genome.fa.s4.2.7.7.80.10.50.1000.40.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  40  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)
12398714--12398992	30	9.6	29	77	10	171	35	3	26	34	1.74
12400019--12400068	18	2.5	20	75	12	50	42	0	2	56	1.11
12400670--12400741	17	4.2	17	80	1	90	56	5	1	36	1.31
12401089--12401584	39	12.7	39	69	3	246	27	19	28	25	1.98
12401086--12401602	78	6.6	78	82	1	561	26	19	28	25	1.99
12403865--12403938	3	24.0	3	94	5	130	0	32	0	67	0.91
12413975--12414215	29	8.3	28	78	9	134	34	2	26	36	1.69
12413975--12414212	87	2.7	83	77	11	221	33	2	27	36	1.69
12414012--12414173	58	2.8	57	85	6	202	33	1	27	36	1.68
12415888--12415946	17	3.5	17	83	0	82	55	5	1	37	1.32
12416377--12416415	20	1.9	20	85	15	53	64	2	0	33	1.08
12416492--12416535	14	3.1	14	78	12	54	75	0	2	22	0.92
12416550--12416646	20	4.6	21	68	10	72	60	3	6	29	1.36
12416627--12416675	16	3.0	16	80	14	55	67	0	4	28	1.09
12416635--12416679	17	2.7	17	82	3	56	68	0	2	28	1.01
12417541--12417622	29	2.9	28	76	7	85	34	3	1	60	1.22
12418686--12418732	21	2.2	22	78	17	55	19	0	17	63	1.30
12423707--12423752	22	2.0	23	95	4	85	60	0	0	39	0.97
12423719--12423780	31	2.0	31	87	0	88	56	3	0	40	1.15
12424174--12424255	31	2.8	27	80	14	83	39	0	10	50	1.38
12426641--12426806	30	5.7	29	80	6	147	33	25	2	37	1.69
12437756--12437852	46	2.1	46	94	0	167	37	13	27	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12440424--12440494	31	2.3	32	79	13	87	50	1	5	42	1.34
12445952--12446016	29	2.2	28	86	10	87	46	1	3	49	1.27
12445960--12446038	31	2.6	29	84	8	86	43	5	6	45	1.51
12448047--12448226	58	3.1	57	82	8	202	31	18	10	38	1.85
12448244--12448366	59	2.1	59	84	3	156	42	13	12	32	1.81
12449987--12450105	58	2.1	58	98	0	229	40	22	12	24	1.89
12456105--12456233	36	3.7	36	72	19	130	49	2	1	46	1.23
12458216--12458325	30	3.7	29	81	6	114	46	0	1	50	1.18
12458216--12458318	29	3.4	29	86	4	143	47	0	1	49	1.19
12465005--12465051	16	3.0	16	90	9	71	76	0	21	2	0.89
12465030--12465137	52	2.1	51	89	1	171	58	12	18	10	1.62
12466275--12466589	102	2.9	110	85	9	457	29	21	13	35	1.91
12467010--12467151	49	2.9	49	71	9	126	33	17	29	19	1.95
12467020--12467206	99	1.9	99	86	2	268	32	18	29	19	1.96
12467197--12467381	49	3.8	49	73	6	135	35	17	28	18	1.93
12467776--12468273	122	4.1	122	80	3	545	37	16	23	22	1.93
12468224--12468564	96	3.6	96	85	0	466	33	16	26	24	1.95
12471839--12471882	15	2.8	16	86	3	54	75	0	22	2	0.92
12473105--12473421	112	2.8	112	82	3	406	29	20	12	37	1.89
12473844--12474161	99	3.2	99	78	4	295	37	15	26	19	1.92
12473981--12474230	98	2.6	98	80	5	240	38	16	24	20	1.92
12474049--12474238	49	3.9	49	72	2	150	40	16	21	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12474535--12474614	42	1.9	42	92	0	133	27	27	18	26	1.98
12474617--12475105	122	4.0	122	81	4	526	37	17	22	22	1.94
12475062--12475403	96	3.6	96	87	0	513	33	17	25	23	1.96
12481245--12481315	7	10.3	7	76	8	65	33	26	22	16	1.96
12481242--12481283	20	2.1	20	95	0	75	40	23	21	14	1.90
12481245--12481313	27	2.5	28	88	11	99	34	27	21	15	1.94
12481348--12481377	15	2.0	15	93	0	51	20	3	33	43	1.68
12481361--12481428	21	3.2	21	91	2	109	22	0	33	44	1.53
12481797--12481836	11	3.5	11	83	6	53	72	0	25	2	0.97
12488297--12488367	7	10.3	7	74	8	56	35	26	21	16	1.95
12488294--12488335	20	2.1	20	95	0	75	40	23	21	14	1.90
12488297--12488365	27	2.5	28	84	11	90	36	27	20	15	1.93
12488400--12488429	15	2.0	15	93	0	51	20	3	33	43	1.68
12488413--12488480	21	3.2	21	87	2	100	23	0	32	44	1.54
12488850--12488924	11	6.5	11	73	14	62	69	0	25	5	1.09
12488850--12488922	23	3.1	23	75	11	67	69	0	24	5	1.09
