genome.fa.s4.2.7.7.80.10.50.1000.12.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  12  of  193  ( 23090 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)
4328904--4328946	11	3.9	11	82	8	52	53	4	0	41	1.21
4329291--4330220	200	4.6	200	94	0	1590	17	22	22	37	1.94
4342198--4342508	28	10.7	28	67	22	151	35	2	28	33	1.70
4342199--4342551	59	6.1	59	84	7	420	35	2	28	34	1.70
4344489--4344551	6	11.2	6	71	19	55	53	3	0	42	1.16
4344478--4344540	27	2.3	28	83	5	83	52	3	1	42	1.27
4344489--4344533	16	2.8	16	93	3	72	57	0	0	42	0.98
4344504--4344553	23	2.2	24	79	17	61	54	4	0	42	1.19
4344511--4344553	11	3.9	11	82	8	52	53	4	0	41	1.21
4345443--4345550	54	2.0	54	100	0	216	44	20	16	18	1.87
4347985--4348062	30	2.6	30	85	4	95	47	0	1	51	1.09
4354367--4354411	18	2.5	18	85	0	63	17	13	15	53	1.73
4357141--4357568	58	7.4	58	90	3	636	33	3	30	32	1.73
4357657--4357974	162	2.0	161	94	1	557	44	12	16	26	1.83
4359311--4359395	6	15.0	6	75	11	81	55	1	0	43	1.07
4359329--4359397	11	6.1	11	74	15	52	57	1	0	40	1.07
4359311--4359388	17	4.6	17	87	6	106	56	1	0	42	1.07
4374787--4375018	121	1.9	120	91	0	374	31	23	16	28	1.96
4377151--4377213	32	2.0	32	84	12	85	53	4	11	30	1.56
4381635--4381693	26	2.4	25	82	5	75	28	0	3	67	1.06
4381616--4381693	24	3.1	24	79	5	75	32	0	5	62	1.17
4382394--4382434	21	2.0	21	86	13	59	53	4	4	36	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4393712--4393755	19	2.3	19	84	7	54	40	2	0	56	1.11
4396597--4396874	62	4.5	61	86	4	346	26	20	17	35	1.94
4397692--4397783	30	3.1	30	84	6	98	61	5	7	25	1.44
4398289--4398335	24	2.0	24	86	0	67	2	31	38	27	1.69
4399167--4399199	14	2.3	15	85	15	52	72	0	3	24	0.98
4400206--4400489	86	3.3	86	95	2	484	51	4	6	37	1.48
4400491--4400605	55	2.0	58	86	5	164	34	15	19	30	1.93
4403330--4403590	59	4.4	59	80	2	249	35	4	26	32	1.78
4403457--4403552	31	3.2	31	66	19	85	36	3	27	33	1.73
4403538--4403638	30	3.4	29	76	11	98	38	6	22	31	1.81
4405149--4405212	27	2.4	27	84	7	78	31	10	20	37	1.87
4405167--4405220	27	2.0	27	96	0	99	24	14	24	37	1.93
4405588--4405633	23	2.0	23	83	8	58	34	2	4	58	1.30
4405601--4405645	17	2.6	17	89	0	63	40	0	2	57	1.11
4405597--4405645	23	2.2	22	88	3	71	38	0	2	59	1.09
4407880--4407934	25	2.2	26	81	15	71	20	12	18	49	1.79
4409872--4409918	15	3.2	15	76	11	53	21	0	6	72	1.07
4410609--4410657	11	4.5	11	76	7	55	65	2	32	0	1.04
4410594--4410633	4	9.8	4	83	5	53	72	2	22	2	1.09
4413963--4414006	21	2.1	21	86	0	61	25	15	34	25	1.95
4414001--4414091	45	2.0	45	93	0	155	20	20	27	30	1.98
4416826--4416868	21	2.1	20	91	4	68	58	13	0	27	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416943--4417020	23	3.3	22	71	20	59	65	10	0	24	1.23
4417201--4417245	7	6.7	7	92	2	67	0	42	0	57	0.98
4418578--4418633	29	1.9	29	82	7	69	41	3	7	48	1.48
4421467--4421521	27	2.0	27	89	0	83	36	23	29	10	1.89
4421686--4421726	11	3.5	11	84	12	55	68	0	31	0	0.90
4422700--4422733	3	11.3	3	87	0	50	0	61	0	38	0.96
4424456--4424557	30	3.4	30	66	8	82	45	11	4	38	1.62
4424592--4424636	14	2.9	16	69	24	51	37	0	4	57	1.19
4424831--4425093	94	2.8	94	91	3	420	46	12	1	39	1.51
4425304--4425363	4	16.0	4	77	16	58	0	28	0	71	0.86
4425312--4425363	7	7.4	7	76	8	52	0	28	0	71	0.87
4425305--4425365	31	2.0	31	93	0	104	0	31	0	68	0.89
4426129--4426168	15	2.6	15	82	17	55	67	0	0	32	0.91
4426129--4426167	16	2.5	16	84	15	55	66	0	0	33	0.92
4426299--4426338	16	2.5	17	84	12	57	67	0	0	32	0.91
4426302--4426338	18	2.1	18	85	14	51	64	0	0	35	0.94
