genome.fa.s11.2.7.7.80.10.50.1000.133.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  133  of  143  ( 17057 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)
39290312--39290395	11	7.8	11	68	15	50	64	23	7	4	1.38
39291077--39291118	21	2.0	21	86	9	59	61	14	16	7	1.53
39309637--39309677	2	20.5	2	100	0	82	48	0	0	51	1.00
39319955--39320000	24	1.9	24	90	0	74	39	0	0	60	0.97
39323650--39323688	6	6.5	6	87	0	51	23	25	0	51	1.49
39323811--39323850	15	2.7	15	84	3	55	37	20	0	42	1.52
39337161--39337203	21	2.0	21	86	0	59	39	6	0	53	1.28
39337176--39337231	21	2.7	20	77	8	58	28	8	1	60	1.37
39338122--39338157	13	2.8	13	86	0	54	27	0	8	63	1.23
39343022--39343055	14	2.4	14	90	5	50	26	2	0	70	1.01
39347398--39347438	20	2.1	20	86	4	57	58	0	0	41	0.98
39358457--39358528	31	2.3	31	78	0	81	43	11	20	25	1.85
39361878--39361926	25	1.9	26	88	12	75	55	4	12	28	1.55
39366371--39366425	27	2.0	28	86	10	78	54	7	1	36	1.39
39367194--39367268	11	6.5	11	76	8	69	4	25	0	70	1.04
39367196--39367260	12	5.5	12	76	10	62	4	23	0	72	1.03
39367638--39367705	21	3.2	21	85	2	91	42	33	1	22	1.62
39367689--39367718	15	2.0	15	93	0	51	43	33	3	20	1.68
39367755--39367802	10	4.7	10	78	2	51	16	25	31	27	1.97
39367784--39367823	21	1.9	21	84	0	53	15	22	32	30	1.94
39367810--39367854	7	6.6	7	82	5	56	15	17	26	40	1.90
39367810--39367854	14	3.3	14	87	6	74	15	17	26	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39367817--39367858	20	2.1	20	90	0	66	14	19	23	42	1.87
39368904--39368935	3	11.0	3	93	6	57	31	0	0	68	0.90
39374582--39374624	7	6.1	7	80	0	50	41	2	2	53	1.26
39374758--39374797	19	2.0	21	85	9	57	32	0	5	62	1.17
39376416--39376542	24	5.3	24	90	0	184	28	22	22	26	1.99
39381395--39381433	20	1.9	21	84	5	53	41	0	0	58	0.98
39383337--39383364	7	4.0	7	100	0	56	57	0	42	0	0.99
39392983--39393117	67	2.0	67	100	0	270	31	11	20	35	1.89
39402539--39402575	16	2.3	16	100	0	74	35	10	16	37	1.83
39405014--39405248	78	3.0	78	88	0	353	40	32	5	21	1.76
39415283--39415315	16	2.1	16	88	5	50	18	12	6	63	1.48
39418473--39418525	11	5.1	11	74	21	51	54	1	0	43	1.11
39418473--39418514	19	2.3	19	84	12	52	54	2	0	42	1.13
39424076--39424116	19	2.2	18	86	4	55	48	14	0	36	1.44
39429368--39429906	183	2.9	182	91	2	821	35	15	25	24	1.94
39432319--39432356	18	2.1	18	100	0	76	60	5	15	18	1.53
39437505--39437546	21	2.0	21	85	4	57	45	4	0	50	1.23
39441024--39441092	33	2.1	33	91	0	111	43	11	7	37	1.69
39441690--39441741	18	2.9	18	69	11	52	65	7	0	26	1.20
39445413--39445550	61	2.3	62	80	11	176	44	13	12	28	1.80
39446347--39446387	22	1.9	21	85	5	55	48	4	7	39	1.52
39455057--39455309	136	1.9	136	82	6	325	38	18	12	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39475626--39475692	29	2.2	31	79	10	77	41	1	8	47	1.44
39476580--39476626	19	2.5	19	83	10	60	70	2	0	27	0.99
39477308--39477364	29	2.0	29	85	0	78	42	8	15	33	1.78
39486507--39486546	9	4.4	9	83	0	53	10	30	40	20	1.85
39492488--39492588	27	3.6	28	72	22	79	37	0	0	60	1.10
39500928--39500974	21	2.3	21	81	3	60	74	2	19	4	1.09
39501567--39501594	2	14.0	2	100	0	56	50	0	0	50	1.00
39504996--39505027	15	2.1	15	100	0	64	34	0	12	53	1.39
39504993--39505030	18	2.1	18	95	0	67	34	0	13	52	1.40
39504989--39505024	12	3.0	12	87	0	54	33	0	8	58	1.28
39506619--39506653	9	3.8	9	92	3	52	34	11	11	42	1.77
39510766--39510858	29	3.1	30	75	14	102	44	11	10	33	1.76
39511683--39511744	31	2.0	31	87	3	90	43	1	8	46	1.42
39529233--39529304	16	4.6	16	71	11	51	31	1	0	66	1.00
39529233--39529292	31	1.9	31	83	12	79	35	0	0	65	0.93