12490834--12490870	17	2.1	17	90	5	56	16	2	0	81	0.81
12497000--12497083	9	9.7	9	69	17	52	35	2	1	60	1.17
12497960--12498000	19	2.2	19	86	8	57	56	0	2	41	1.13
12498213--12498246	13	2.5	14	85	9	52	47	5	0	47	1.26
12498313--12498369	22	2.5	23	83	11	73	40	1	0	57	1.09
12501637--12501830	30	6.7	29	78	8	171	35	4	19	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12501681--12501839	85	1.9	87	84	7	218	33	3	19	43	1.67
12503614--12503881	79	3.4	77	81	5	288	24	16	26	32	1.96
12503673--12503915	118	2.1	119	85	5	332	24	17	24	33	1.96
12503998--12504105	50	2.2	50	87	0	162	19	25	19	35	1.95
12504015--12504125	50	2.2	50	88	0	159	20	22	21	35	1.96
12510642--12510702	31	2.0	31	87	6	88	44	14	14	26	1.84
12514142--12514199	18	3.4	17	77	20	59	67	10	0	22	1.21
12514251--12514434	30	6.2	30	71	10	119	33	4	21	40	1.73
12517184--12517230	24	1.9	25	91	4	78	53	12	4	29	1.58
12517203--12517257	19	2.8	19	81	10	67	52	12	7	27	1.65
12519631--12519676	22	2.1	22	84	4	58	54	2	10	32	1.47
12519729--12519854	68	1.9	66	85	6	173	42	6	11	40	1.66
12520850--12520908	31	1.9	31	82	0	73	33	15	8	42	1.77
12525655--12525684	15	2.0	15	93	0	51	56	0	0	43	0.99
12528326--12528519	97	2.0	97	88	0	289	36	17	19	27	1.93
12528829--12529131	30	10.3	29	79	4	234	38	2	24	33	1.71
12528818--12529120	60	5.1	60	81	7	318	38	2	24	34	1.70
12530485--12530525	15	2.8	14	92	3	55	26	4	4	63	1.35
12530493--12530525	15	2.2	15	100	0	66	24	6	6	63	1.40
12530852--12530893	6	7.2	6	86	5	59	47	2	0	50	1.14
12530853--12530885	17	1.9	17	100	0	66	42	0	0	57	0.98
12530852--12530904	23	2.3	23	83	0	61	50	3	0	45	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12531461--12531882	39	10.8	39	71	8	247	26	22	29	21	1.99
12531456--12531720	78	3.4	77	87	2	377	24	21	31	22	1.98
12531578--12531837	116	2.2	117	86	1	351	27	23	28	20	1.99
12531728--12532111	78	4.9	77	77	5	351	29	21	25	23	1.99
12531500--12531915	194	2.1	193	82	6	498	27	22	28	21	1.99
12531498--12532115	39	15.9	39	68	7	162	27	21	27	23	1.99
12531744--12532111	155	2.4	155	82	2	416	29	19	26	23	1.98
12531456--12531992	272	2.0	272	84	2	695	27	21	29	21	1.99
12531695--12532115	233	1.8	234	80	4	519	29	20	26	23	1.99
12532099--12532233	41	3.2	41	86	3	180	33	14	18	33	1.92
12533329--12533384	20	2.8	20	76	10	53	5	14	0	80	0.88
12533330--12533386	22	2.5	23	80	8	62	7	14	0	78	0.94
12533353--12533399	24	2.0	23	84	12	60	8	12	0	78	0.95
12537871--12538059	97	2.0	96	84	3	245	37	17	17	27	1.93
12538335--12538806	29	16.2	29	75	11	268	36	1	24	36	1.67
12538335--12538788	58	7.8	58	78	8	345	36	1	25	36	1.66
12538341--12538796	117	3.9	116	79	7	433	36	1	24	36	1.67
12538335--12538807	88	5.4	88	77	9	337	36	1	24	36	1.67
12540500--12540630	17	7.6	17	85	3	172	56	3	1	38	1.27
12540497--12540601	23	4.6	22	79	13	90	54	1	1	41	1.22
12540500--12540630	35	3.8	34	91	4	192	56	3	1	38	1.27
12540499--12540630	52	2.5	52	87	2	176	56	3	1	38	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12540497--12540601	6	18.2	6	79	14	114	54	1	1	41	1.22
12544529--12544781	126	2.0	126	100	0	506	34	15	6	44	1.71
12544946--12545011	23	2.9	22	86	6	87	50	0	0	50	1.00
12545944--12545998	20	2.7	21	83	11	69	67	3	3	25	1.23
12545985--12546103	9	13.8	9	80	12	69	58	3	0	37	1.15
12545996--12546039	7	6.1	7	87	12	63	59	0	0	40	0.98
12545990--12546039	23	2.2	23	86	10	68	58	0	0	42	0.98
12546016--12546101	44	2.0	44	84	13	115	58	4	0	37	1.19
12546076--12546115	20	2.0	20	90	0	62	60	5	0	35	1.19
12551980--12552211	115	2.0	115	100	0	464	28	12	31	26	1.93

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