genome.fa.s2.2.7.7.80.10.50.1000.93.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  93  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)
28985405--28985528	26	5.0	25	78	7	119	18	3	12	66	1.37
28985424--28985530	51	2.1	52	92	1	180	15	3	13	67	1.37
28986364--28986398	18	1.9	18	88	0	52	34	31	8	25	1.86
28986708--28986767	27	2.2	27	93	0	102	23	16	11	48	1.79
28988407--28988465	29	2.0	30	87	9	86	49	11	6	32	1.66
28988420--28988485	29	2.2	29	84	7	80	46	10	7	34	1.67
28989236--28989274	19	2.0	20	90	5	62	41	0	0	58	0.98
28989690--28989767	10	7.8	10	73	21	58	44	2	0	52	1.14
28989957--28990027	30	2.4	29	78	2	79	32	7	12	47	1.68
28990279--28990323	10	4.6	10	86	2	65	20	2	24	53	1.57
28990276--28990323	20	2.5	20	89	3	80	18	4	22	54	1.61
29001661--29001759	50	2.0	50	87	2	144	29	19	10	41	1.84
29009202--29009248	24	2.0	24	100	0	94	21	19	12	46	1.82
29010897--29010932	7	5.1	7	100	0	72	27	13	13	44	1.82
29011160--29011247	31	2.9	30	80	5	106	36	7	11	44	1.70
29019423--29019467	20	2.2	20	84	7	56	51	2	15	31	1.56
29023492--29024914	718	2.0	715	82	4	1717	28	15	18	37	1.92
29025644--29025690	14	3.4	14	79	2	51	38	10	2	48	1.50
29028016--29028042	14	1.9	14	100	0	54	81	0	18	0	0.69
29028558--29028610	24	2.2	24	86	6	72	13	28	0	58	1.35
29030074--29030124	24	2.1	24	88	0	75	29	19	21	29	1.98
29034486--29034536	24	2.1	24	85	0	66	25	17	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29035041--29035080	21	1.9	21	89	0	62	25	20	25	30	1.99
29036240--29036478	125	1.9	126	85	0	336	39	15	12	33	1.84
29044642--29044668	1	27.0	1	100	0	54	100	0	0	0	0.00
29048587--29048661	39	1.9	39	86	5	107	34	38	18	8	1.80
29048837--29048885	24	2.0	24	100	0	98	24	12	26	36	1.91
29058238--29058386	80	1.9	80	92	0	253	31	25	20	22	1.98
29065061--29065106	20	2.3	20	100	0	92	28	30	4	36	1.76
29071134--29071173	18	2.3	18	86	4	55	17	15	12	55	1.70
29071756--29071810	16	3.3	16	82	10	58	76	1	20	1	0.97
29076644--29076684	3	13.7	3	100	0	82	31	0	0	68	0.90
29077042--29077089	17	2.8	17	81	6	62	52	12	20	14	1.74
29077041--29077097	17	3.4	16	76	11	60	50	12	22	14	1.75
29088959--29089056	38	2.6	38	73	7	101	31	14	23	30	1.94
29089078--29089148	37	1.9	37	85	0	97	22	19	29	28	1.98
29090198--29090237	17	2.4	17	91	0	62	55	12	17	15	1.70
29092523--29092553	16	1.9	16	93	0	53	61	0	16	22	1.34
29106365--29106391	2	13.5	2	100	0	54	48	0	0	51	1.00
29106555--29106618	17	3.7	18	69	24	57	20	35	3	40	1.68
29106556--29106630	34	2.2	34	95	0	132	20	37	2	40	1.66
29106573--29106631	17	3.5	17	75	25	70	18	38	1	40	1.61
29112963--29113007	20	2.2	20	84	7	56	31	0	6	62	1.21
29112972--29113033	20	3.2	19	82	13	65	33	0	4	61	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29112972--29113033	18	3.2	19	82	13	65	33	0	4	61	1.17
29117086--29117120	17	2.1	17	88	0	52	40	20	5	34	1.76
29118113--29118208	25	3.9	25	87	5	97	25	20	22	31	1.98
29118130--29118208	25	3.2	25	91	7	126	26	18	21	32	1.97
29118191--29118264	28	2.6	28	86	0	103	31	13	21	33	1.92
29134651--29134818	25	6.6	25	77	7	149	19	14	26	39	1.90
29141076--29141108	14	2.4	14	85	15	50	18	0	9	72	1.10
29142570--29142613	23	1.9	23	95	0	79	25	13	25	36	1.92
29156253--29156299	21	2.2	21	82	14	53	17	8	10	63	1.49
29156660--29157002	171	2.0	170	95	0	623	24	18	20	36	1.95
29163673--29163737	24	2.9	23	76	15	64	60	0	36	3	1.13
29163674--29163733	27	2.2	27	82	5	68	60	0	38	1	1.07
29169444--29169626	99	1.9	99	86	2	262	23	22	25	28	1.99
29176274--29176386	47	2.4	47	89	0	172	36	23	15	25	1.93
29184124--29184192	19	3.7	19	75	11	61	43	20	4	31	1.71
