genome.fa.s9.2.7.7.80.10.50.1000.23.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  23  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)
9482923--9482949	4	6.8	4	100	0	54	22	0	0	77	0.76
9492869--9492899	3	10.3	3	100	0	62	32	0	0	67	0.91
9502522--9502556	18	1.9	18	88	0	52	40	5	5	48	1.51
9505982--9506092	57	1.9	58	80	8	129	38	7	0	53	1.35
9518114--9518150	19	1.9	19	88	0	56	35	2	16	45	1.61
9518621--9518645	1	25.0	1	100	0	50	0	0	0	100	0.00
9519626--9519650	5	5.0	5	100	0	50	0	80	0	20	0.72
9521578--9521602	2	12.5	2	100	0	50	52	0	0	48	1.00
9527552--9527614	30	2.1	31	85	14	87	41	0	3	55	1.16
9535804--9535844	18	2.4	16	84	15	55	51	0	2	46	1.14
9538508--9538567	28	2.1	28	93	0	102	51	3	3	41	1.35
9538521--9538581	28	2.2	28	84	0	77	50	1	3	44	1.28
9544493--9544529	17	2.2	17	90	9	58	56	0	5	37	1.22
9545120--9545311	71	2.7	68	79	12	194	60	3	3	32	1.30
9545157--9545285	53	2.4	54	76	13	124	59	3	3	34	1.28
9545233--9545287	21	2.8	19	86	8	67	60	1	0	38	1.08
9545225--9545342	20	6.2	19	71	16	84	56	2	3	37	1.29
9545319--9545364	23	1.9	24	86	8	67	50	2	2	45	1.26
9548412--9548485	23	3.3	22	82	3	85	14	22	27	35	1.94
9549504--9549551	22	2.2	21	77	3	51	35	12	2	50	1.52
9556509--9556561	26	2.0	27	85	10	74	28	1	1	67	1.11
9562348--9562849	250	2.0	250	99	0	995	36	14	17	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9583538--9583606	33	2.1	33	100	0	138	37	11	18	31	1.87
9585928--9586003	39	1.9	39	86	5	109	32	15	27	23	1.95
9602660--9602715	28	2.0	28	86	6	78	58	1	0	39	1.08
9609839--9609890	18	3.0	18	81	10	56	46	1	0	51	1.12
9616495--9616551	30	1.9	30	85	7	80	63	5	7	24	1.41
9616645--9616704	29	2.1	27	82	11	68	63	6	1	28	1.29
9617825--9617891	28	2.3	28	80	16	75	67	1	4	26	1.19
9622201--9622259	12	4.8	12	78	12	57	37	13	1	47	1.53
9627363--9627713	174	2.0	174	98	0	675	29	23	16	31	1.96
9636815--9636862	22	2.3	21	89	7	71	43	8	2	45	1.45
9639046--9639086	5	8.6	5	86	7	59	80	0	17	2	0.82
9644336--9644370	6	5.8	6	96	0	52	34	8	57	0	1.29
9656078--9656156	37	2.1	37	97	0	149	58	11	12	17	1.63
9656975--9657022	24	2.0	24	100	0	96	25	20	12	41	1.87
9661079--9661279	110	1.8	110	86	0	294	38	25	9	25	1.87
9663334--9663471	23	5.9	23	80	7	138	41	23	23	10	1.86
9666306--9666348	17	2.6	16	78	7	50	16	0	41	41	1.48
9667167--9667232	22	3.0	22	81	0	87	34	22	13	28	1.92
9667211--9667291	32	2.5	33	71	13	78	37	24	13	24	1.92
9667462--9667520	21	2.8	21	89	0	91	20	8	38	32	1.83
9667466--9667565	42	2.4	42	80	6	96	27	12	32	29	1.92
9689390--9689432	2	21.5	2	100	0	86	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9694102--9694150	21	2.3	22	82	10	57	71	0	0	28	0.86
9696998--9697038	18	2.3	18	83	8	57	48	0	0	51	1.00
9704102--9704160	31	1.9	31	82	0	73	55	6	6	30	1.52
9705378--9705448	29	2.4	30	80	2	81	50	5	1	42	1.34
9706063--9706199	54	2.6	53	84	1	166	25	5	32	36	1.80
9706444--9706509	31	2.1	31	85	0	87	37	1	0	60	1.06
9706710--9706789	38	2.2	36	81	4	97	42	3	6	47	1.46
9725101--9725151	21	2.4	21	80	6	59	60	1	5	31	1.31
9732857--9733699	200	4.2	201	90	1	1297	19	23	21	36	1.95
9732897--9733699	402	2.0	396	91	1	1311	19	22	21	36	1.95
9745757--9745841	30	2.8	31	72	13	88	42	3	22	31	1.70
9745761--9746255	59	8.5	59	81	7	467	35	3	29	32	1.74
9745755--9746258	117	4.3	116	81	6	552	35	3	29	31	1.73
9745751--9746273	58	9.0	58	82	5	504	34	3	29	32	1.74
9746969--9747014	13	3.4	14	79	8	51	6	17	2	73	1.14
