genome.fa.s4.2.7.7.80.10.50.1000.52.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  52  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)
16064655--16064806	51	3.0	48	71	20	123	28	20	17	33	1.95
16064356--16065128	304	2.5	303	86	3	1020	28	19	16	35	1.94
16064750--16065135	202	1.9	202	85	3	526	30	18	16	34	1.93
16074241--16074272	3	10.7	3	93	0	55	0	31	0	68	0.90
16081514--16081568	24	2.2	24	83	3	65	23	18	12	45	1.83
16084525--16084553	3	9.7	3	100	0	58	34	0	34	31	1.58
16089252--16089323	16	4.7	16	73	20	64	34	6	1	56	1.35
16089362--16089411	19	2.5	22	71	18	54	38	14	0	48	1.44
16094667--16094721	24	2.2	24	87	3	74	25	16	10	47	1.79
16098891--16098934	23	2.0	22	86	4	61	38	0	15	45	1.47
16119465--16119568	36	2.9	36	85	0	154	34	14	26	24	1.94
16119630--16119669	18	2.2	18	95	0	71	27	5	20	47	1.70
16128313--16128397	15	5.7	15	72	5	64	22	21	24	31	1.98
16138834--16138875	17	2.5	16	88	11	66	0	23	0	76	0.79
16160813--16160855	17	2.6	16	82	17	52	13	11	13	60	1.59
16163033--16163081	23	2.1	23	84	3	62	30	16	4	48	1.64
16168482--16168534	21	2.5	21	100	0	106	15	9	11	64	1.50
16169394--16169454	31	2.0	31	83	6	79	63	1	3	31	1.20
16169516--16169587	8	8.4	8	73	13	54	75	2	4	18	1.09
16169514--16169584	27	2.7	27	78	6	74	73	2	4	19	1.13
16170076--16170133	25	2.2	25	84	9	71	31	10	1	56	1.43
16170073--16170136	28	2.3	28	81	5	76	28	9	1	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16179353--16179396	20	2.0	20	83	12	52	63	0	29	6	1.20
16179474--16179517	21	2.0	22	86	4	63	61	2	34	2	1.21
16180326--16180355	16	1.9	16	93	6	53	36	0	6	56	1.26
16184010--16184100	45	2.0	45	86	0	128	30	15	26	27	1.96
16184115--16184155	19	2.2	19	95	0	73	26	19	29	24	1.98
16184167--16184239	35	2.0	36	84	10	96	35	13	24	26	1.93
16185667--16185789	25	4.9	25	80	2	131	34	26	17	21	1.96
16185687--16185789	50	2.1	50	92	0	170	33	24	17	24	1.96
16211176--16211729	275	2.0	275	92	0	930	26	21	21	31	1.98
16222230--16222275	23	2.0	23	83	8	58	30	23	19	26	1.98
16229974--16230046	35	2.0	36	86	5	103	35	12	23	28	1.91
16239594--16239637	21	2.1	21	91	0	70	27	29	13	29	1.94
16239597--16239648	21	2.5	22	81	12	65	28	30	13	26	1.94
16240352--16240534	41	4.4	41	88	2	240	25	28	10	35	1.90
16244558--16244623	21	3.1	21	100	0	132	18	33	10	37	1.85
16245975--16246029	21	2.6	21	91	0	92	29	27	12	30	1.93
16246649--16246888	41	5.7	42	77	5	135	25	27	11	35	1.90
16246649--16246888	43	5.7	43	76	6	152	25	27	11	35	1.90
16246765--16246875	41	2.7	41	94	0	195	22	30	12	34	1.91
16253915--16253991	23	3.2	23	63	22	59	37	14	7	40	1.75
16253903--16254010	49	2.2	49	91	3	182	38	14	8	37	1.77
16259450--16259549	26	3.8	26	93	1	164	45	21	4	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16260267--16260295	12	2.4	12	100	0	58	0	34	0	65	0.93
16269051--16269101	21	2.4	21	87	6	68	31	25	13	29	1.94
16269861--16270041	52	3.5	52	92	0	299	37	22	13	27	1.91
16272426--16272495	24	2.9	24	86	0	95	24	22	25	27	2.00
16276588--16276681	24	3.9	24	85	2	127	24	23	26	25	2.00
16282346--16282403	27	2.2	25	82	8	71	41	1	6	50	1.39
16282353--16282408	27	2.1	26	90	3	85	42	1	5	50	1.35
16282516--16282594	34	2.4	33	79	10	81	43	5	20	31	1.73
16283620--16283668	19	2.5	20	80	12	57	44	2	16	36	1.59
16290328--16290491	82	2.0	82	95	0	292	35	20	12	31	1.90
16306526--16306555	12	2.5	12	94	0	51	10	6	0	83	0.81
16306509--16306553	23	2.0	23	83	8	58	13	8	4	73	1.23
16313528--16313583	21	2.7	21	82	0	76	23	10	26	39	1.87
16317273--16317310	18	2.1	18	85	9	51	26	10	13	50	1.73
16317355--16317399	23	2.0	23	86	0	63	35	20	13	31	1.91
