genome.fa.s8.2.7.7.80.10.50.1000.147.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  147  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)
40003356--40003421	17	3.9	17	75	15	73	43	1	4	50	1.32
40003436--40003490	27	2.0	28	86	10	78	45	20	16	18	1.86
40005267--40005516	59	4.3	59	89	2	371	33	30	3	33	1.74
40005267--40005525	117	2.2	116	88	2	403	32	30	3	32	1.76
40007850--40008080	43	5.3	43	82	4	275	26	18	24	30	1.98
40007850--40008072	86	2.5	88	87	2	306	27	18	23	29	1.98
40015025--40015081	29	1.9	30	89	3	89	29	5	14	50	1.64
40015276--40015334	31	2.0	30	83	6	75	44	11	8	35	1.72
40015271--40015337	31	2.3	27	76	14	71	41	10	8	38	1.71
40019086--40019119	14	2.2	16	90	10	54	47	0	2	50	1.16
40020745--40020796	20	2.8	18	78	16	61	82	0	5	11	0.82
40027483--40027656	62	2.8	62	81	10	180	30	17	16	35	1.93
40027660--40027910	130	2.0	123	81	9	292	29	17	14	38	1.89
40027540--40027896	62	5.6	63	69	12	171	28	17	15	38	1.90
40027483--40027911	62	6.8	63	69	12	167	29	17	15	37	1.90
40028756--40028853	30	3.3	30	88	0	106	59	3	10	27	1.45
40029906--40029943	20	2.0	20	94	5	69	57	7	5	28	1.49
40030012--40030049	20	1.9	20	88	0	58	71	2	2	23	1.12
40031258--40031891	84	7.5	84	89	4	900	47	3	5	43	1.44
40031180--40031891	168	4.2	168	90	4	1041	46	3	5	43	1.46
40031180--40031891	334	2.1	331	89	5	1058	46	3	5	43	1.46
40035152--40035198	22	2.1	22	84	7	60	57	6	2	34	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40035786--40036052	61	4.4	59	75	7	205	42	16	15	26	1.87
40038950--40039017	31	2.2	32	82	12	79	30	17	2	48	1.62
40051151--40051182	16	1.9	17	93	6	57	21	0	3	75	0.95
40060180--40060622	224	2.0	223	96	0	814	31	15	15	38	1.88
40073431--40073472	15	2.8	16	82	10	52	57	0	38	4	1.20
40077627--40077653	5	5.4	5	100	0	54	0	18	0	81	0.69
40078744--40078782	19	2.1	20	86	13	57	35	2	2	58	1.25
40081847--40081892	6	7.7	6	100	0	92	34	50	0	15	1.44
40084366--40084399	16	2.1	17	89	10	54	32	0	2	64	1.08
40099167--40099192	2	13.0	2	100	0	52	50	0	0	50	1.00
40101868--40101910	21	2.0	21	86	0	59	76	13	0	9	1.01
40113874--40113957	9	9.2	9	71	14	57	61	2	1	34	1.16
40120136--40120344	30	7.0	31	85	5	254	36	1	26	35	1.68
40120138--40120333	88	2.2	90	88	3	281	36	2	25	35	1.68
40122124--40122796	49	13.7	49	71	8	467	17	27	19	35	1.94
40122131--40122863	98	7.5	98	87	1	993	18	27	18	35	1.94
40124727--40124757	3	10.7	3	93	6	55	0	29	0	70	0.87
40127945--40127999	29	1.9	29	96	3	103	49	10	12	27	1.74
40128895--40128960	30	2.2	30	88	0	105	36	3	28	31	1.73
40128906--40129012	30	3.6	30	89	3	146	35	0	25	38	1.62
40128906--40129026	30	4.1	29	88	5	138	34	0	27	37	1.63
40129788--40129812	12	2.1	12	100	0	50	20	8	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40130600--40130666	21	3.0	21	70	21	55	62	1	0	35	1.04
40130596--40130666	24	3.0	22	73	18	63	61	1	0	36	1.05
40136127--40136156	8	3.8	8	95	0	51	36	0	0	63	0.95
40136907--40136960	20	2.7	20	82	8	65	35	0	5	59	1.21
40137364--40137388	13	1.9	13	100	0	50	4	24	0	72	1.02
40139365--40139412	24	2.0	25	83	4	62	35	2	10	52	1.48
40140622--40140689	22	3.3	21	69	22	63	8	4	14	72	1.26
40140673--40140751	23	3.4	23	89	1	104	7	2	17	72	1.20
40140697--40140754	12	4.9	12	79	12	66	5	0	18	75	0.98
40140624--40140713	40	2.2	41	84	4	128	8	4	16	70	1.30
40140684--40140754	23	3.0	23	91	2	106	5	1	21	71	1.14
40140726--40140768	20	2.1	21	86	4	61	9	0	18	72	1.11
40140695--40140762	24	2.9	24	86	6	68	8	0	19	72	1.11
40141901--40141940	17	2.3	19	79	16	50	32	2	5	60	1.32
40143638--40143673	18	2.0	18	100	0	72	11	22	5	61	1.50
