genome.fa.s3.2.7.7.80.10.50.1000.47.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  47  of  171  ( 20472 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)
19915634--19915659	4	6.5	4	100	0	52	76	23	0	0	0.78
19915717--19915764	12	4.0	12	80	0	60	39	20	16	22	1.92
19915716--19915762	24	2.0	24	91	0	76	42	21	17	19	1.89
19931325--19931361	19	2.0	20	89	10	60	43	2	0	54	1.14
19937919--19937954	2	18.0	2	100	0	72	50	0	0	50	1.00
19938015--19938059	20	2.2	20	84	0	54	46	6	20	26	1.75
19940504--19940551	2	24.0	2	91	0	78	0	54	0	45	0.99
19945569--19945617	17	2.9	17	96	0	89	28	10	12	48	1.73
19945572--19945626	17	3.3	17	89	2	58	30	9	10	49	1.69
19962044--19962068	11	2.3	11	100	0	50	84	0	16	0	0.63
19967294--19967330	5	7.6	5	93	6	67	40	0	59	0	0.97
19970673--19970713	22	1.9	22	85	5	57	21	2	7	68	1.26
19977229--19977266	20	1.9	20	84	10	51	65	15	0	18	1.27
19978048--19978107	29	2.1	29	84	6	77	31	10	11	46	1.73
19978230--19978321	31	3.0	31	77	3	98	40	9	10	39	1.73
19982861--19982904	24	2.0	22	83	16	56	40	9	4	45	1.56
19986896--19987266	124	3.0	121	84	5	438	39	11	16	32	1.84
19986908--19987266	63	5.8	61	79	11	336	39	10	16	32	1.83
19986896--19987503	124	5.1	122	74	15	420	40	12	15	31	1.84
19987220--19987343	45	2.7	47	78	6	153	39	6	14	39	1.72
19987313--19987504	62	3.1	62	86	4	280	44	14	13	27	1.83
19991169--19991227	28	2.1	28	81	9	66	32	3	3	61	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19993373--19993578	30	6.9	30	76	12	183	39	1	24	34	1.64
19993371--19993578	59	3.5	59	74	16	176	39	1	25	34	1.65
19994509--19994551	18	2.4	18	88	0	59	32	0	2	65	1.06
19994513--19994552	14	2.8	14	82	17	55	35	0	2	62	1.09
19995463--19995660	29	6.8	29	70	20	128	39	2	27	30	1.70
19995439--19995660	58	3.8	58	86	4	279	39	2	26	31	1.69
19995434--19995683	116	2.2	115	82	8	294	38	2	27	31	1.71
19995434--19995683	58	4.3	57	82	9	258	38	2	27	31	1.71
19995638--19995713	29	2.6	29	76	14	75	43	2	21	32	1.66
19995663--19995815	30	5.2	29	76	8	139	37	1	21	39	1.62
19996078--19996146	32	2.2	32	86	5	95	57	5	11	24	1.55
19996779--19996850	31	2.4	30	84	9	85	38	5	1	54	1.33
19997573--19997641	17	3.8	17	81	12	75	56	1	4	37	1.28
19997573--19997650	37	2.1	36	86	6	104	56	1	3	38	1.26
19997590--19997650	18	3.3	18	88	9	88	57	0	3	39	1.15
19998071--19998648	101	5.7	101	89	0	861	14	25	20	39	1.90
19998071--19998615	50	10.8	50	67	6	294	14	25	20	39	1.90
19999536--19999629	7	13.6	7	78	12	79	1	9	4	85	0.79
19999533--19999629	11	8.2	12	78	6	92	1	9	4	85	0.77
19999537--19999629	36	2.6	36	73	23	74	1	9	4	84	0.79
19999533--19999612	1	80.0	1	74	0	70	1	6	5	87	0.71
20003319--20003360	6	6.8	6	81	13	50	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20003319--20003360	11	3.4	12	80	12	50	52	0	2	45	1.13
20006442--20006509	21	3.1	21	83	12	84	29	0	0	70	0.87
20006442--20006508	26	2.7	26	84	9	77	29	0	0	70	0.88
20006459--20006519	28	2.2	28	85	5	79	39	0	0	60	0.97
20006468--20006522	24	2.3	23	79	14	58	40	0	0	60	0.97
20010516--20010548	3	11.0	3	100	0	66	33	33	0	33	1.58
20014439--20014481	20	2.1	21	91	4	70	72	2	0	25	0.97
20014439--20014506	11	6.1	11	74	19	61	67	2	0	29	1.05
20014492--20014541	17	2.9	17	80	11	57	66	0	0	34	0.92
20025624--20025692	31	2.3	31	87	7	97	44	0	4	50	1.21
20026165--20026205	22	1.9	22	95	5	75	56	17	14	12	1.68
20026615--20026640	11	2.4	11	100	0	52	61	0	0	38	0.96
20030952--20030983	6	5.7	6	85	14	50	12	0	31	56	1.37
20030952--20030983	16	2.0	16	100	0	64	12	0	31	56	1.37
20030993--20031049	7	8.1	7	78	7	62	21	0	33	45	1.52