4426112--4426450	171	2.0	170	97	0	642	43	8	11	37	1.71
4430349--4430466	3	41.7	3	68	17	56	66	4	4	25	1.28
4430349--4430450	17	6.0	17	70	16	68	65	4	2	26	1.27
4430346--4430468	11	10.5	11	71	14	86	66	4	4	25	1.27
4430385--4430433	14	3.5	14	78	10	55	67	6	0	26	1.14
4430438--4430494	22	2.6	22	80	0	69	64	10	7	17	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4431488--4431512	6	4.2	6	100	0	50	0	16	0	84	0.63
4431527--4431576	25	2.0	25	92	0	82	38	18	8	36	1.80
4444230--4444270	15	2.5	17	80	11	59	63	0	2	34	1.08
4444479--4444522	18	2.4	18	76	0	52	63	4	0	31	1.14
4444980--4445012	16	1.9	18	88	11	52	51	9	0	39	1.34
4448134--4448184	13	4.0	12	82	10	57	72	1	25	0	0.95
4454717--4454747	16	1.9	16	93	0	53	38	3	9	48	1.52
4455382--4455462	31	2.6	31	84	0	99	50	13	14	20	1.77
4462727--4462778	13	3.7	13	76	18	50	46	0	0	53	1.00
4462735--4462768	17	2.1	16	94	5	59	41	0	0	58	0.98
4464589--4464812	30	7.6	28	69	23	115	32	28	3	36	1.74
4464591--4464813	59	3.8	58	86	3	284	32	28	3	35	1.74
4464591--4464813	118	1.9	118	85	1	313	32	28	3	35	1.74
4464736--4464828	29	3.2	28	72	19	73	31	31	0	37	1.58
4464584--4464842	118	2.2	117	80	4	292	32	27	3	35	1.74
4464594--4464842	59	4.2	57	84	4	178	32	27	3	36	1.74
4476344--4477253	200	4.6	200	90	0	1435	35	21	22	20	1.96
4477602--4477669	17	4.1	17	78	1	75	42	1	1	54	1.18
4477705--4477740	13	2.6	15	83	16	51	52	22	8	16	1.70
4478399--4478505	9	11.6	9	71	16	58	55	0	5	38	1.30
4478473--4478509	3	12.0	3	94	5	65	64	0	0	35	0.94
4479506--4479635	29	4.5	29	71	21	103	34	30	0	33	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4479505--4479635	58	2.3	58	83	10	153	35	30	0	33	1.64
4481726--4481801	39	1.9	40	83	2	100	32	11	1	53	1.45
4485701--4485751	26	2.0	26	88	0	75	45	3	0	50	1.20
4486089--4486216	24	5.2	24	70	21	70	58	0	0	40	1.03
4486091--4486138	12	3.8	13	81	18	57	66	0	2	31	1.03
4486173--4486222	6	8.2	6	82	12	57	56	0	0	44	0.99
4486948--4486990	15	2.9	14	83	10	50	30	2	0	67	1.03
4491516--4491544	6	5.0	6	91	8	51	0	0	86	13	0.58
4496095--4496152	6	9.7	6	94	0	80	6	15	60	17	1.56
4496095--4496152	18	3.2	18	92	0	89	6	15	60	17	1.56
4496095--4496152	12	4.8	12	95	0	89	6	15	60	17	1.56
4501600--4501762	81	2.0	81	93	2	283	30	15	28	25	1.96
4516173--4516204	15	2.1	15	94	0	55	59	0	12	28	1.34
4517612--4517676	31	2.1	31	94	0	112	50	18	13	16	1.78
4518571--4518624	27	2.0	27	100	0	108	40	18	11	29	1.85
4518992--4519020	15	1.9	15	100	0	58	24	34	6	34	1.82
4519165--4519194	14	2.1	14	100	0	60	53	0	36	10	1.35
4519339--4519464	66	1.9	66	95	0	225	49	16	6	27	1.70
4519874--4519938	29	2.3	27	82	15	69	60	7	16	15	1.58
4533620--4533705	20	4.1	22	78	10	101	16	17	30	36	1.92
4536322--4536474	30	5.2	30	64	17	86	34	2	28	33	1.71
4536367--4536455	29	3.0	29	68	20	85	31	3	32	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4536250--4536507	59	4.4	59	89	1	356	35	3	28	31	1.75
4541229--4541271	21	2.0	21	90	0	68	27	27	18	25	1.98
4542895--4543057	81	2.0	81	93	2	283	30	15	28	25	1.96
4544802--4544927	38	3.1	38	67	22	112	36	8	7	47	1.62
4544766--4544932	83	2.0	83	100	0	334	34	9	8	47	1.66
4544778--4544908	42	3.1	42	68	22	130	35	9	8	45	1.68
4546140--4546235	31	3.1	31	96	0	174	51	17	13	17	1.77
4546702--4546753	26	2.0	26	100	0	104	42	11	19	26	1.85
4547077--4547242	81	2.1	77	85	6	217	31	16	26	25	1.97
4547286--4547337	13	4.5	13	68	26	53	25	21	7	46	1.77

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   183   184   185   186   187   188   189   190   191   192   
          193