genome.fa.s2.2.7.7.80.10.50.1000.130.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  130  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)
39673273--39673328	21	2.5	23	77	14	62	19	50	5	25	1.69
39673285--39673328	21	2.1	21	91	0	70	20	52	4	22	1.65
39673327--39673451	15	8.3	15	79	0	97	13	56	7	22	1.61
39673318--39673433	45	2.6	45	84	0	160	13	56	6	24	1.60
39673318--39673448	30	4.4	30	82	0	136	14	57	6	22	1.59
39673369--39673511	30	4.8	30	76	0	79	18	56	8	16	1.64
39674701--39674743	22	2.0	21	91	8	70	32	4	9	53	1.53
39683356--39683404	25	2.1	25	85	11	68	36	6	6	51	1.52
39687015--39687057	22	2.0	22	81	9	52	37	0	2	60	1.10
39687738--39687788	21	2.3	22	83	6	59	70	1	1	25	1.08
39688052--39688113	14	4.3	14	74	20	56	66	3	0	30	1.08
39700443--39700467	6	4.2	6	100	0	50	68	0	32	0	0.90
39701965--39702017	21	2.4	21	76	14	54	45	0	0	54	0.99
39702417--39702486	31	2.3	31	85	5	88	20	8	20	51	1.73
39702896--39702932	2	18.5	2	100	0	74	51	0	48	0	1.00
39707650--39707766	59	2.0	57	88	6	173	34	15	21	29	1.94
39709021--39709176	66	2.4	66	93	0	258	23	23	20	33	1.97
39710383--39710413	16	1.9	16	93	0	53	19	25	12	41	1.87
39715596--39715689	45	2.1	45	91	0	152	29	10	17	42	1.82
39724233--39724288	27	2.0	28	96	3	105	62	7	7	23	1.46
39727859--39727892	16	2.1	16	89	10	52	50	0	47	2	1.16
39730580--39730758	76	2.4	76	97	0	340	45	5	14	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39731478--39731531	21	2.7	19	82	8	63	64	3	1	29	1.21
39735546--39735605	18	2.9	22	69	27	58	36	3	0	60	1.14
39748786--39748823	19	2.1	19	85	5	51	28	7	7	55	1.57
39757609--39757663	27	2.0	28	89	7	85	36	7	16	40	1.76
39761644--39761685	5	8.4	5	94	0	75	38	19	0	42	1.51
39762598--39762636	19	1.9	19	85	10	51	23	5	2	69	1.21
39765695--39765752	31	1.9	30	83	16	75	37	0	0	62	0.96
39769984--39770024	14	2.6	16	81	18	59	39	2	0	58	1.11
39770503--39770570	24	2.8	24	86	4	82	52	8	10	27	1.65
39770513--39770570	24	2.4	24	88	2	89	51	8	8	31	1.63
39783082--39783265	10	19.0	9	70	18	90	31	2	4	61	1.30
39783197--39783262	17	3.7	18	75	15	57	33	0	3	63	1.10
39783204--39783270	27	2.5	27	80	7	75	34	1	2	61	1.20
39783204--39783262	17	3.3	18	80	15	61	33	0	3	62	1.12
39783083--39783270	18	10.3	17	68	26	68	31	3	4	61	1.31
39789088--39789121	17	2.1	17	88	5	52	20	29	5	44	1.75
39790234--39790315	20	4.0	20	72	13	60	51	0	1	47	1.08
39790288--39790352	29	2.3	30	80	17	68	40	0	4	55	1.21
39791517--39791549	17	1.9	17	100	0	66	24	6	24	45	1.75
39792161--39792203	20	2.2	20	100	0	86	27	11	20	39	1.88
39797246--39797296	23	2.3	22	77	9	59	27	1	5	64	1.27
39800398--39800587	55	3.5	55	85	1	238	39	31	4	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39801227--39801544	55	5.8	55	83	0	366	36	28	7	27	1.83
39801229--39801544	110	2.9	110	85	0	407	37	28	7	27	1.83
39801226--39801545	165	1.9	165	87	2	464	36	28	7	27	1.83
39801526--39801565	20	2.0	20	100	0	80	50	20	5	25	1.68
39801476--39801620	75	1.9	75	94	0	254	40	29	4	25	1.76
39801546--39801674	55	2.3	55	87	0	177	38	28	5	27	1.79
39801416--39801935	130	4.0	130	76	5	521	39	28	5	26	1.79
39801603--39801824	75	3.0	75	87	0	291	42	25	5	26	1.76
39801658--39801696	20	2.0	20	100	0	78	58	10	5	25	1.51
39801731--39801769	20	2.0	20	94	0	69	53	15	5	25	1.62
39801469--39801879	205	2.0	203	89	0	633	40	27	5	26	1.77
39801751--39802101	55	6.4	55	86	1	452	37	31	5	25	1.80
39802084--39802121	20	1.9	20	88	0	58	52	18	5	23	1.65
39817776--39817835	21	2.7	22	84	7	77	25	18	5	51	1.66
39820548--39820573	6	4.3	6	100	0	52	34	15	15	34	1.89