20030993--20031051	15	4.1	14	78	10	66	20	0	33	45	1.51
20030993--20031059	20	3.2	20	74	17	66	20	0	32	46	1.51
20031103--20031143	21	2.0	21	85	0	55	14	0	26	58	1.37
20031070--20031136	14	4.9	14	70	15	50	17	0	28	53	1.44
20031861--20033265	182	7.7	179	87	4	1786	31	19	18	30	1.96
20031861--20033265	364	3.9	362	88	3	1995	31	19	18	30	1.96
20036549--20036575	2	13.5	2	100	0	54	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20045985--20046025	20	2.0	20	85	0	55	21	29	14	34	1.93
20050473--20051145	331	2.0	333	94	2	1176	40	6	14	38	1.71
20060536--20060575	21	1.9	21	94	0	71	45	0	5	50	1.23
20060568--20060625	11	5.4	10	78	8	53	55	1	0	43	1.10
20060568--20060666	45	2.2	46	90	3	157	54	3	0	42	1.15
20060565--20060650	24	3.8	23	74	9	88	56	1	0	41	1.06
20060755--20060798	22	2.0	23	86	4	63	38	2	0	59	1.10
20063513--20063564	19	2.7	19	82	8	61	61	3	0	34	1.14
20063513--20063564	21	2.7	19	81	18	63	61	3	0	34	1.14
20069240--20069295	29	2.0	29	82	3	69	48	12	16	23	1.80
20071640--20071668	2	14.5	2	100	0	58	51	0	0	48	1.00
20075801--20075863	24	2.7	23	85	2	90	44	17	12	25	1.84
20075953--20075985	11	2.8	12	81	9	50	54	15	15	15	1.71
20079147--20079190	22	2.0	22	100	0	88	54	4	31	9	1.52
20081084--20081129	24	1.9	25	86	8	69	54	6	4	34	1.46
20081195--20081228	13	2.6	13	85	0	50	58	11	0	29	1.33
20082168--20082206	16	2.4	17	91	4	62	10	15	0	74	1.07
20086042--20086087	13	3.5	13	80	19	51	71	2	6	19	1.18
20087169--20087221	25	2.2	23	80	6	61	52	9	3	33	1.52
20088366--20088752	129	3.0	129	91	1	607	28	14	23	33	1.94
20101684--20101718	18	1.9	18	88	11	54	31	0	11	57	1.34
20102228--20102262	18	2.0	18	94	5	63	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20102410--20102457	19	2.6	18	78	15	53	31	2	2	64	1.16
20102430--20102462	10	3.4	10	83	8	50	33	0	0	66	0.92
20104269--20104303	18	1.9	18	88	11	54	31	0	11	57	1.34
20105020--20105070	19	2.7	19	84	6	68	31	1	1	64	1.15
20105040--20105072	10	3.4	10	83	8	50	33	0	0	66	0.92
20109077--20109127	26	2.0	24	88	7	75	56	0	9	33	1.32
20109119--20109162	24	1.9	23	86	9	63	54	0	0	45	0.99
20110151--20110207	22	2.5	23	81	13	66	54	0	1	43	1.10
20111060--20111093	17	2.0	17	88	0	50	44	2	2	50	1.32
20117515--20117601	42	2.1	42	91	6	142	48	21	0	29	1.51
20130414--20130452	16	2.5	15	80	8	51	35	0	0	64	0.94
20137699--20137723	12	2.1	12	100	0	50	0	40	8	52	1.31
20142334--20142538	79	2.6	79	87	0	284	29	29	20	20	1.98
20144439--20144526	42	2.1	42	89	4	133	47	23	0	28	1.52
20152436--20152486	26	2.0	26	88	7	77	39	0	3	56	1.18
20159106--20159168	29	2.1	30	82	5	74	44	1	1	52	1.20
20166832--20166889	29	2.0	29	96	0	107	24	10	18	46	1.80
20167405--20167437	7	4.7	7	96	0	57	27	12	12	48	1.76
20173144--20173190	24	2.0	24	86	0	67	21	10	10	57	1.62
20175126--20175172	24	2.0	24	86	0	67	25	12	8	53	1.67
20176017--20176081	17	3.8	17	74	10	69	32	0	3	64	1.09
20178595--20178642	14	3.3	15	74	8	55	29	10	0	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20179096--20179157	19	3.3	19	81	16	67	67	3	4	24	1.25
20179097--20179186	46	1.9	46	82	6	110	68	3	3	24	1.19
20179096--20179176	20	4.3	19	76	21	73	69	2	3	24	1.17
20179126--20179165	19	2.1	19	85	0	53	70	2	5	22	1.19
20179365--20179426	22	2.8	23	80	9	67	45	1	1	51	1.20
20179366--20179433	22	3.0	21	77	10	64	45	1	1	51	1.19
20190568--20190595	6	4.7	6	100	0	56	28	0	71	0	0.86
20196755--20196783	14	2.1	14	100	0	58	13	13	27	44	1.82
20201601--20201630	15	2.0	15	93	0	51	20	20	10	50	1.76
20207556--20207620	31	2.1	31	88	0	94	40	15	3	41	1.63

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