40148245--40148313	6	12.2	6	76	11	65	40	0	1	57	1.07
40148255--40148319	17	3.9	17	81	4	69	44	1	0	53	1.09
40148245--40148313	27	2.4	28	83	9	86	40	0	1	57	1.07
40148244--40148310	17	4.0	17	84	3	73	38	0	1	59	1.06
40148245--40148310	33	2.0	33	81	0	78	39	0	1	59	1.07
40148245--40148339	27	3.4	28	77	13	72	45	1	2	51	1.20
40150201--40150410	29	7.2	28	71	18	153	34	30	2	32	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40150198--40150423	58	3.9	59	87	5	318	33	30	2	33	1.72
40159909--40160572	76	8.7	76	93	0	1076	34	15	17	32	1.91
40159743--40160572	228	3.6	228	91	2	1275	34	15	17	32	1.91
40160849--40160932	6	14.2	6	77	12	84	42	2	1	53	1.21
40160849--40160932	11	7.1	12	76	12	84	42	2	1	53	1.21
40160859--40160938	17	4.9	17	71	9	76	46	3	0	50	1.19
40160853--40160932	31	2.7	28	85	12	115	43	2	1	52	1.22
40162148--40162297	23	6.4	23	82	10	164	43	21	22	12	1.86
40162166--40162318	23	6.4	25	84	7	128	42	20	24	12	1.87
40167678--40167804	23	5.4	23	79	12	118	43	21	22	12	1.86
40167678--40167824	48	3.2	45	81	13	138	42	20	24	12	1.86
40167696--40167825	23	5.4	25	81	9	105	42	20	24	12	1.87
40167722--40167825	23	4.4	23	85	7	111	44	21	23	11	1.84
40170512--40170630	34	3.3	34	70	22	116	15	8	7	68	1.36
40170511--40170665	75	2.1	75	98	0	301	16	9	8	65	1.45
40170912--40171173	59	4.5	58	88	3	364	31	30	3	34	1.74
40170912--40171173	117	2.2	118	89	2	384	31	30	3	34	1.74
40173415--40173463	25	2.0	26	88	8	75	30	8	4	57	1.47
40175383--40175408	13	2.0	13	100	0	52	46	0	0	53	1.00
40175458--40175493	18	2.1	17	89	5	54	27	0	11	61	1.30
40176090--40176150	30	2.0	30	83	0	77	40	14	16	27	1.88
40176707--40176805	47	2.1	49	86	3	139	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40176739--40176804	6	11.0	6	73	20	50	46	0	0	53	1.00
40178140--40178182	17	2.4	18	88	3	61	46	0	2	51	1.13
40197355--40197388	13	2.6	13	100	0	68	38	8	8	44	1.67
40198717--40198748	8	4.0	8	95	0	55	28	0	0	71	0.86
40213548--40213578	2	15.5	2	100	0	62	51	0	0	48	1.00
40218961--40219023	32	2.0	32	93	0	108	22	11	26	39	1.87
40220876--40220910	12	2.8	13	91	4	54	51	2	0	45	1.16
40226848--40226912	21	3.2	20	76	18	64	35	0	1	63	1.04
40226883--40226931	9	5.4	9	83	7	55	40	0	0	59	0.98
40226882--40226931	19	2.7	19	78	9	59	42	0	0	58	0.98
40242013--40242092	31	2.6	30	82	7	90	33	6	8	51	1.58
40251100--40251140	14	2.8	15	78	14	50	31	4	0	63	1.15
40273283--40273327	23	2.0	23	86	8	65	28	0	8	62	1.25
40280886--40280927	15	2.9	14	86	10	57	33	2	4	59	1.31
40282544--40282591	24	1.9	26	83	8	64	39	2	0	58	1.10
40283274--40283312	19	1.9	19	85	10	51	48	2	0	48	1.15
40286028--40286077	23	2.1	23	82	14	57	52	6	2	40	1.38
40287928--40287960	17	1.9	17	88	11	50	72	9	0	18	1.10
40291000--40291030	16	1.9	16	93	0	53	12	6	3	77	1.08
40293166--40293216	8	6.4	8	73	8	50	15	3	0	80	0.86
40293903--40294094	106	1.8	106	83	6	255	36	13	25	25	1.91
40294663--40294707	19	2.4	19	81	7	56	37	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40295514--40295544	16	1.9	16	93	0	53	12	6	3	77	1.08
40312297--40312348	20	2.8	18	78	21	63	51	3	1	42	1.31
40319092--40319206	54	2.1	54	86	0	167	30	5	7	56	1.50
40320664--40320706	2	21.5	2	100	0	86	51	0	0	48	1.00
40322290--40322358	31	2.3	31	82	7	79	33	4	4	57	1.38
40331128--40331161	18	1.9	17	88	5	50	73	2	23	0	0.97
40331675--40331718	17	2.5	18	85	7	63	27	2	2	68	1.14
40331746--40331784	20	1.9	21	89	5	62	38	0	2	58	1.12
40334165--40334196	9	3.4	9	95	4	55	84	0	0	15	0.63
40335684--40335713	12	2.5	12	100	0	60	26	46	6	20	1.75

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