genome.fa.s9.2.7.7.80.10.50.1000.104.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  104  of  182  ( 21729 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)
33943244--33943294	4	12.8	4	87	8	77	0	23	0	76	0.79
33943210--33943298	33	2.8	33	77	13	89	0	32	0	67	0.91
33944121--33944158	14	2.5	15	87	8	51	50	0	0	50	1.00
33946023--33946113	32	2.9	31	77	18	100	43	0	35	20	1.52
33946330--33946357	9	3.1	9	100	0	56	32	10	10	46	1.73
33948123--33948350	73	3.1	73	80	0	249	28	20	27	23	1.99
33950522--33950563	19	2.2	19	86	0	57	50	7	2	40	1.43
33950455--33950841	150	2.6	144	85	6	524	45	9	2	42	1.49
33950463--33950841	52	7.6	50	66	15	153	46	9	2	41	1.49
33951713--33951745	16	2.0	17	88	5	50	57	6	18	18	1.60
33951724--33951908	42	4.4	42	84	5	239	36	20	19	23	1.95
33951724--33952134	84	4.7	84	71	17	271	36	22	18	23	1.95
33951935--33952134	42	4.8	42	86	0	274	36	24	17	22	1.94
33951747--33952096	188	1.9	188	84	3	481	34	22	18	23	1.96
33952535--33952579	20	2.4	18	88	7	63	2	8	4	84	0.84
33953112--33953141	9	3.4	9	95	4	53	13	6	0	80	0.91
33963239--33963280	21	2.0	21	95	0	75	26	23	26	23	2.00
33965542--33965646	52	2.0	52	85	3	140	50	10	0	38	1.43
33965398--33965896	144	3.4	146	87	5	699	46	9	2	41	1.49
33966366--33966392	12	2.2	12	100	0	54	92	0	7	0	0.38
33973608--33973719	48	2.4	48	89	1	163	26	19	8	44	1.80
33982799--33982825	9	3.0	9	100	0	54	22	22	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33985144--33985182	16	2.5	16	83	4	53	61	5	0	33	1.18
33986457--33986533	7	11.0	7	75	0	73	44	28	3	23	1.71
33989873--33989974	43	2.4	43	83	6	134	47	12	9	30	1.74
33991328--33991372	19	2.4	18	85	7	63	73	4	0	22	1.01
33991329--33991365	14	2.5	15	83	16	51	72	2	0	24	0.97
33991600--33991666	3	20.3	3	90	6	71	0	29	1	68	0.98
33991603--33991666	19	3.8	17	84	11	87	0	29	1	68	0.99
33991629--33991658	4	7.8	4	92	7	53	0	26	0	73	0.84
33991949--33992004	25	2.2	24	84	12	69	71	7	1	19	1.18
33992232--33992284	18	2.9	17	81	13	61	0	28	0	71	0.86
33992232--33992269	14	2.8	14	92	4	60	0	23	0	76	0.79
33991346--33993121	632	2.8	630	87	6	2608	38	24	3	32	1.74
33994287--33994346	17	3.5	16	73	13	57	70	5	1	23	1.16
33993122--33997276	757	5.5	745	81	9	4351	35	21	8	34	1.85
33994973--33995080	57	1.9	55	81	10	130	62	12	0	25	1.30
33995098--33995122	12	2.1	12	100	0	50	0	32	8	60	1.26
33995107--33995164	29	2.0	29	83	6	73	1	25	3	68	1.14
33995812--33995871	17	3.5	17	73	8	59	68	5	0	26	1.10
34001213--34001248	12	2.8	13	91	8	56	22	0	0	77	0.76
34003539--34003703	83	2.0	82	95	1	294	43	2	25	28	1.67
34004545--34004989	193	2.3	195	81	4	515	28	20	26	24	1.99
34007088--34007315	41	5.5	41	86	2	258	26	25	10	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34008017--34008042	7	3.7	7	100	0	52	73	0	26	0	0.84
34008125--34008168	20	2.1	21	83	4	54	36	13	2	47	1.56
34011942--34011982	9	4.6	9	96	0	73	65	2	0	31	1.05
34012182--34012212	9	3.4	9	95	0	53	48	0	25	25	1.52
34028042--34028228	39	4.8	38	68	7	106	24	33	18	24	1.97
34028051--34028239	78	2.4	78	91	3	292	23	33	19	23	1.97
34028101--34028254	39	3.9	39	75	5	159	23	33	20	23	1.97
34030093--34030137	6	7.5	6	89	0	63	46	0	31	22	1.52
34031321--34031870	78	7.1	78	85	0	607	24	30	19	25	1.98
34031360--34031799	39	11.3	38	71	13	232	23	31	19	25	1.98
34031948--34032457	208	2.4	207	87	2	716	38	17	21	22	1.93
34032176--34032333	85	1.9	85	85	2	219	36	17	24	22	1.95
34032261--34032352	48	1.9	48	84	0	121	38	17	21	22	1.93
34032898--34032934	16	2.3	16	95	0	65	37	24	10	27	1.88
34034301--34034810	30	17.3	30	81	6	388	37	24	2	35	1.70