9748173--9748238	17	3.8	17	77	2	69	45	1	3	50	1.26
9748173--9748252	6	13.8	6	69	17	53	48	1	2	47	1.23
9750167--9750378	29	7.2	29	63	27	81	31	30	2	35	1.71
9750169--9750591	59	7.2	59	89	1	650	32	31	2	33	1.70
9750396--9750591	30	6.7	26	69	20	79	34	31	1	32	1.67
9758004--9758051	25	1.9	24	87	8	69	64	2	0	33	1.05
9759957--9759993	17	2.1	19	90	10	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9759957--9760007	19	2.8	18	82	11	59	54	0	0	45	0.99
9775937--9776002	33	2.1	33	86	11	93	34	0	1	63	1.04
9776083--9776116	17	2.0	17	88	0	50	58	11	0	29	1.33
9791938--9792008	34	2.1	34	100	0	142	32	16	19	30	1.95
9791972--9792176	110	1.9	110	97	0	392	32	16	21	28	1.95
9796307--9796344	19	2.0	19	89	0	58	42	10	2	44	1.52
9796546--9796595	20	2.5	19	83	9	55	46	2	6	46	1.39
9799424--9799466	21	2.0	21	95	0	77	30	6	11	51	1.65
9799702--9799754	22	2.3	24	83	6	65	52	3	7	35	1.48
9801396--9801428	2	16.5	2	93	0	57	51	0	48	0	1.00
9804670--9804705	19	1.9	19	88	5	56	58	19	5	16	1.58
9805041--9805153	57	2.0	58	89	5	176	34	0	18	46	1.56
9808812--9808896	30	2.8	29	77	11	82	43	0	2	54	1.13
9808794--9808870	39	2.0	39	85	10	104	45	0	2	51	1.14
9809695--9809751	19	3.0	18	84	7	60	52	8	0	38	1.33
9816954--9816984	15	2.1	15	93	0	53	54	3	3	38	1.32
9817197--9817248	14	3.7	15	80	10	56	53	0	0	46	1.00
9817197--9817232	2	18.5	2	94	5	65	50	0	0	50	1.00
9819779--9819824	2	23.5	2	95	4	85	50	0	0	50	1.00
9845140--9845219	37	2.2	37	82	8	92	57	6	16	20	1.60
9847746--9847775	14	2.1	14	100	0	60	50	20	0	30	1.49
9860232--9860260	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9874085--9874168	33	2.6	33	96	1	152	51	5	13	29	1.64
9876666--9876754	34	2.7	31	80	14	97	68	17	3	10	1.32
9879581--9879612	14	2.1	16	88	11	50	50	0	0	50	1.00
9879587--9879642	23	2.3	23	78	9	58	50	1	0	48	1.11
9889734--9890038	153	2.0	154	85	3	409	39	10	7	41	1.68
9897003--9897071	29	2.4	29	81	13	81	53	8	1	36	1.41
9898388--9898441	16	3.4	16	79	2	56	27	0	7	64	1.20
9898386--9898447	23	2.7	23	82	7	72	29	0	6	64	1.18
9908744--9908819	37	2.0	39	82	10	95	43	5	2	48	1.39
9911300--9911625	165	2.0	165	92	1	546	42	11	16	30	1.83
9913859--9913897	13	2.9	13	88	3	51	51	0	0	48	1.00
9918351--9918399	25	1.9	26	87	4	73	51	2	2	44	1.24
9918964--9919031	11	6.2	11	72	6	57	16	5	13	64	1.46
9927641--9927674	13	2.5	13	85	4	50	70	0	2	26	1.01
9937399--9937445	23	2.1	24	84	11	64	38	6	0	55	1.26
9954270--9954358	30	2.9	31	88	3	126	44	6	11	37	1.67
9954270--9954378	30	3.6	29	80	10	112	46	8	11	33	1.69
9956118--9956165	16	2.9	17	75	9	55	27	0	4	68	1.07
9958992--9959029	20	1.9	19	89	5	58	5	13	10	71	1.30
9970869--9971004	72	1.9	72	86	3	193	35	16	36	11	1.85
9983190--9983221	16	2.1	15	94	5	55	34	15	6	43	1.72
9989133--9989312	92	2.0	92	95	0	324	26	12	22	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10026206--10026230	9	2.8	9	100	0	50	12	20	12	56	1.67
10028035--10028063	14	2.0	15	93	6	51	41	0	6	51	1.28
10032431--10032481	17	3.1	17	73	21	54	58	0	3	37	1.16
10037912--10038002	44	2.1	44	100	0	182	35	6	4	53	1.47
10053829--10053897	27	2.5	27	75	13	70	34	2	5	56	1.38
10054386--10054518	70	1.9	67	84	4	176	43	12	10	33	1.77
10055351--10055392	18	2.3	18	87	0	57	30	4	35	28	1.78
10057143--10057206	21	3.0	22	73	15	71	68	0	0	31	0.90
10057150--10057206	25	2.3	26	81	9	73	68	0	0	31	0.90
10057802--10057830	7	4.3	7	95	4	51	62	0	13	24	1.32

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