genome.fa.s9.2.7.7.80.10.50.1000.13.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  13  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)
5215235--5215263	13	2.1	14	93	6	51	3	6	0	89	0.57
5223373--5223397	6	4.2	6	100	0	50	68	0	32	0	0.90
5232190--5232261	25	2.9	25	100	0	144	33	9	20	36	1.86
5234655--5234709	23	2.2	25	78	9	60	47	1	5	45	1.36
5235106--5235155	21	2.5	20	83	6	64	68	0	14	18	1.22
5246375--5246416	17	2.5	17	76	11	50	11	21	2	64	1.38
5247593--5247663	32	2.2	32	94	0	124	33	8	2	54	1.45
5248003--5248035	17	1.9	17	93	0	57	54	12	6	27	1.60
5248339--5248369	15	2.0	16	93	6	55	38	0	0	61	0.96
5249565--5249634	31	2.3	31	84	0	86	45	7	8	38	1.62
5250011--5250043	15	2.2	15	89	10	50	30	0	3	66	1.06
5250006--5250043	16	2.4	16	82	8	51	28	0	2	68	1.03
5254757--5254823	28	2.3	30	82	7	84	32	8	13	44	1.75
5264725--5264751	14	1.9	14	100	0	54	29	0	0	70	0.88
5268634--5268698	20	3.3	20	85	6	71	38	1	7	52	1.40
5268653--5268698	20	2.3	20	92	3	76	36	0	8	54	1.32
5275054--5275113	30	2.1	28	84	6	75	45	1	0	53	1.10
5275615--5275652	18	2.1	18	85	9	51	65	5	0	28	1.14
5275615--5275712	20	5.0	19	69	12	56	66	4	2	27	1.21
5286346--5286379	15	2.1	17	89	10	54	5	88	0	5	0.64
5293252--5293301	3	17.3	3	79	8	59	66	2	2	30	1.14
5293259--5293296	20	1.9	20	88	0	58	63	2	2	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5297425--5297470	23	1.9	24	82	8	58	45	4	0	50	1.21
5312371--5312421	24	2.0	26	85	7	70	41	5	7	45	1.57
5316560--5317603	516	2.0	518	98	0	2038	37	10	15	37	1.82
5320316--5320367	24	2.1	26	82	7	63	38	3	11	46	1.59
5321778--5321820	21	2.0	21	81	9	50	48	4	0	46	1.22
5322492--5322534	19	2.2	20	87	4	61	25	4	4	65	1.32
5322488--5322535	19	2.6	18	81	12	53	27	4	4	64	1.30
5323086--5323145	31	2.0	30	87	6	86	50	8	3	38	1.49
5323664--5323730	20	3.5	20	71	21	72	37	11	0	50	1.39
5323660--5323738	35	2.2	35	86	2	122	32	11	0	55	1.35
5323935--5323959	12	2.1	12	100	0	50	32	0	16	52	1.44
5324231--5324263	17	1.9	17	93	0	57	69	6	6	18	1.30
5324825--5324857	14	2.2	16	89	10	52	27	3	0	69	1.03
5337798--5338030	119	2.0	120	83	4	301	37	12	23	26	1.90
5357479--5357503	8	3.1	8	100	0	50	0	28	36	36	1.58
5360887--5360916	15	2.0	15	93	0	51	36	0	0	63	0.95
5360871--5360920	23	2.0	24	85	14	66	40	0	0	60	0.97
5364092--5364127	18	2.0	18	94	0	63	52	5	8	33	1.55
5366169--5366227	22	2.4	25	81	13	70	32	0	6	61	1.22
5368430--5368482	21	2.6	21	76	11	56	64	9	0	26	1.24
5368605--5368673	23	3.0	23	85	8	77	69	13	5	11	1.35
5368605--5368674	12	5.9	12	75	9	54	70	12	5	11	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5368605--5368674	24	3.0	24	87	6	90	70	12	5	11	1.33
5368661--5368695	16	2.1	17	89	5	54	65	17	5	11	1.43
5368667--5368709	21	2.0	21	82	8	52	69	16	4	9	1.31
5368683--5368746	34	1.9	34	96	3	121	65	20	7	6	1.40
5369579--5369642	29	2.2	30	83	8	78	51	9	0	39	1.34
5369846--5369882	2	18.5	2	100	0	74	48	0	0	51	1.00
5370568--5370619	22	2.2	24	77	16	56	71	0	11	17	1.15
5384180--5385065	442	2.0	443	99	0	1747	38	9	11	40	1.74
5391377--5391664	23	12.6	22	73	14	129	12	24	21	41	1.88
5391395--5391716	48	7.2	44	75	14	259	12	23	21	42	1.87
5391505--5391714	39	4.9	39	70	18	132	12	24	21	41	1.88
5391486--5391718	62	3.6	62	75	14	243	12	24	21	41	1.88
5391411--5391741	135	2.5	135	94	2	569	12	24	21	41	1.88
5391544--5391718	23	7.7	23	72	17	143	12	24	21	42	1.87
5392484--5392771	23	12.6	22	73	14	129	12	24	21	41	1.88
5392502--5392823	48	7.2	44	75	14	259	12	23	21	42	1.87