39534406--39534480	36	2.1	36	100	0	150	30	5	16	48	1.68
39535242--39535281	21	1.9	21	94	0	71	65	0	0	35	0.93
39536159--39536212	27	2.0	28	82	10	67	51	5	0	42	1.25
39538529--39538561	16	2.0	17	88	5	50	45	0	3	51	1.16
39539084--39539117	15	2.2	16	89	5	52	32	0	0	67	0.91
39539106--39539169	31	2.1	31	85	11	87	37	0	4	57	1.19
39550065--39550113	3	16.3	3	95	0	71	32	6	0	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39550383--39550411	1	29.0	1	100	0	58	0	100	0	0	0.00
39555497--39555548	26	2.0	26	92	7	88	36	7	0	55	1.29
39561338--39561363	2	13.0	2	100	0	52	50	0	0	50	1.00
39561479--39561519	20	2.0	20	85	0	55	53	0	2	43	1.13
39568696--39568742	15	3.1	15	81	0	58	29	0	0	70	0.88
39568785--39568858	34	2.2	34	90	0	112	40	1	2	55	1.22
39569865--39569910	6	7.7	6	87	0	65	34	26	15	23	1.94
39587960--39587997	11	3.5	11	88	0	58	60	2	10	26	1.43
39587953--39587995	22	2.0	22	85	0	59	60	4	9	25	1.47
39605514--39605546	6	5.5	6	92	0	57	33	12	18	36	1.88
39611153--39611190	19	2.0	19	89	0	58	60	0	13	26	1.33
39612108--39612138	12	2.7	11	90	9	53	29	0	0	70	0.87
39612469--39612521	22	2.4	23	84	12	67	33	1	1	62	1.17
39620810--39620861	25	2.2	24	83	13	63	38	7	5	48	1.56
39629745--39629798	27	2.0	27	85	0	72	46	9	7	37	1.64
39632658--39632715	29	2.0	29	90	10	91	44	1	3	50	1.29
39635355--39635387	11	2.8	12	81	9	50	21	15	9	54	1.68
39635473--39635542	23	3.0	23	85	2	95	28	12	17	41	1.86
39635462--39635513	12	4.2	12	73	11	52	28	15	15	40	1.88
39650668--39650702	2	17.5	2	100	0	70	51	0	0	48	1.00
39652003--39652029	14	1.9	14	100	0	54	37	3	14	44	1.63
39653987--39654025	19	2.0	21	85	10	55	28	10	0	61	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39656653--39656708	13	4.2	14	73	11	55	64	1	1	32	1.14
39660191--39660238	20	2.6	18	75	15	53	60	6	2	31	1.33
39665261--39665309	12	3.9	12	80	12	55	20	0	2	77	0.87
39665367--39665391	10	2.5	10	100	0	50	8	0	0	92	0.40
39668838--39669053	30	7.3	30	79	11	221	36	22	0	40	1.58
39668844--39669049	29	7.0	29	79	11	195	36	22	0	40	1.58
39668814--39669049	89	2.6	90	82	5	275	36	22	0	39	1.61
39677030--39677196	85	2.0	85	85	2	228	38	16	21	23	1.92
39677323--39677655	125	2.7	124	85	4	402	37	18	21	23	1.94
39677456--39678069	210	2.9	209	89	0	922	36	17	23	22	1.94
39677115--39677865	335	2.2	332	86	2	1031	37	18	21	23	1.94
39677783--39677948	86	1.9	85	82	1	206	34	15	24	25	1.94
39678243--39678274	14	2.3	14	100	0	64	37	12	37	12	1.81
39681234--39681276	18	2.3	18	80	4	50	60	2	0	37	1.10
39683731--39683769	16	2.6	15	84	11	53	38	12	0	48	1.42
39685829--39685874	24	2.0	23	84	16	60	67	0	2	30	1.03
39685830--39685884	24	2.2	24	78	9	58	67	1	1	29	1.11
39686159--39686243	31	2.8	29	75	8	89	42	15	9	32	1.79
39687677--39687727	15	3.2	16	75	8	50	43	0	5	50	1.26
39690042--39690158	62	1.9	62	85	3	164	47	8	10	33	1.68
39690784--39690860	9	9.1	8	77	14	66	59	3	0	36	1.16
39690787--39690824	17	2.2	18	85	4	51	57	7	0	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39691527--39691563	10	3.5	11	82	10	51	43	0	0	56	0.99
39691528--39691566	20	1.9	20	94	5	69	43	0	0	56	0.99
39694272--39694330	25	2.4	25	91	2	93	66	10	0	23	1.22
39698605--39698644	20	2.0	20	85	4	55	32	7	0	60	1.25
39715584--39715635	22	2.5	21	84	6	61	38	1	3	55	1.29
39716076--39716168	44	2.1	43	80	9	107	8	3	18	69	1.27
39716146--39716183	20	1.9	19	89	5	58	10	0	18	71	1.14
39718272--39718320	22	2.2	22	85	0	71	22	8	6	63	1.44
39733805--39733846	10	4.3	10	91	8	61	78	0	2	19	0.86
39736401--39736475	15	5.0	15	69	11	64	26	18	20	34	1.95

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