genome.fa.s3.2.7.7.80.10.50.1000.140.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  140  of  171  ( 20472 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)
42994163--42994476	85	3.7	84	82	9	393	29	25	20	24	1.99
42995856--42995883	2	14.0	2	100	0	56	50	0	50	0	1.00
42998568--42999095	41	12.9	41	87	2	724	15	28	21	34	1.94
42998752--42999030	24	13.4	24	58	28	66	15	29	22	32	1.95
42998568--42999093	123	4.3	123	92	1	840	15	28	21	34	1.94
42999813--43000038	43	5.3	43	79	4	215	24	17	29	29	1.97
43005180--43005231	23	2.4	22	78	9	61	40	5	0	53	1.25
43007984--43008629	321	2.0	322	96	0	1195	41	9	9	39	1.70
43012940--43012990	24	2.1	24	92	0	84	21	9	9	58	1.58
43012948--43013002	24	2.3	24	87	0	74	25	12	10	50	1.73
43013371--43013410	20	2.0	20	100	0	80	40	15	10	35	1.80
43013761--43013810	13	3.6	14	81	13	59	72	8	20	0	1.10
43018866--43018942	38	2.0	38	97	0	145	45	24	12	16	1.83
43021814--43021904	9	9.8	9	68	15	51	63	2	3	30	1.22
43021833--43021885	19	2.8	20	86	11	76	69	1	5	22	1.19
43021844--43021904	19	3.2	19	85	0	77	67	3	3	26	1.22
43022031--43022055	12	2.1	12	100	0	50	24	0	0	76	0.80
43022224--43022274	17	2.8	18	79	5	59	35	1	0	62	1.06
43022224--43022277	19	3.1	16	78	17	54	33	1	0	64	1.04
43022313--43022512	88	2.3	87	81	5	226	33	8	17	41	1.79
43027752--43027798	23	2.1	22	85	14	62	46	2	0	51	1.13
43028759--43028796	15	2.4	16	86	4	51	36	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43037873--43037986	28	4.1	27	77	12	99	53	10	7	28	1.61
43049716--43049861	58	2.5	58	81	11	174	45	2	1	50	1.24
43049944--43050049	46	2.5	44	82	13	116	36	25	5	32	1.79
43049956--43050049	44	2.1	44	86	7	127	37	26	5	30	1.79
43050031--43050086	16	3.5	16	90	0	94	28	30	5	35	1.80
43050257--43050319	23	2.7	24	76	9	67	41	1	1	55	1.19
43051439--43051480	13	3.2	13	90	10	59	35	19	2	42	1.64
43051440--43051488	13	3.8	13	83	8	55	38	20	4	36	1.72
43052609--43053036	220	1.9	220	97	0	802	27	20	26	25	1.99
43054500--43054538	19	2.0	20	85	9	55	48	0	5	46	1.24
43054567--43054629	21	3.1	21	71	13	60	36	3	3	57	1.31
43057031--43057135	43	2.4	43	80	0	111	50	15	10	23	1.75
43059615--43059659	22	2.1	22	83	4	56	68	4	4	22	1.25
43060640--43060772	70	1.9	67	86	4	185	42	11	12	33	1.79
43062835--43063025	23	8.5	23	71	16	123	42	20	24	12	1.86
43062928--43063025	23	4.2	23	82	10	126	40	22	24	12	1.88
43070110--43070199	23	3.8	23	80	11	78	12	25	23	38	1.89
43070118--43070182	22	2.9	22	81	6	69	10	23	24	41	1.86
43071286--43071465	90	2.0	90	87	0	261	38	20	14	26	1.91
43076058--43076095	20	2.1	19	85	14	53	36	0	5	57	1.21
43077485--43077715	41	5.6	41	84	0	291	18	29	21	30	1.97
43077648--43077772	65	1.9	65	85	0	169	20	32	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43077712--43077816	41	2.6	41	84	0	138	22	32	16	28	1.96
43077606--43077817	106	2.0	106	83	1	264	20	29	19	30	1.97
43077572--43077838	147	1.8	147	81	5	333	19	29	19	31	1.97
43077519--43077863	188	1.8	188	81	3	435	18	28	20	32	1.96
43077780--43077896	40	2.8	41	83	3	137	17	23	16	42	1.88
43083935--43083959	13	1.9	13	100	0	50	56	20	0	24	1.43
43086805--43086858	22	2.4	23	76	14	58	51	0	3	44	1.19
43098541--43098570	14	2.1	15	93	6	53	50	0	0	50	1.00
43098548--43098611	20	3.1	20	74	14	58	40	3	0	56	1.15
43099100--43099158	6	9.8	6	73	14	50	38	3	1	55	1.26
43099100--43099169	17	4.4	16	77	12	72	41	4	1	52	1.30
43099891--43099918	9	3.1	9	100	0	56	57	0	0	42	0.99
43101096--43101231	29	4.7	29	69	20	88	33	30	2	33	1.70
43101096--43101333	59	4.0	59	85	4	311	32	31	3	33	1.74
43101123--43101333	29	7.2	28	66	20	85	32	31	3	32	1.74