29189196--29189253	21	2.8	21	81	5	64	31	22	18	27	1.97
29189954--29190020	19	3.6	19	88	8	102	25	25	17	31	1.97
29196982--29197027	19	2.4	19	88	0	74	19	17	21	41	1.90
29198923--29198977	8	6.5	8	80	12	65	70	1	3	23	1.12
29198896--29198977	9	9.0	9	72	15	62	68	1	3	26	1.14
29198896--29198977	18	4.5	17	75	15	76	68	1	3	26	1.14
29198991--29199048	21	2.9	21	77	15	68	65	3	6	24	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29199184--29199237	9	6.0	9	76	8	56	31	1	1	64	1.14
29199220--29199289	25	2.9	25	80	16	76	37	4	0	58	1.18
29199364--29199555	85	2.2	85	80	7	208	35	7	16	40	1.76
29203726--29203791	15	4.5	15	79	3	64	18	19	4	57	1.57
29204000--29204024	2	12.5	2	100	0	50	48	0	0	52	1.00
29208695--29208743	23	2.2	23	85	7	66	32	0	4	63	1.13
29208771--29208829	31	1.9	32	83	10	79	33	1	1	62	1.15
29208762--29208838	38	2.0	39	82	12	97	35	1	1	62	1.12
29209322--29209367	21	2.2	21	88	11	69	52	2	0	45	1.13
29211871--29211921	25	2.0	25	81	7	59	50	0	1	47	1.12
29211865--29211915	25	2.1	25	85	3	68	47	0	3	49	1.20
29212398--29212495	10	10.1	9	73	16	63	57	1	4	37	1.25
29212636--29212778	43	3.3	42	81	6	135	27	22	20	29	1.98
29212659--29212926	43	6.2	43	83	4	306	28	25	18	27	1.98
29212653--29212910	89	3.0	84	83	6	297	29	24	18	27	1.98
29212676--29212926	132	1.9	131	86	5	355	28	26	17	27	1.98
29216860--29217201	41	8.3	41	86	3	438	16	26	20	35	1.94
29224201--29224317	31	3.9	30	72	13	107	28	17	6	47	1.72
29224273--29224338	30	2.2	31	83	2	80	28	15	10	45	1.79
29228788--29228850	18	3.2	18	76	20	63	44	23	25	6	1.77
29228802--29228874	23	3.1	23	96	4	128	45	21	28	4	1.70
29228872--29228915	18	2.5	17	78	7	52	72	4	6	15	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29231362--29231404	21	2.0	21	86	8	61	48	0	0	51	1.00
29231362--29231415	18	3.0	18	83	0	63	51	0	1	46	1.11
29235373--29235413	21	2.0	21	100	0	82	7	19	34	39	1.80
29235373--29235425	21	2.5	21	90	6	72	7	20	35	35	1.81
29235393--29235556	37	4.4	37	85	0	220	12	17	33	36	1.87
29239583--29239658	21	3.6	21	76	11	75	25	10	31	32	1.89
29240771--29240810	20	2.0	21	90	5	64	32	22	30	15	1.94
29241684--29241761	37	2.1	37	100	0	156	34	23	2	39	1.68
29245389--29245696	31	10.0	31	84	3	363	34	19	6	39	1.78
29245492--29245546	18	3.3	18	66	23	57	38	16	7	38	1.76
29245389--29245696	93	3.3	93	87	0	429	34	19	6	39	1.78
29248513--29248546	16	2.1	17	88	5	52	52	5	0	41	1.25
29249765--29249823	2	29.5	2	100	0	118	49	0	0	50	1.00
29249998--29250047	18	2.8	17	85	8	73	52	2	0	46	1.12
29251884--29252109	29	7.7	29	76	8	181	36	24	2	36	1.70
29251884--29252108	59	3.8	58	79	8	233	36	24	2	36	1.70
29251968--29252128	88	1.8	88	84	5	218	35	26	4	33	1.76
29261168--29261265	49	2.0	49	97	0	187	39	12	19	28	1.88
29262536--29263557	78	13.1	76	74	7	327	25	29	19	26	1.98
29262576--29263517	156	6.1	155	70	7	512	25	29	19	26	1.98
29262821--29262978	77	2.1	77	85	2	210	22	25	21	29	1.99
29262536--29263557	39	26.3	39	69	10	274	25	29	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29263978--29264074	17	5.8	17	82	2	106	39	1	4	55	1.26
29264006--29264083	6	14.0	6	71	15	60	44	2	1	51	1.23
29263978--29264083	34	3.2	34	84	6	119	41	1	3	52	1.30
29263999--29264083	17	5.2	16	82	13	102	45	2	1	50	1.22
29265842--29266030	30	6.3	30	79	5	177	37	22	3	36	1.72
29265857--29266030	61	2.9	61	84	4	203	36	22	3	36	1.72
29266008--29266054	24	2.0	24	82	0	58	38	29	6	25	1.81
29270337--29270367	3	10.3	3	100	0	62	32	0	32	35	1.58
29274447--29274496	26	1.9	26	83	0	64	32	0	12	56	1.36
29274567--29274602	6	6.0	6	96	0	63	63	16	2	16	1.42

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