genome.fa.s4.2.7.7.80.10.50.1000.39.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  39  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)
12053191--12053221	6	5.2	6	92	0	53	16	0	48	35	1.46
12067183--12067349	80	2.1	80	89	0	253	41	16	16	24	1.89
12070521--12070551	3	10.3	3	100	0	62	32	0	0	67	0.91
12106588--12106656	27	2.6	27	76	17	72	49	0	2	47	1.16
12106763--12106812	25	2.0	25	88	0	73	44	6	0	50	1.26
12121445--12121600	80	2.0	80	82	5	192	47	8	5	39	1.56
12124447--12124603	54	2.8	54	83	5	190	30	21	15	33	1.94
12124590--12124824	60	3.9	58	77	3	166	30	17	13	38	1.88
12124669--12124827	60	2.7	59	82	2	192	31	15	13	38	1.87
12125624--12125678	17	3.5	16	73	19	53	60	1	10	27	1.41
12125624--12125727	30	3.5	30	86	0	118	63	2	5	27	1.32
12126898--12126940	21	2.0	21	95	0	77	60	4	6	27	1.43
12126902--12126949	21	2.2	21	85	3	60	68	2	4	25	1.18
12127821--12128088	134	2.0	134	97	0	500	24	15	32	27	1.95
12128063--12128123	22	2.8	22	82	0	77	22	8	29	39	1.83
12128216--12128932	84	8.5	84	93	1	1200	45	4	5	43	1.48
12128390--12128532	40	3.5	40	66	20	105	47	2	4	44	1.39
12128216--12128932	254	2.8	254	94	1	1233	45	4	5	43	1.48
12128216--12128932	338	2.1	338	93	1	1222	45	4	5	43	1.48
12128890--12128969	37	2.2	37	97	0	151	41	3	5	50	1.42
12129089--12129138	12	3.8	12	76	19	55	40	6	0	54	1.25
12129096--12129132	17	2.2	16	90	4	56	45	8	0	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12129089--12129153	28	2.4	28	81	2	69	40	9	0	50	1.34
12131415--12131451	18	2.1	18	89	0	56	24	27	0	48	1.51
12131748--12131783	18	2.1	18	89	5	56	33	25	0	41	1.55
12135412--12135464	23	2.3	22	80	9	52	26	0	11	62	1.29
12135481--12135511	14	2.1	15	94	5	55	41	0	0	58	0.98
12137100--12137457	171	2.1	172	88	3	533	30	23	26	19	1.98
12137779--12137949	87	1.9	87	79	9	186	50	8	7	33	1.60
12141963--12142125	85	1.9	85	83	3	213	46	4	4	44	1.46
12141955--12142137	85	2.2	85	78	9	203	46	4	4	44	1.43
12143730--12143773	2	22.0	2	95	0	79	47	0	50	2	1.13
12146502--12146527	12	2.2	12	100	0	52	69	7	0	23	1.14
12151348--12151402	21	2.5	21	80	11	58	52	23	16	7	1.68
12163362--12163406	21	2.1	22	87	4	65	26	15	20	37	1.92
12175274--12175312	21	2.0	21	85	14	57	61	0	7	30	1.24
12178063--12178096	15	2.3	15	94	0	59	38	2	0	58	1.13
12181396--12181527	55	2.3	57	83	7	153	35	13	12	38	1.82
12182072--12182117	21	2.2	21	88	7	67	32	15	23	28	1.95
12182508--12182642	56	2.4	57	77	6	148	26	25	14	32	1.95
12185877--12185914	16	2.4	16	91	4	60	52	5	7	34	1.53
12185921--12185965	23	2.0	23	86	8	65	46	2	2	48	1.26
12185894--12186021	60	2.1	60	82	7	152	50	2	5	42	1.38
12185934--12186145	12	18.6	11	73	16	73	50	1	9	38	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12185980--12186018	13	3.2	12	86	10	53	53	0	5	41	1.23
12185986--12186145	6	27.2	6	77	8	53	50	1	11	37	1.46
12185934--12186134	18	11.5	16	73	18	75	50	1	9	37	1.45
12186440--12186507	22	3.3	21	73	23	63	57	1	2	38	1.23
12186470--12186546	22	3.5	21	77	5	82	51	3	2	41	1.34
12187644--12187669	10	2.6	10	100	0	52	7	42	19	30	1.79
12191356--12191582	41	5.5	41	83	2	213	26	24	11	37	1.89
12191382--12191587	41	5.0	41	84	4	227	26	24	11	37	1.89
12192375--12192422	22	2.2	21	77	3	51	35	14	0	50	1.44
12198544--12198702	41	3.9	41	84	2	203	25	25	9	39	1.86
12199451--12199502	3	17.3	3	95	0	95	65	1	32	0	1.04
12199923--12200038	11	10.6	11	64	15	53	31	4	3	61	1.32
12199929--12200056	20	6.6	20	69	20	76	31	4	4	59	1.38
12200092--12200145	22	2.5	22	90	0	81	31	5	1	61	1.30
12201092--12201149	30	1.9	30	92	0	98	31	1	6	60	1.33
12201981--12202172	59	3.4	56	78	9	194	33	17	19	29	1.95
