genome.fa.s9.2.7.7.80.10.50.1000.179.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  179  of  182  ( 21729 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)
54534735--54534764	15	2.0	15	100	0	60	13	53	13	20	1.72
54543095--54543161	31	2.2	31	83	2	82	37	5	10	46	1.63
54545448--54545522	11	6.8	11	77	6	71	42	2	1	53	1.23
54545448--54545539	33	2.8	32	77	8	94	44	2	1	52	1.20
54545448--54545538	17	5.5	15	74	17	74	43	2	1	52	1.20
54546312--54546338	13	2.1	13	100	0	54	48	0	0	51	1.00
54547018--54547311	152	1.9	153	90	0	473	27	16	10	45	1.80
54547385--54547454	30	2.3	30	82	4	79	40	22	7	30	1.81
54547440--54547696	59	4.4	59	89	0	354	30	29	4	35	1.78
54547512--54547670	29	5.4	28	68	23	103	30	28	4	36	1.77
54547472--54547691	30	7.5	28	67	23	107	31	28	4	35	1.77
54554217--54554593	174	2.2	173	82	4	445	23	18	16	41	1.90
54554297--54554600	84	3.5	85	74	11	269	25	18	15	41	1.89
54555035--54555076	22	2.0	21	85	4	57	42	2	4	50	1.36
54559541--54559574	2	17.0	2	100	0	68	50	0	0	50	1.00
54559996--54560055	22	2.8	22	82	9	72	71	1	11	15	1.22
54560021--54560050	15	1.9	16	93	6	53	70	3	13	13	1.30
54560855--54560897	19	2.3	19	84	8	52	58	4	0	37	1.19
54561465--54561656	106	1.8	105	84	3	260	25	23	13	38	1.91
54561500--54561695	106	1.8	105	81	4	241	25	23	12	38	1.90
54564329--54564388	21	2.9	21	82	0	66	28	13	16	41	1.86
54565918--54565978	22	2.8	22	79	16	65	72	3	9	14	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54566778--54566820	19	2.3	19	84	8	52	58	4	0	37	1.19
54568762--54568804	18	2.5	17	78	17	52	27	2	9	60	1.40
54582676--54582883	104	2.0	104	97	0	389	25	23	20	31	1.98
54584138--54584189	25	2.1	25	96	0	95	59	7	9	23	1.54
54586039--54586102	25	2.6	24	82	4	83	62	7	4	25	1.42
54587553--54587590	15	2.4	16	82	13	51	34	15	31	18	1.92
54591377--54591416	20	2.0	21	85	5	55	20	2	12	65	1.38
54600506--54600556	24	2.1	24	92	0	84	21	11	25	41	1.87
54616455--54616505	3	17.0	3	87	0	75	33	39	0	27	1.57
54618943--54619025	30	2.5	32	79	11	80	44	0	3	51	1.18
54619001--54619030	16	1.9	16	93	6	53	43	0	0	56	0.99
54622405--54622437	14	2.4	14	85	5	50	54	0	0	45	0.99
54626690--54626825	72	1.9	72	86	3	193	33	13	24	28	1.93
54631876--54631937	6	10.5	6	79	10	56	27	22	0	50	1.50
54634488--54634559	35	2.1	35	97	0	135	15	29	18	37	1.91
54640711--54640744	16	2.1	16	89	10	52	58	0	11	29	1.33
54664120--54664158	14	2.7	14	88	4	51	43	7	17	30	1.77
54664443--54664530	46	1.9	46	88	0	131	40	19	9	30	1.82
54666128--54666166	20	2.0	20	89	0	60	61	2	15	20	1.45
54669101--54669236	72	1.9	72	95	0	245	33	14	23	27	1.94
54680840--54680877	3	12.7	3	88	0	58	34	34	2	28	1.71
54687603--54687674	35	2.1	35	94	0	126	15	27	18	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54693787--54693875	30	3.0	29	80	4	97	51	4	12	31	1.59
54693933--54693974	22	1.9	22	85	0	57	23	11	11	52	1.71
54694442--54694511	31	2.3	31	85	5	97	47	5	4	42	1.47
54697320--54697344	2	12.5	2	100	0	50	52	0	0	48	1.00
54699956--54699988	6	5.5	6	96	0	57	33	33	12	21	1.90
54703402--54703452	16	3.1	17	75	11	52	50	0	1	47	1.12
54711245--54711270	7	3.7	7	100	0	52	26	0	0	73	0.84
54719581--54719611	16	1.9	16	93	0	53	45	0	0	54	0.99
54721080--54721117	18	2.3	17	86	13	53	42	5	7	44	1.56
54729700--54729743	22	2.0	22	95	0	79	27	18	20	34	1.96
54732962--54733017	27	2.2	25	81	12	60	44	1	0	53	1.11
54736085--54736133	24	2.0	24	100	0	98	42	16	20	20	1.89
54739524--54739606	31	2.8	29	77	5	76	30	7	13	49	1.68
54740903--54740953	26	2.0	26	92	0	84	62	3	1	31	1.24
54745832--54745861	14	2.1	14	93	0	51	60	0	0	40	0.97
54750766--54750827	20	3.1	20	70	9	63	53	1	1	43	1.20