43101297--43101371	38	2.0	38	94	0	132	29	29	6	34	1.83
43105994--43106048	23	2.3	24	84	9	76	12	21	21	43	1.86
43106004--43106049	23	2.0	23	95	0	83	13	19	26	41	1.88
43109782--43109851	32	2.2	32	89	2	106	34	15	7	42	1.74
43113462--43113493	5	6.4	5	100	0	64	0	18	0	81	0.70
43117312--43117373	30	2.1	30	84	0	79	30	3	6	59	1.38
43117490--43117526	11	3.1	12	88	11	58	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43117979--43118007	11	2.5	12	88	11	51	58	0	0	41	0.98
43117979--43118065	26	3.3	27	74	15	76	50	1	0	48	1.08
43119419--43119479	27	2.3	27	85	0	86	19	21	36	22	1.95
43128594--43128731	23	5.9	23	80	10	122	39	23	26	10	1.87
43131368--43131409	16	2.7	15	89	7	66	21	0	21	57	1.41
43131510--43131560	7	6.6	8	82	8	54	27	0	23	49	1.51
43131608--43131641	12	2.8	12	90	0	50	50	5	5	38	1.51
43131654--43131721	14	4.9	14	66	20	52	41	36	1	20	1.62
43131717--43131775	6	9.5	6	80	14	66	64	13	0	22	1.28
43132184--43132241	27	2.1	27	84	6	73	29	31	12	27	1.92
43133526--43133563	19	1.9	19	89	5	58	55	2	0	42	1.14
43133836--43133871	18	2.1	17	89	5	54	77	5	2	13	1.05
43133826--43133873	19	2.6	18	78	18	53	75	6	2	16	1.11
43133966--43134026	29	2.2	28	82	8	81	49	19	0	31	1.49
43143634--43143693	20	2.7	23	70	20	54	36	28	0	35	1.58
43151757--43151802	24	1.9	24	82	8	58	50	6	15	28	1.69
43153781--43153818	15	2.6	15	87	4	51	42	0	21	36	1.53
43154070--43154170	38	2.6	40	71	10	100	22	18	28	29	1.98
43159240--43159389	65	2.3	65	83	2	187	48	2	10	38	1.52
43161164--43161199	19	1.9	19	88	5	56	66	0	2	30	1.06
43161281--43161319	20	2.0	20	85	5	53	51	5	0	43	1.24
43165985--43166025	21	2.0	21	90	0	64	36	7	21	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43167669--43167716	23	2.1	23	88	0	69	45	6	12	35	1.67
43169076--43169346	39	6.9	38	74	12	142	36	14	22	25	1.93
43173550--43173672	59	2.1	59	81	6	142	21	15	5	56	1.59
43174846--43174894	21	2.3	22	75	10	57	32	0	10	57	1.32
43189867--43189897	8	4.0	8	95	4	55	12	0	22	64	1.27
43194402--43194437	14	2.8	12	84	15	54	16	0	8	75	1.04
43194407--43194437	14	2.2	14	100	0	62	12	0	6	80	0.89
43196978--43197024	21	2.2	21	80	0	58	27	17	25	29	1.97
43200778--43200876	36	2.8	36	92	0	162	35	10	24	30	1.88
43208074--43208198	42	3.0	42	78	9	146	19	30	20	30	1.97
43210090--43210390	41	7.3	41	85	0	341	21	28	19	29	1.98
43210101--43210461	123	2.9	123	82	2	393	21	28	17	31	1.96
43210104--43210492	82	4.8	82	79	1	343	22	28	18	31	1.97
43210438--43210543	39	2.7	40	94	1	178	21	21	17	38	1.93
43211294--43211335	22	1.9	22	90	0	66	21	16	4	57	1.58
43211296--43211347	22	2.3	22	83	3	59	23	15	3	57	1.54
43211342--43211425	22	3.7	22	79	6	71	14	20	9	55	1.66
43211361--43211437	24	3.3	24	80	8	79	16	18	9	55	1.66
43211410--43211459	22	2.3	23	83	13	61	22	10	8	60	1.55
43214740--43214794	15	3.7	15	75	0	56	16	32	10	40	1.83
43217638--43217688	26	2.0	26	92	0	84	43	11	11	33	1.78
43219320--43219610	158	1.8	158	86	1	422	23	21	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43228784--43228824	20	2.0	20	85	0	55	46	2	9	41	1.50
43230381--43230413	9	3.7	9	95	0	57	66	9	12	12	1.44
43236263--43236393	51	2.6	51	87	0	190	25	22	17	34	1.96
43241163--43241197	17	2.1	17	88	0	52	57	17	11	14	1.66
43241456--43241516	25	2.5	24	78	7	68	44	6	1	47	1.39
43242295--43242345	4	12.2	4	79	8	57	72	0	25	1	0.95
43242295--43242340	17	2.7	17	90	6	67	71	0	26	2	0.97
43242289--43242351	25	2.4	26	80	15	76	71	0	26	1	0.95
43242691--43242723	5	6.6	5	96	0	57	33	0	0	66	0.92
43242713--43242756	21	2.1	21	91	4	72	31	0	13	54	1.39

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