12211943--12211987	20	2.2	20	84	7	56	53	2	13	31	1.52
12217095--12217308	41	5.2	41	83	0	266	38	10	24	26	1.87
12217095--12217308	82	2.6	82	88	0	329	38	10	24	26	1.87
12223319--12223377	22	2.7	21	80	17	59	16	11	1	69	1.26
12225584--12225920	136	2.5	135	86	6	457	39	8	9	42	1.68
12228614--12228658	21	2.1	22	83	4	56	28	22	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12230270--12230329	30	2.0	30	86	0	84	21	25	15	38	1.92
12230389--12230424	16	2.2	16	95	0	63	30	8	0	61	1.26
12231087--12231122	18	2.0	18	88	0	54	33	8	5	52	1.55
12231371--12231420	25	1.9	26	84	15	68	22	2	4	72	1.12
12238118--12238154	19	1.9	19	94	0	65	18	10	10	59	1.59
12245867--12245927	6	10.2	6	98	0	113	50	14	0	34	1.43
12247237--12247273	19	2.0	18	89	5	56	56	0	0	43	0.99
12248112--12248205	44	2.1	44	82	7	109	27	3	27	41	1.71
12248300--12248384	26	3.4	26	67	18	81	47	3	3	45	1.37
12249841--12249921	40	2.0	40	90	0	126	37	13	11	38	1.80
12255383--12255417	17	2.0	18	94	5	63	54	0	0	45	0.99
12256037--12256079	22	2.0	21	86	4	59	51	13	0	34	1.42
12259638--12259683	21	2.2	22	85	14	62	21	26	6	45	1.76
12262428--12262472	23	2.1	21	88	12	65	26	13	0	60	1.34
12262845--12262917	24	3.0	24	87	0	110	26	10	5	57	1.54
12264819--12264880	23	2.6	24	79	5	81	24	11	11	53	1.69
12278851--12278897	24	2.0	23	83	4	58	59	0	40	0	0.97
12283254--12283543	52	5.6	52	85	4	354	25	14	24	35	1.93
12288697--12288928	52	4.5	52	82	5	265	25	14	24	35	1.93
12296372--12296410	20	2.0	20	84	0	51	33	5	5	56	1.43
12317254--12317442	51	3.6	52	77	6	195	28	24	14	31	1.95
12324052--12324094	15	3.0	14	80	12	52	34	2	2	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12324170--12324225	24	2.4	25	80	17	66	62	5	8	23	1.45
12327737--12327843	10	11.6	10	69	16	63	65	3	0	30	1.10
12327740--12327843	19	5.7	18	72	14	79	65	3	0	30	1.10
12327740--12327843	27	3.8	27	83	11	115	65	3	0	30	1.10
12327740--12327843	9	11.4	9	75	20	76	65	3	0	30	1.10
12327735--12327857	18	6.8	18	71	15	69	63	4	0	32	1.13
12328886--12328940	16	3.4	16	74	0	56	34	1	14	49	1.54
12329439--12329485	24	2.0	24	91	0	76	46	10	6	36	1.64
12329440--12329495	24	2.3	24	84	0	67	50	8	5	35	1.57
12331513--12331598	26	3.3	26	64	20	70	52	13	2	31	1.54
12331503--12331620	53	2.2	53	93	0	200	50	16	1	32	1.55
12331518--12331635	53	2.2	53	89	1	173	51	14	1	32	1.52
12337981--12338043	24	2.6	24	82	0	72	52	7	14	25	1.68
12339649--12339707	18	3.2	17	80	11	55	52	0	3	44	1.17
12340051--12340109	9	6.3	9	74	14	57	32	1	0	66	1.02
12340358--12340513	81	1.9	81	92	2	260	40	13	3	42	1.62
12340813--12340905	45	2.1	45	85	0	123	25	30	17	26	1.97
12341202--12341373	80	2.2	80	91	0	281	39	4	16	40	1.67
12359107--12359186	38	2.1	38	88	9	119	32	1	3	62	1.21
12361870--12361896	7	3.9	7	100	0	54	14	14	70	0	1.17
12370973--12371016	21	2.1	21	83	8	54	22	18	38	20	1.93
12376379--12376455	30	2.6	30	82	0	91	18	38	11	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12380495--12380596	30	3.4	31	79	6	129	22	39	10	27	1.87
12384876--12384934	30	2.0	30	86	0	82	22	37	10	30	1.87
12386085--12386115	15	2.0	16	93	6	55	25	19	29	25	1.99
12393157--12393336	80	2.2	79	89	5	279	38	18	5	36	1.75
12394420--12394477	23	2.4	24	75	16	57	44	1	1	51	1.21
12398686--12398963	28	9.6	28	74	12	129	35	2	26	34	1.72
12398666--12398966	87	3.5	86	77	10	251	34	3	26	35	1.73
12398714--12398990	29	9.6	29	79	8	185	35	3	26	34	1.74
12398666--12398992	29	11.3	28	75	10	164	34	3	26	34	1.75
12398666--12398990	58	5.6	57	74	12	236	34	4	26	34	1.75

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