54762851--54762950	51	2.0	51	91	0	164	39	8	18	35	1.80
54763799--54763846	16	3.0	16	78	0	51	31	22	8	37	1.84
54771398--54771432	17	1.9	17	88	11	52	25	2	5	65	1.28
54779289--54779440	55	2.8	55	85	7	202	25	14	13	47	1.80
54792015--54792041	2	13.5	2	100	0	54	48	0	0	51	1.00
54797580--54797660	32	2.5	32	93	0	144	38	6	11	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54798940--54798979	15	2.7	15	85	11	55	60	2	0	37	1.11
54799087--54799127	17	2.3	19	87	8	59	56	2	0	41	1.13
54804628--54804697	18	3.9	18	87	7	106	40	10	11	38	1.75
54805128--54805382	72	3.6	72	88	0	377	24	4	14	56	1.57
54815627--54815687	27	2.3	27	100	0	122	16	31	36	16	1.91
54815821--54815861	20	1.9	23	85	14	61	60	0	7	31	1.24
54815866--54815996	57	2.4	55	78	10	142	56	5	2	35	1.35
54816062--54816122	27	2.3	27	94	0	104	14	24	39	21	1.91
54816197--54816254	26	2.2	26	84	0	71	55	5	29	10	1.55
54819003--54819060	28	2.1	28	83	6	73	36	1	12	50	1.50
54819052--54819101	26	1.9	26	84	8	66	30	0	12	58	1.34
54819167--54819225	6	9.8	6	85	7	84	64	15	3	16	1.42
54819658--54819682	6	4.2	6	100	0	50	16	32	36	16	1.90
54821649--54821680	16	2.1	16	94	5	57	59	0	0	40	0.97
54822650--54822738	27	3.3	27	98	0	169	22	40	25	11	1.87
54832053--54832158	44	2.4	44	91	0	167	31	20	16	31	1.95
54841652--54841802	30	5.0	30	92	0	248	34	3	25	36	1.75
54841630--54841802	60	2.9	58	83	12	224	33	4	26	36	1.75
54843703--54843791	6	15.0	6	76	18	89	51	0	3	44	1.18
54843724--54843774	11	4.8	11	76	9	52	52	0	5	41	1.25
54843715--54843791	37	2.0	38	82	9	95	53	0	3	42	1.19
54843703--54843791	17	5.4	16	81	14	101	51	0	3	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54856020--54856088	33	2.1	33	83	0	84	24	5	23	46	1.74
54860158--54860236	38	2.1	38	95	2	142	18	18	21	40	1.92
54863751--54863847	50	2.0	49	95	2	176	27	16	12	43	1.84
54863800--54863873	37	2.0	37	94	0	130	31	20	9	39	1.84
54868811--54868842	16	2.0	16	93	0	55	43	28	0	28	1.55
54870432--54870490	29	2.0	29	83	3	73	35	3	10	50	1.53
54871836--54871883	21	2.2	22	85	10	64	12	18	4	64	1.43
54872603--54872631	6	4.8	6	100	0	58	65	0	34	0	0.93
54872597--54872631	18	1.9	18	88	0	52	62	2	31	2	1.24
54876389--54876421	16	2.1	16	100	0	66	45	12	12	30	1.78
54893315--54893399	25	3.2	26	76	15	84	63	8	7	21	1.46
54893320--54893384	27	2.5	25	76	9	67	60	9	7	23	1.53
54895822--54895889	31	2.2	31	89	0	100	30	10	4	54	1.54
54895822--54895899	31	2.6	30	84	9	97	29	8	3	57	1.47
54897592--54897618	14	1.9	14	100	0	54	62	14	0	22	1.31
54911244--54911276	15	2.2	16	89	10	52	54	0	0	45	0.99
54911244--54911275	16	2.1	15	94	5	55	56	0	0	43	0.99
54912927--54913002	24	3.3	24	69	22	56	64	1	0	34	1.02
54913493--54913517	13	1.9	13	100	0	50	44	0	8	48	1.32
54919247--54919573	96	3.4	96	87	3	458	20	13	15	50	1.78
54929460--54929536	38	2.0	38	100	0	154	15	18	7	58	1.60
54934388--54934430	15	2.9	15	86	3	61	25	13	0	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54938864--54938921	30	1.9	31	86	10	84	18	3	17	60	1.50
54939199--54939231	13	2.5	13	95	0	57	36	0	24	39	1.56
54941805--54941971	85	2.0	85	95	0	298	15	13	20	50	1.77
54944021--54944150	60	2.2	60	81	5	165	36	16	10	35	1.84
54944078--54944645	190	3.0	188	92	1	904	40	13	10	36	1.78
54947309--54947353	19	2.4	19	81	7	56	37	0	4	57	1.19
54947358--54947390	14	2.3	15	85	15	52	15	6	12	66	1.42
54948157--54948186	16	1.9	15	93	6	51	23	10	0	66	1.21
54948166--54948212	21	2.2	21	84	3	58	17	10	2	70	1.26
54949750--54949793	21	2.1	21	86	0	61	43	15	13	27	1.85

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   172   173   174   175   176   
          177   178   179   180   181   182