genome.fa.s4.2.7.7.80.10.50.1000.14.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  14  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)
5014242--5014403	64	2.6	62	91	3	270	12	21	22	43	1.85
5018699--5018732	16	2.1	16	88	0	50	52	0	23	23	1.47
5020671--5020855	23	8.2	23	77	16	190	12	23	22	41	1.88
5020671--5020850	48	4.0	45	77	15	194	12	22	22	41	1.88
5020756--5020832	41	1.9	39	86	5	109	12	22	22	42	1.87
5020689--5020900	87	2.4	84	76	11	232	11	22	22	43	1.85
5020854--5020947	23	4.0	23	75	16	86	11	25	19	43	1.84
5020737--5020898	64	2.6	62	91	3	270	12	21	22	43	1.85
5025120--5025163	21	2.1	21	86	0	61	34	20	11	34	1.88
5029995--5030138	30	4.8	28	76	14	112	43	10	13	32	1.77
5030017--5030090	31	2.4	30	84	10	105	51	8	8	32	1.61
5033285--5033318	17	2.0	17	94	0	59	64	5	2	26	1.30
5033255--5033314	32	1.9	31	83	10	77	60	5	5	30	1.40
5033289--5033394	34	3.4	31	79	11	94	60	0	3	34	1.21
5033312--5033382	11	6.8	11	73	22	64	59	0	1	39	1.06
5033338--5033410	15	4.9	14	71	27	53	63	0	5	31	1.17
5033430--5033563	29	4.4	29	73	18	103	55	2	0	41	1.17
5033430--5033535	23	4.9	23	77	18	95	53	1	0	43	1.18
5033434--5033495	17	3.9	17	73	26	73	58	0	0	41	0.98
5033434--5033497	6	11.0	6	72	12	53	57	0	0	42	0.98
5033626--5033665	20	2.0	20	100	0	80	20	5	20	55	1.62
5039607--5039836	30	7.8	28	74	10	118	32	2	27	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039608--5039834	29	7.6	30	75	11	171	33	2	26	37	1.69
5039607--5039843	59	4.0	60	77	11	211	32	2	28	37	1.69
5040872--5040910	3	12.7	3	83	5	51	38	0	0	61	0.96
5040865--5040903	12	3.2	12	82	10	53	43	0	0	56	0.99
5044951--5044998	24	2.1	24	84	7	64	50	10	0	39	1.37
5050243--5050300	2	29.0	2	100	0	116	50	50	0	0	1.00
5050300--5050325	2	13.0	2	100	0	52	50	0	0	50	1.00
5051696--5051730	17	2.1	17	88	0	52	71	5	0	22	1.07
5053254--5053278	12	2.1	12	100	0	50	44	0	0	56	0.99
5057052--5057191	23	6.1	23	78	8	133	45	22	20	11	1.83
5057052--5057191	69	2.0	68	86	8	194	45	22	20	11	1.83
5057102--5057204	23	4.4	23	81	4	82	45	22	20	11	1.83
5065187--5065257	27	2.7	25	83	14	90	21	1	12	64	1.34
5079189--5079218	10	3.0	10	100	0	60	40	30	30	0	1.57
5090347--5090426	37	2.2	37	97	0	151	38	22	13	25	1.91
5095094--5095126	2	16.5	2	100	0	66	0	48	0	51	1.00
5095301--5095347	17	2.7	17	83	12	60	65	0	2	31	1.04
5095512--5095552	21	2.0	21	85	0	55	60	2	0	36	1.10
5096022--5096060	19	2.1	19	85	9	53	35	2	0	61	1.10
5096670--5096726	27	2.0	29	80	12	66	54	14	1	29	1.50
5099762--5099806	23	1.9	24	90	4	74	40	0	6	53	1.27
5100022--5100066	19	2.4	19	81	7	56	37	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104428--5104484	8	6.6	8	78	13	60	15	3	0	80	0.84
5104428--5104485	18	3.3	17	80	7	71	15	3	0	81	0.83
5105171--5105360	102	1.9	102	87	4	285	34	13	26	25	1.93
5105904--5105948	19	2.4	19	81	7	56	37	0	4	57	1.19
5114361--5114400	2	20.0	2	100	0	80	0	50	0	50	1.00
5123382--5123418	6	6.2	6	96	0	65	35	0	64	0	0.94
5124044--5124074	3	10.3	3	100	0	62	35	0	0	64	0.94
5124485--5124542	23	2.7	21	80	19	66	60	0	5	34	1.19
5131724--5131752	13	2.1	14	93	6	51	17	0	0	82	0.66
5135453--5135491	20	2.0	20	85	10	53	35	0	5	58	1.20
5137112--5137183	24	3.0	24	82	7	94	27	11	18	43	1.83
5137120--5137201	23	3.5	22	80	11	85	30	10	18	40	1.85
5137167--5137212	23	2.0	23	83	8	58	39	10	17	32	1.84
5138401--5138438	20	1.9	20	94	0	67	44	0	0	55	0.99
5138919--5138959	22	1.9	21	85	5	55	68	4	7	19	1.32
5147004--5147042	20	2.0	20	89	0	60	38	10	2	48	1.51