39825049--39825073	2	12.5	2	100	0	50	52	0	0	48	1.00
39834345--39834400	19	2.7	20	75	16	51	53	1	0	44	1.11
39840669--39840713	18	2.4	19	85	7	56	53	24	0	22	1.46
39843559--39843598	21	1.9	21	90	10	64	40	20	0	40	1.52
39847498--39847554	29	2.0	29	82	6	71	40	1	5	52	1.34
39848425--39848470	24	1.9	24	86	8	67	43	13	2	41	1.55
39848656--39848686	16	1.9	16	93	0	53	80	0	3	16	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39850864--39850904	21	2.0	21	85	0	55	14	19	51	14	1.77
39851332--39851385	23	2.4	23	81	3	56	48	5	0	46	1.25
39859970--39860026	28	2.0	28	83	6	71	77	0	10	12	1.00
39860371--39860412	3	14.0	3	100	0	84	33	0	0	66	0.92
39863057--39863090	15	2.3	15	89	0	50	47	0	0	52	1.00
39868807--39868937	57	2.3	57	87	0	190	16	57	9	17	1.64
39868930--39868955	12	2.2	12	100	0	52	7	69	15	7	1.35
39868903--39868949	18	2.6	18	89	0	76	8	70	12	8	1.34
39880430--39880482	20	2.7	19	76	18	56	45	1	0	52	1.11
39886465--39886499	18	2.0	17	88	5	52	65	0	0	34	0.93
39910598--39910660	24	2.6	24	87	0	90	49	7	14	28	1.71
39911342--39911398	25	2.4	23	77	16	55	47	3	7	42	1.47
39912015--39912057	20	2.2	19	84	12	52	37	4	23	34	1.76
39926582--39926606	10	2.5	10	100	0	50	76	0	0	24	0.80
39927804--39927851	21	2.3	21	77	0	51	56	0	4	39	1.19
39936167--39936452	61	4.8	60	84	4	307	27	22	18	30	1.98
39936106--39936452	122	2.9	118	80	8	362	27	22	19	30	1.98
39937630--39937704	37	2.0	37	100	0	150	24	16	2	57	1.52
39942311--39942381	31	2.3	31	83	9	83	33	18	8	39	1.81
39942765--39942798	5	6.8	5	100	0	68	0	20	41	38	1.53
39945772--39946038	55	4.7	55	80	8	295	24	5	16	53	1.64
39945761--39946037	116	2.5	109	84	7	331	25	5	15	53	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39947658--39947689	9	3.6	9	95	0	55	65	3	9	21	1.35
39954431--39954594	82	2.0	82	100	0	328	37	17	17	28	1.92
39965305--39965400	25	4.0	24	80	9	83	31	2	2	64	1.16
39965305--39965373	8	8.2	8	70	13	50	31	1	1	65	1.11
39965360--39965402	22	2.0	22	90	0	68	27	2	2	67	1.15
39965478--39965530	24	2.1	26	82	6	65	50	3	1	43	1.30
39976422--39976455	12	2.8	12	86	0	50	26	47	23	2	1.66
39984407--39984452	21	2.2	21	96	3	85	54	0	2	43	1.12
39988600--39989206	332	1.8	334	82	3	783	37	8	15	39	1.77
39991172--39991230	24	2.5	23	83	8	66	69	0	1	28	0.98
39994447--39994518	17	4.5	17	83	11	80	38	1	2	56	1.22
39994457--39994545	6	14.8	6	76	13	76	48	1	1	49	1.16
39996376--39996681	30	10.2	30	81	1	344	35	22	4	37	1.76
39996352--39996699	90	3.9	89	80	3	374	35	21	5	37	1.76
39999841--39999883	2	21.5	2	95	0	77	48	2	0	48	1.14
40003505--40003603	43	2.3	43	89	5	155	25	31	20	23	1.98
40003672--40003700	15	1.9	15	100	0	58	48	34	3	13	1.60
40003901--40003974	21	3.5	21	81	7	96	1	45	20	32	1.59
40003915--40003973	11	5.5	11	70	22	54	1	45	22	30	1.62
40005058--40005088	15	2.1	15	100	0	62	12	12	38	35	1.82
40008005--40008252	41	6.0	41	83	5	270	22	27	25	24	2.00
40008526--40008557	8	3.9	8	92	8	55	87	0	0	12	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40008527--40008557	9	3.6	9	91	8	55	90	0	0	9	0.46
40009883--40009913	6	5.2	6	100	0	62	35	32	0	32	1.58
40011134--40011176	22	2.0	22	86	9	61	37	13	18	30	1.90
40014230--40014293	31	2.1	30	83	11	78	35	10	18	34	1.86
40016152--40016308	77	2.0	77	96	0	287	32	12	17	37	1.87
40019463--40019555	40	2.4	36	79	18	89	60	3	4	32	1.32
40019487--40019568	39	2.1	40	86	6	114	62	1	3	32	1.21
40019561--40019603	18	2.4	18	80	0	50	72	2	2	23	1.08
40019631--40019691	26	2.3	26	80	8	70	36	0	1	62	1.05
40023216--40023276	31	2.0	31	90	0	95	42	11	9	36	1.74

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