34034301--34034810	88	5.8	90	79	7	345	37	24	2	35	1.70
34034301--34034810	59	8.7	60	77	9	367	37	24	2	35	1.70
34036444--34036598	84	1.8	84	84	0	211	45	21	16	16	1.85
34036418--34036598	28	6.5	28	85	1	175	43	20	18	17	1.88
34038034--34038077	22	2.0	23	86	13	65	15	36	4	43	1.68
34043548--34043598	26	2.0	26	84	0	66	54	0	1	43	1.11
34043559--34043693	61	2.3	58	82	7	166	51	4	0	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34043696--34043760	23	2.8	23	93	4	105	63	0	0	36	0.95
34050039--34050084	23	2.0	24	83	12	60	69	6	15	8	1.34
34057090--34057167	9	8.7	9	74	5	50	43	16	10	29	1.81
34057081--34057167	18	4.8	18	76	0	75	43	18	9	28	1.80
34057081--34057166	27	3.2	27	81	3	93	43	18	9	29	1.81
34061006--34061052	22	2.1	22	100	0	94	17	27	29	25	1.97
34077983--34078039	27	2.2	26	87	6	80	24	21	10	43	1.83
34078317--34078439	36	3.5	35	67	18	92	24	34	1	39	1.65
34078218--34078461	135	1.8	134	85	7	350	25	31	1	41	1.63
34080763--34081076	128	2.4	129	93	0	522	28	20	18	31	1.97
34089906--34089944	16	2.3	17	86	8	53	74	10	0	15	1.07
34091327--34091369	6	7.0	6	80	15	52	79	4	13	2	1.00
34092515--34092539	11	2.3	11	100	0	50	68	16	0	16	1.22
34098352--34098458	24	4.5	24	87	4	135	25	19	23	31	1.98
34102844--34102901	23	2.5	24	94	5	109	20	22	27	29	1.99
34111498--34111539	18	2.4	18	88	4	59	11	19	40	28	1.87
34114549--34114612	21	3.0	21	93	0	110	53	12	12	21	1.71
34127190--34127219	13	2.2	14	94	5	53	80	0	20	0	0.72
34128110--34128612	42	12.1	42	81	1	489	31	29	16	22	1.96
34128110--34128612	84	6.1	84	83	2	579	31	29	16	22	1.96
34128116--34128730	42	15.0	41	81	3	373	30	29	17	23	1.97
34128118--34128680	84	6.8	79	81	4	428	30	29	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34128116--34128676	126	4.5	122	78	5	416	30	29	16	23	1.96
34128499--34128730	80	2.9	79	80	5	209	28	25	19	25	1.99
34128417--34128730	40	7.8	40	79	7	189	28	27	19	25	1.99
34133165--34133224	24	2.5	24	88	2	84	30	20	26	23	1.98
34135187--34135306	58	2.1	58	81	6	136	41	2	10	45	1.53
34138096--34138152	29	2.0	29	83	6	73	29	8	7	54	1.58
34138897--34138947	26	2.0	26	88	0	75	39	11	3	45	1.59
34139495--34139539	20	2.2	20	84	7	56	37	0	6	55	1.26
34139873--34140213	69	4.9	68	86	2	448	27	27	14	30	1.95
34140277--34140336	11	5.7	11	73	11	54	25	35	0	40	1.56
34140295--34140336	11	3.8	11	83	0	57	26	30	0	42	1.55
34140295--34140348	22	2.4	23	84	3	74	29	29	0	40	1.57
34144983--34145028	25	1.9	25	86	8	69	32	4	6	56	1.45
34146127--34146167	21	1.9	22	95	5	75	48	39	0	12	1.41
34151265--34151299	13	2.8	12	87	12	52	22	17	14	45	1.84
34154468--34154541	21	3.5	22	82	10	84	32	27	12	28	1.92
34155307--34155505	52	3.8	52	89	0	308	33	23	16	26	1.96
34156738--34156780	18	2.4	18	92	7	70	48	0	0	51	1.00
34157537--34157592	21	2.8	19	80	15	60	62	3	0	33	1.12
34157556--34157598	23	2.0	21	86	9	59	67	0	0	32	0.91
34159351--34159393	18	2.4	18	88	7	61	46	0	0	53	1.00
34159729--34159797	25	2.8	24	75	16	68	36	1	4	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34159740--34159778	18	2.2	18	85	0	51	28	2	2	66	1.18
34161366--34161424	19	3.0	20	76	13	61	23	3	3	69	1.19
34161403--34161434	14	2.3	14	94	0	55	21	9	0	68	1.17
34162728--34162848	42	2.9	42	86	0	170	38	19	14	28	1.91
34167335--34167494	75	2.1	75	82	4	198	29	24	21	25	1.99
34168085--34168126	20	2.1	20	95	0	75	19	7	0	73	1.05
34168116--34168257	3	48.7	3	67	20	70	23	2	4	68	1.23
34168135--34168236	41	2.6	37	81	12	107	21	2	3	71	1.16
34168135--34168236	5	19.0	5	74	19	66	21	2	3	71	1.16
34168085--34168220	26	5.5	24	72	16	84	21	4	2	71	1.17

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