genome.fa.s9.2.7.7.80.10.50.1000.17.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  17  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)
6993859--6993972	59	1.9	59	87	3	167	31	14	13	41	1.83
6993861--6993985	59	2.1	59	83	4	162	29	13	16	40	1.86
6994032--6994182	58	2.6	58	77	4	160	34	15	22	27	1.94
6994032--6994192	59	2.7	58	74	3	144	34	14	21	29	1.93
6998310--6998353	15	2.6	17	79	17	56	56	0	0	43	0.99
6999653--6999756	51	2.0	51	85	7	140	49	13	14	23	1.78
6999844--6999877	18	1.9	17	94	5	59	41	0	2	55	1.15
6999874--6999910	10	3.7	10	86	13	58	40	2	0	56	1.13
6999845--6999910	20	3.3	20	80	16	75	40	1	1	56	1.18
7000185--7000219	17	2.0	18	88	5	54	51	0	0	48	1.00
7001792--7001853	24	2.7	22	76	16	63	62	8	4	24	1.42
7001950--7001996	23	2.0	23	87	0	67	65	4	4	25	1.29
7004441--7004531	23	4.0	23	67	23	66	10	25	24	39	1.88
7005520--7005544	13	1.9	13	100	0	50	0	16	0	84	0.63
7014204--7014245	6	7.0	6	100	0	84	0	33	0	66	0.92
7015475--7015505	12	2.6	12	94	0	53	51	22	6	19	1.69
7016687--7016785	36	2.8	36	90	0	153	28	27	13	31	1.94
7021776--7021812	18	2.1	18	89	0	56	48	16	8	27	1.74
7025390--7025418	13	2.1	14	93	6	51	0	10	0	89	0.48
7025423--7025456	18	1.9	18	88	5	52	52	8	2	35	1.47
7026068--7026408	185	1.9	179	81	10	411	35	15	7	41	1.74
7039018--7039042	3	8.3	3	100	0	50	0	32	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7051487--7051519	15	2.2	15	94	0	57	33	3	0	63	1.10
7053521--7053577	29	2.0	29	82	0	69	36	5	7	50	1.52
7054011--7054036	3	8.7	3	100	0	52	69	0	0	30	0.89
7056536--7056575	16	2.3	18	87	12	57	62	0	2	35	1.09
7057770--7057820	10	5.2	10	80	15	54	33	0	9	56	1.32
7059476--7059523	24	2.0	25	87	4	71	43	2	2	52	1.24
7059400--7059630	116	2.0	114	80	3	257	46	3	8	41	1.49
7069179--7069216	18	2.1	18	85	9	51	84	7	2	5	0.86
7086637--7086666	7	4.4	7	95	4	53	86	0	0	13	0.57
7090782--7090832	26	1.9	27	84	4	68	41	9	7	41	1.67
7091272--7091299	5	5.6	5	100	0	56	60	0	0	39	0.97
7092109--7092138	6	5.0	6	100	0	60	33	16	33	16	1.92
7092338--7092385	6	8.2	6	97	2	89	35	47	16	0	1.47
7093215--7093339	57	2.2	57	86	0	169	45	12	14	28	1.80
7093261--7093467	114	1.8	115	79	3	247	40	13	11	34	1.80
7093316--7093536	113	1.9	113	80	9	254	40	12	9	36	1.77
7101904--7101956	22	2.4	22	87	0	79	32	16	20	30	1.95
7103652--7103726	38	2.0	38	94	0	132	30	10	25	33	1.90
7110318--7110343	6	4.3	6	100	0	52	69	0	0	30	0.89
7110993--7111049	28	2.0	29	82	3	71	50	3	3	42	1.36
7112290--7112324	14	2.5	14	90	0	52	45	8	17	28	1.77
7126192--7126229	3	12.7	3	100	0	76	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7127661--7127700	19	2.1	19	85	0	53	32	12	20	35	1.90
7129018--7129056	18	2.2	17	90	4	60	74	5	2	17	1.12
7130164--7130199	18	2.0	18	94	0	63	30	5	5	58	1.44
7130815--7131041	96	2.4	97	91	3	377	35	11	10	42	1.75
7130815--7131036	97	2.3	97	93	2	376	36	11	10	41	1.75
7132191--7132240	5	10.0	5	95	0	91	78	0	2	20	0.86
7134688--7134729	22	2.0	22	95	4	77	35	0	0	64	0.94
7135262--7135297	16	2.2	16	90	0	54	55	0	8	36	1.30
7135856--7135881	4	6.5	4	100	0	52	73	0	0	26	0.84
7146161--7146192	3	10.7	3	100	0	64	65	0	0	34	0.93
7162928--7162960	6	5.5	6	92	0	57	45	18	36	0	1.49
7195402--7195451	25	2.0	25	84	7	66	40	4	4	52	1.39
7201064--7201100	5	7.2	5	87	6	56	83	0	16	0	0.64
7201064--7201097	16	2.1	16	94	0	59	85	0	14	0	0.60
7217342--7217404	28	2.2	28	86	11	83	46	3	4	46	1.40
