.06
4959943--4960038	44	2.2	44	84	3	122	65	19	5	9	1.40
4959944--4960047	20	4.7	23	73	14	69	66	20	5	7	1.38
4960002--4960062	12	5.1	12	85	0	86	67	14	8	9	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4959988--4960068	36	2.4	33	82	11	101	67	14	8	8	1.40
4960112--4960151	16	2.4	17	87	8	55	75	12	5	7	1.18
4960103--4960172	37	1.9	35	88	5	104	72	11	5	10	1.26
4963329--4963363	3	11.7	3	100	0	70	0	0	65	34	0.93
4965573--4965604	2	16.0	2	100	0	64	50	0	0	50	1.00
4967678--4967714	15	2.5	15	100	0	74	48	0	0	51	1.00
4967678--4967714	7	4.9	8	87	12	60	48	0	0	51	1.00
4972270--4972308	14	2.8	14	84	7	53	38	0	0	61	0.96
4985777--4986071	160	1.8	160	87	1	439	32	19	15	31	1.94
4991107--4991168	24	2.7	23	80	14	74	64	1	0	33	1.03
4991122--4991183	8	7.5	8	76	18	56	64	1	0	33	1.03
4997108--4997183	17	4.5	17	81	3	91	46	1	1	51	1.17
4997108--4997193	6	15.0	6	72	13	74	47	1	1	50	1.16
4997109--4997203	45	2.1	45	82	7	113	48	1	3	47	1.24
4998590--4998631	2	21.0	2	100	0	84	50	0	50	0	1.00
4998761--4998824	33	2.0	33	84	9	87	21	10	4	62	1.46
4999098--4999210	29	3.8	28	79	13	111	38	23	2	34	1.69
4999138--4999292	58	2.6	57	84	11	154	34	28	2	34	1.71
4999160--4999292	58	2.2	60	89	5	209	34	28	3	33	1.73
4999188--4999297	31	3.7	29	68	24	86	33	30	3	32	1.75
5002110--5002152	13	3.3	13	75	12	52	53	9	2	34	1.46
5010648--5010697	24	2.1	24	82	14	59	40	0	2	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5014899--5014937	18	2.1	19	85	4	53	33	2	2	61	1.23
5031897--5031930	15	2.3	15	89	0	50	26	0	0	73	0.83
5033248--5033281	18	1.9	17	88	5	50	64	0	0	35	0.94
5037377--5037528	60	2.6	59	87	4	218	32	5	28	32	1.80
5037337--5037528	29	6.7	29	72	21	129	33	5	28	32	1.79
5038662--5038712	21	2.4	21	90	0	75	39	5	1	52	1.37
5038656--5038709	21	2.8	18	76	17	54	38	7	1	51	1.41
5039404--5039450	20	2.4	20	89	3	69	23	4	12	59	1.51
5039444--5039480	17	2.2	17	90	0	56	37	0	2	59	1.12
5039865--5041164	200	6.6	200	90	3	1887	21	22	20	36	1.96
5039937--5041169	589	2.1	595	88	2	1847	21	22	20	36	1.96
5052688--5052926	30	8.1	27	67	23	96	33	3	28	34	1.75
5052673--5052925	59	4.3	58	82	5	287	33	3	29	33	1.75
5052673--5052925	118	2.2	117	86	2	348	33	3	29	33	1.75
5052703--5052925	29	7.6	28	67	22	122	34	3	28	33	1.75
5054002--5054052	21	2.4	21	90	0	75	39	5	1	52	1.37
5053996--5054049	21	2.8	18	76	17	54	38	7	1	51	1.41
5054755--5054795	20	2.1	19	95	4	73	19	4	12	63	1.46
5054789--5054825	17	2.2	17	90	0	56	37	0	2	59	1.12
5059339--5059400	32	1.9	33	83	3	81	24	1	6	67	1.23
5059473--5059566	47	2.0	46	89	2	143	32	12	14	39	1.85
5059581--5061236	830	2.0	830	99	0	3258	38	13	13	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5061894--5062061	49	3.4	48	83	3	201	30	14	26	27	1.95
5061894--5062083	98	1.9	98	81	2	229	30	15	26	27	1.96
5062752--5062788	18	2.1	18	94	0	65	16	5	35	43	1.71
5066616--5066648	17	1.9	17	88	11	50	66	3	6	24	1.28
5076359--5076409	20	2.4	22	83	6	61	52	0	25	21	1.47
5080608--5080633	3	8.7	3	100	0	52	69	0	30	0	0.89
5083692--5083742	25	2.0	25	85	7	68	27	1	1	68	1.11
5083691--5083742	17	2.9	17	76	18	61	28	1	1	67	1.12
5086111--5086135	6	4.2	6	100	0	50	16	36	16	32	1.90
5088495--5088577	27	3.3	26	73	22	88	15	31	32	20	1.94
5088515--5088555	20	2.0	20	95	0	73	14	31	31	21	1.94
5088618--5088661	15	2.9	15	75	3	52	68	11	0	20	1.20
5088748--5088879	58	2.3	57	78	7	135	55	4	3	36	1.38
5088895--5088928	14	2.3	15	95	5	61	67	0	0	32	0.91
5088940--5089000	27	2.3	27	91	0	95	18	22	36	22	1.95
5092042--5092094	6	8.8	6	87	8	81	66	15	1	16	1.35
5094477--5094504	13	2.2	13	100	0	56	50	0	0	50	1.00
5094496--5094543	17	2.8	17	87	6	62	58	2	2	37	1.22
5095483--5095571	27	3.3	27	92	3	144	23	40	23	12	1.88
5095769--5095809	15	2.8	15	88	3	57	29	0	4	65	1.13
5095771--5095819	14	3.4	14	82	2	53	34	0	6	59	1.22
5107495--5107538	9	4.7	9	81	18	54	61	0	6	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5107496--5107558	28	2.3	27	86	2	81	60	1	4	33	1.27
5107496--5107575	28	2.9	27	83	3	79	56	3	5	35	1.39
5108554--5108587	18	1.9	18	88	5	52	29	0	5	64	1.17
5108838--5108919	21	4.0	21	78	16	100	6	6	17	70	1.28
5108862--5108896	10	3.4	10	84	7	52	8	5	11	74	1.22
5108929--5109049	56	2.2	55	82	5	136	11	3	17	67	1.34
5108974--5109030	23	2.4	24	82	2	62	8	3	19	68	1.31
5108986--5109050	20	3.0	21	79	16	71	9	3	20	67	1.32
5108956--5109050	44	2.2	44	83	11	115	11	3	17	67	1.35
5108929--5109036	12	9.3	12	69	13	66	10	3	17	68	1.33

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