16318360--16318507	26	5.7	26	77	3	145	26	18	20	33	1.96
16318366--16318522	78	2.0	79	85	6	212	26	17	21	35	1.95
16318360--16318507	52	2.8	52	79	7	165	26	18	20	33	1.96
16324711--16324758	21	2.3	21	79	10	55	64	2	6	27	1.28
16328847--16328975	63	2.0	63	92	0	213	28	23	9	38	1.85
16333385--16333451	23	2.9	23	88	0	98	28	17	31	22	1.97
16337549--16337619	31	2.3	31	83	11	85	22	14	19	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16339550--16339613	29	2.2	29	83	2	76	53	4	4	37	1.43
16341712--16341754	16	2.6	16	88	3	59	25	4	6	62	1.40
16342278--16342304	2	13.5	2	100	0	54	51	0	0	48	1.00
16345021--16345063	13	3.1	14	84	12	54	60	0	0	39	0.97
16345413--16345439	9	3.0	9	100	0	54	55	0	22	22	1.44
16346453--16346500	23	2.0	25	84	8	64	14	12	2	70	1.25
16349122--16349157	15	2.4	15	90	9	56	75	2	2	19	1.06
16349334--16349362	3	9.7	3	100	0	58	68	31	0	0	0.89
16349776--16349830	24	2.3	24	87	0	74	7	9	16	67	1.40
16350136--16350477	170	2.0	170	99	0	675	40	12	16	30	1.86
16350874--16350913	20	2.1	20	86	9	57	15	5	15	65	1.44
16353078--16353133	18	3.1	18	84	2	67	26	19	19	33	1.96
16360008--16360067	18	3.3	18	78	0	75	30	26	21	21	1.99
16365262--16365355	40	2.4	40	89	1	136	28	22	18	30	1.97
16366871--16366942	13	5.5	13	77	6	74	38	16	1	43	1.57
16367168--16367468	45	6.7	45	83	4	306	22	23	14	38	1.92
16367168--16367468	135	2.2	134	81	4	338	22	23	14	38	1.92
16378978--16379039	25	2.4	25	83	5	79	46	8	25	19	1.77
16378992--16379050	25	2.4	25	91	5	95	40	8	30	20	1.82
16381629--16381659	15	2.1	15	100	0	62	0	32	0	67	0.91
16387237--16387298	18	3.6	18	69	20	60	12	20	27	38	1.90
16390047--16390204	25	6.4	25	88	1	203	43	20	6	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16393104--16393143	21	1.9	21	84	0	53	17	22	10	50	1.76
16403152--16403208	20	2.7	21	86	5	80	47	29	1	21	1.61
16403132--16403205	14	5.4	14	69	15	55	45	32	1	20	1.59
16403206--16403349	64	2.3	63	95	1	252	48	2	12	36	1.56
16403370--16403412	17	2.4	18	92	7	79	51	18	4	25	1.66
16404163--16404259	43	2.3	43	92	0	158	45	13	12	28	1.80
16405185--16405224	19	2.1	19	85	0	53	45	15	2	37	1.59
16405840--16405865	12	2.2	12	100	0	52	69	0	0	30	0.89
16405892--16405934	12	3.6	12	81	9	52	0	30	0	69	0.88
16406873--16406914	14	2.9	15	78	7	59	59	0	0	40	0.97
16406873--16406934	29	2.1	29	82	11	74	59	0	3	37	1.13
16407461--16407498	19	2.1	19	90	5	60	31	15	13	39	1.86
16407467--16407508	19	2.2	19	83	8	50	35	11	9	42	1.74
16411757--16411819	24	2.6	24	87	0	90	50	9	14	25	1.72
16419587--16419672	28	3.2	26	80	6	84	65	2	3	29	1.22
16419625--16419677	16	3.2	16	76	10	54	64	0	3	32	1.12
16419684--16419733	19	2.7	18	87	9	73	58	8	0	34	1.28
16419674--16419996	10	33.3	9	68	18	93	58	4	1	35	1.29
16419857--16419920	28	2.3	27	84	12	78	64	1	0	34	1.03
16421313--16421683	59	6.4	57	79	8	324	32	4	28	34	1.78
16421313--16421684	87	4.3	86	78	11	382	32	4	28	34	1.78
16421311--16421684	29	12.8	29	79	10	347	32	5	28	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16425592--16425720	63	2.0	63	89	2	197	27	24	10	37	1.87
16429622--16429675	26	2.0	27	82	3	65	50	27	3	18	1.64
16430154--16430215	23	2.7	23	90	5	81	29	20	29	20	1.98
16434311--16434381	31	2.3	30	86	11	92	21	14	21	43	1.87
16436323--16436386	29	2.2	29	83	2	76	53	4	4	37	1.43
16438466--16438520	17	3.2	17	78	16	60	23	3	9	63	1.40
16438807--16438831	2	12.5	2	100	0	50	52	0	0	48	1.00
16441536--16441579	13	3.2	14	81	15	56	59	0	0	40	0.98
16442956--16442995	18	2.3	17	86	4	53	17	10	0	72	1.11
16445594--16445629	15	2.4	15	90	9	56	75	2	2	19	1.06

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