5147009--5147052	20	2.2	20	84	8	54	38	11	2	47	1.52
5150235--5150286	21	2.5	21	96	0	95	26	3	15	53	1.59
5154940--5155287	61	6.0	59	72	16	219	31	19	14	33	1.92
5154951--5155269	168	1.9	169	85	7	452	31	18	14	35	1.91
5155106--5155288	61	3.0	61	87	1	278	30	21	14	32	1.94
5158417--5158466	20	2.5	20	93	0	91	32	26	30	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5158421--5158492	10	7.2	10	72	0	54	29	26	31	12	1.93
5158651--5159338	83	8.3	83	95	1	1134	53	4	4	37	1.43
5158651--5159338	165	4.2	165	94	1	1157	53	4	4	37	1.43
5163240--5163501	61	4.3	61	87	1	328	36	14	21	28	1.92
5164833--5164875	22	1.9	23	85	4	61	62	2	6	27	1.33
5183514--5183538	12	2.1	12	100	0	50	44	0	24	32	1.54
5188218--5188378	79	2.0	79	96	0	295	31	16	14	36	1.90
5189194--5189225	16	2.0	16	100	0	64	56	6	6	31	1.49
5193624--5193693	31	2.3	30	80	7	88	30	1	12	55	1.46
5199175--5199257	31	2.8	29	81	9	87	22	8	22	45	1.79
5213960--5213993	14	2.3	15	90	5	52	55	5	2	35	1.39
5215782--5215828	14	3.1	14	73	26	51	42	2	0	55	1.12
5227093--5227130	18	2.1	18	85	9	51	52	7	7	31	1.59
5228591--5228621	15	2.1	15	93	0	53	25	22	12	38	1.90
5231036--5231069	17	1.9	17	88	5	50	61	2	0	35	1.11
5233347--5233402	24	2.3	23	80	20	60	41	8	7	42	1.63
5236321--5236345	10	2.5	10	100	0	50	64	0	0	36	0.94
5245597--5245660	32	2.0	32	100	0	128	37	21	0	40	1.54
5247499--5247638	69	2.0	69	97	0	262	42	9	5	43	1.58
5249735--5249964	117	2.0	117	83	1	291	23	19	21	35	1.96
5249737--5249963	39	5.8	39	82	3	242	24	19	21	35	1.96
5251713--5251754	11	3.9	11	81	3	50	40	0	4	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5251715--5251776	17	3.8	17	80	6	74	40	0	4	54	1.22
5251713--5251754	22	2.0	22	85	4	59	40	0	4	54	1.21
5251719--5251810	27	3.3	27	73	3	76	45	2	4	47	1.34
5251732--5251785	16	3.3	16	79	5	54	42	1	1	53	1.22
5253637--5253781	29	4.9	30	71	20	103	35	30	1	33	1.67
5253672--5254048	59	6.4	59	88	1	535	33	29	3	33	1.74
5253697--5253957	29	8.9	28	65	24	96	32	30	3	34	1.73
5253702--5253971	30	9.2	29	66	21	125	33	29	3	33	1.74
5257493--5257628	23	6.0	23	82	5	132	11	22	22	42	1.86
5257493--5257629	46	3.0	46	78	5	152	11	23	22	42	1.86
5261002--5261036	18	1.9	18	88	0	52	48	5	11	34	1.63
5271328--5271366	6	6.5	6	100	0	78	17	66	15	0	1.25
5275802--5276844	486	2.1	485	92	0	1737	26	22	16	33	1.96
5281946--5281990	15	2.9	16	80	16	58	26	8	4	60	1.46
5281945--5281988	8	5.6	8	79	15	56	27	9	2	61	1.38
5283605--5283665	31	2.0	31	93	0	104	54	8	14	22	1.67
5289452--5289538	43	2.0	43	100	0	174	37	18	16	27	1.92
5291646--5293041	248	5.6	248	92	1	2296	29	16	24	29	1.96
5291659--5293041	492	2.8	493	92	1	2286	29	16	24	29	1.96
5305630--5305766	59	2.4	59	88	2	206	31	3	30	34	1.75
5305630--5305768	58	2.4	58	89	2	208	30	3	30	34	1.75
5305734--5305956	30	7.5	29	81	9	238	36	3	21	39	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5305734--5305956	60	3.7	59	85	7	283	36	3	21	39	1.69
5306634--5306664	14	2.2	14	94	0	53	0	12	9	77	0.99
5307529--5307579	17	2.8	18	88	5	68	56	5	3	33	1.42
5307901--5308735	92	9.2	92	94	1	1442	37	16	12	33	1.86
5320441--5320604	30	5.5	30	83	8	165	37	2	20	40	1.66
5320461--5320604	60	2.3	61	84	6	184	38	1	18	40	1.60
5321283--5321313	14	2.2	14	94	0	53	0	12	9	77	0.99
5322149--5322204	17	3.2	17	78	9	60	48	5	1	44	1.36
5322175--5322224	19	2.8	18	87	6	66	56	6	4	34	1.43
5332531--5332596	28	2.6	24	74	19	71	56	0	0	43	0.99

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