5392612--5392821	39	4.9	39	70	18	132	12	24	21	41	1.88
5392593--5392825	62	3.6	62	75	14	243	12	24	21	41	1.88
5392518--5392848	135	2.5	135	94	2	569	12	24	21	41	1.88
5392651--5392825	23	7.7	23	72	17	143	12	24	21	42	1.87
5396909--5397049	23	6.2	22	75	10	106	46	21	19	12	1.83
5396909--5397047	69	2.0	67	85	10	183	46	20	20	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5396960--5397047	23	3.8	23	86	0	122	45	22	19	12	1.84
5398974--5399098	23	5.5	23	76	9	114	42	21	23	12	1.87
5398974--5399098	45	2.8	44	75	11	110	42	21	23	12	1.87
5410315--5410371	30	1.9	30	89	3	89	36	14	3	45	1.61
5421582--5421623	21	2.0	22	85	4	59	23	26	7	42	1.80
5424349--5424374	2	13.0	2	100	0	52	50	0	50	0	1.00
5427890--5427922	3	10.7	3	93	6	57	3	66	0	30	1.06
5443405--5443458	26	2.1	25	86	3	72	33	5	7	53	1.52
5459858--5459928	27	2.7	26	86	4	115	32	0	14	53	1.41
5461716--5461900	93	2.0	92	98	1	361	28	17	19	35	1.94
5465763--5465844	31	2.7	31	78	14	84	43	3	2	50	1.33
5475472--5475503	12	2.7	12	100	0	64	40	0	40	18	1.51
5480871--5480898	5	5.6	5	100	0	56	39	0	0	60	0.97
5500178--5500212	17	2.1	17	89	10	54	34	8	14	42	1.76
5501122--5501155	2	17.0	2	100	0	68	50	0	0	50	1.00
5509937--5509990	23	2.3	24	87	6	76	50	5	0	44	1.25
5521450--5521482	2	17.0	2	93	6	59	48	0	0	51	1.00
5525368--5525444	25	3.2	25	76	14	79	10	25	22	41	1.85
5525367--5525587	23	9.5	23	78	8	214	11	24	20	43	1.85
5525368--5525584	71	3.1	68	83	5	247	11	24	20	42	1.85
5527340--5527713	43	8.9	43	75	5	269	24	18	22	34	1.96
5527342--5527695	127	2.8	128	77	3	313	24	19	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5527715--5527999	43	6.7	43	79	3	245	24	19	20	35	1.95
5527609--5527808	106	1.9	106	84	2	267	22	21	21	35	1.96
5527572--5527843	149	1.8	149	83	1	366	24	20	21	34	1.97
5527732--5527999	86	3.1	86	80	0	277	25	18	20	35	1.95
5528206--5528343	41	3.3	41	72	4	125	27	19	18	34	1.96
5528227--5528418	84	2.3	84	81	5	210	26	19	20	34	1.96
5528425--5528654	43	5.3	43	78	6	250	23	21	21	33	1.97
5528425--5528655	86	2.7	86	81	5	288	22	22	21	33	1.97
5528703--5529358	43	15.4	43	78	3	436	24	19	19	36	1.95
5529024--5529324	126	2.4	128	81	1	345	23	19	21	35	1.96
5534132--5534579	41	11.0	41	87	3	620	30	23	29	16	1.96
5537072--5537299	43	5.3	43	85	4	300	23	19	27	30	1.98
5537072--5537300	86	2.7	86	88	2	345	23	19	27	30	1.98
5547307--5547335	2	14.5	2	100	0	58	48	0	0	51	1.00
5554337--5554363	3	9.0	3	100	0	54	66	0	0	33	0.92
5555992--5556037	17	2.5	19	80	19	62	43	0	2	54	1.12
5556003--5556072	21	3.4	19	72	20	52	41	1	1	55	1.17
5562607--5562675	27	2.5	27	77	17	70	42	1	1	55	1.18
5564127--5564187	19	3.2	19	75	15	54	39	0	1	59	1.08
5564144--5564193	25	2.0	26	84	11	68	36	2	2	60	1.20
5565299--5565367	35	2.0	35	85	5	95	53	11	10	24	1.68
5580293--5580363	31	2.3	31	82	4	90	49	1	8	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5583707--5583742	6	5.7	6	93	6	54	86	0	13	0	0.58
5583700--5583742	7	6.3	7	91	8	63	83	0	13	2	0.74
5583700--5583742	20	2.2	20	91	8	70	83	0	13	2	0.74
5583699--5583743	19	2.3	19	85	14	65	80	0	17	2	0.82
5585741--5585775	2	17.5	2	100	0	70	51	0	0	48	1.00
5590870--5590913	18	2.5	18	88	3	72	38	13	0	47	1.43
5601978--5602037	17	3.5	17	97	0	111	36	13	28	21	1.91
5607879--5607903	3	8.3	3	100	0	50	64	0	36	0	0.94
5609707--5609764	29	2.0	30	89	3	91	48	3	0	48	1.18
5614209--5614279	34	2.1	35	97	2	135	42	5	35	16	1.72

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