7220748--7220773	2	13.0	2	100	0	52	50	0	0	50	1.00
7221759--7221784	6	4.3	6	100	0	52	34	15	15	34	1.89
7224813--7224865	19	2.6	20	85	8	63	50	3	11	33	1.56
7228058--7228091	15	2.2	16	89	5	52	67	0	0	32	0.91
7229175--7229200	1	26.0	1	100	0	52	100	0	0	0	0.00
7244134--7244198	31	2.1	31	100	0	130	35	18	18	27	1.94
7248514--7248608	46	2.0	47	88	6	140	44	4	11	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7251631--7251670	6	7.3	6	78	21	52	37	0	0	62	0.95
7251605--7251674	29	2.6	25	79	16	70	44	1	0	54	1.09
7251628--7251661	15	2.3	15	95	5	61	38	0	0	61	0.96
7251836--7251866	7	4.4	7	95	0	53	32	3	41	22	1.70
7257622--7257753	42	3.1	42	94	2	221	18	40	17	23	1.91
7257622--7257777	84	1.9	84	83	2	206	18	38	19	23	1.93
7262599--7262634	18	2.0	18	94	0	63	36	0	5	58	1.22
7263425--7263463	18	2.2	18	90	0	60	64	2	0	33	1.08
7269158--7269227	18	3.9	18	79	7	88	41	10	11	37	1.75
7269659--7269913	72	3.6	72	89	0	395	23	5	14	56	1.59
7273434--7273515	22	4.0	20	71	23	62	40	1	2	56	1.20
7273433--7273484	21	2.4	21	81	12	61	46	0	1	51	1.12
7273466--7273506	18	2.3	18	84	12	50	36	2	2	58	1.24
7273437--7273524	31	2.8	30	78	15	81	37	2	2	57	1.23
7273797--7273826	3	10.0	3	100	0	60	33	0	0	66	0.92
7273986--7274029	8	5.1	8	79	15	52	38	0	2	59	1.10
7274000--7274036	17	2.1	18	90	5	58	40	0	2	56	1.13
7273986--7274036	18	2.9	18	80	11	61	41	0	1	56	1.10
7273963--7274028	27	2.5	27	95	2	116	34	1	3	60	1.21
7279917--7279949	16	2.0	17	88	5	50	36	0	0	63	0.95
7280387--7280441	27	2.0	27	100	0	110	25	7	18	49	1.73
7286679--7286720	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7287355--7287379	5	5.0	5	100	0	50	20	0	0	80	0.72
7295272--7295340	9	7.4	9	75	12	59	30	1	4	63	1.22
7295409--7295488	40	2.0	41	82	7	101	35	6	2	56	1.38
7297462--7297490	14	2.0	15	93	6	51	34	13	13	37	1.85
7298997--7299028	16	2.1	16	94	5	57	25	0	0	75	0.81
7298985--7299032	9	5.7	9	77	20	50	29	2	0	68	1.01
7302792--7302872	26	3.1	26	96	0	144	27	28	0	44	1.55
7305751--7305793	2	21.5	2	100	0	86	48	0	0	51	1.00
7309307--7309368	4	15.2	4	80	9	63	64	0	35	0	0.94
7309307--7309368	20	3.3	19	82	12	83	64	0	35	0	0.94
7309307--7309365	25	2.4	24	88	2	91	64	0	35	0	0.94
7313367--7313391	12	2.1	12	100	0	50	24	24	0	52	1.48
7313538--7313583	22	2.1	22	100	0	92	32	17	4	45	1.68
7313542--7313591	22	2.5	20	87	12	68	34	20	4	42	1.70
7315305--7315350	21	2.2	21	88	0	65	26	13	36	23	1.91
7317351--7317400	16	3.2	16	73	21	52	34	0	6	60	1.21
7317674--7317710	4	9.0	4	88	5	56	2	21	0	75	0.92
7318664--7318698	9	3.8	9	88	7	52	62	2	0	34	1.10
7330381--7330539	82	1.9	82	94	0	282	38	17	19	23	1.92
7332219--7332300	23	3.5	23	80	5	94	41	17	8	32	1.79
7332265--7332312	24	2.0	24	83	4	60	41	10	12	35	1.77
7332341--7332382	4	10.5	4	94	0	75	50	26	0	23	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7335334--7335384	24	2.2	24	82	10	61	56	0	27	15	1.39
7351400--7351450	22	2.3	22	83	6	59	62	3	5	27	1.36
7351401--7351449	23	2.2	22	81	3	53	65	4	6	24	1.33
7352191--7352274	39	2.2	39	84	4	107	39	8	0	52	1.32
7356624--7356649	3	8.7	3	100	0	52	30	0	0	69	0.89
7361951--7361979	12	2.5	12	94	5	51	41	0	6	51	1.28
7363317--7363361	22	2.0	23	82	8	56	33	2	4	60	1.29
7368767--7368828	24	2.6	24	82	12	74	33	1	0	64	1.03
7368777--7368813	15	2.3	17	86	9	51	32	0	0	67	0.91
7368771--7368829	25	2.4	24	81	13	66	30	1	0	67	1.00

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