genome.fa.s4.2.7.7.80.10.50.1000.11.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  11  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)
3951836--3952249	60	7.0	59	79	8	346	39	16	17	25	1.91
3951835--3952247	59	7.0	59	79	9	378	39	16	18	25	1.91
3951835--3952249	119	3.5	117	79	9	423	39	16	18	25	1.91
3953159--3953188	9	3.3	9	100	0	60	10	0	0	90	0.47
3960627--3960673	23	2.0	23	87	0	67	48	14	19	17	1.81
3961369--3961417	21	2.3	21	78	0	53	75	2	2	20	1.00
3965012--3965041	15	1.9	16	93	6	53	13	0	33	53	1.40
3965587--3965655	28	2.5	27	79	13	77	57	1	1	39	1.16
3976515--3976552	18	2.1	18	85	9	51	36	2	0	60	1.11
3980352--3980396	20	2.2	20	84	7	56	31	13	2	53	1.52
3987871--3987930	28	2.2	27	85	5	84	41	20	11	26	1.86
3989404--3989436	16	2.1	16	94	0	57	54	3	18	24	1.57
3989850--3989885	18	2.1	16	90	10	54	52	0	16	30	1.44
3990426--3990593	52	3.2	52	94	1	275	25	14	24	35	1.93
3994108--3994396	52	5.5	52	88	5	384	30	17	21	30	1.96
3994108--3994367	108	2.4	107	90	3	400	30	17	21	30	1.96
3994108--3994403	108	2.8	105	85	7	325	31	17	21	30	1.96
3996234--3996285	19	2.7	20	82	11	72	40	0	3	55	1.18
3996179--3996265	45	1.9	45	84	11	115	41	1	2	55	1.20
3996547--3996576	12	2.6	12	94	5	53	6	16	0	76	0.99
4004674--4004734	29	2.1	29	84	0	77	59	0	3	37	1.14
4013483--4013513	5	6.2	5	100	0	62	22	19	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4018169--4018277	40	2.7	40	81	1	128	38	15	22	22	1.92
4018291--4018543	41	6.2	41	78	5	163	32	15	28	23	1.96
4018247--4018543	82	3.6	81	74	7	258	33	16	27	22	1.95
4024756--4024786	13	2.4	13	94	0	53	61	6	0	32	1.21
4024947--4025139	95	2.0	98	87	4	284	26	16	16	40	1.88
4035085--4035123	20	2.0	20	94	0	69	28	2	2	66	1.18
4066482--4066511	8	3.8	8	100	0	60	86	0	0	13	0.57
4066608--4066692	11	7.6	11	67	16	50	61	0	3	35	1.13
4066620--4066696	21	3.5	20	77	18	66	61	0	1	37	1.05
4066829--4066874	19	2.4	19	79	10	58	34	0	0	65	0.93
4066829--4066943	9	12.4	9	66	14	56	32	1	3	62	1.22
4068313--4068346	12	2.8	12	95	0	59	55	35	8	0	1.31
4069896--4069948	26	2.0	26	96	0	97	28	5	24	41	1.77
4072393--4072425	11	3.0	11	100	0	66	45	0	36	18	1.49
4080899--4080957	31	1.9	31	82	3	75	49	10	5	35	1.59
4084036--4084096	32	1.9	32	89	0	95	42	8	6	42	1.60
4085934--4085980	23	2.0	23	84	8	60	38	6	4	51	1.47
4088562--4088613	13	3.8	13	80	9	59	46	0	0	53	1.00
4101051--4101104	27	1.9	28	85	14	76	50	5	9	35	1.58
4103909--4104007	50	2.0	50	91	0	162	38	9	19	33	1.83
4116031--4116066	19	1.9	19	88	5	56	11	2	2	83	0.86
4116397--4116468	35	2.0	36	91	2	119	6	15	15	62	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119994--4120135	29	4.8	29	73	6	115	39	21	3	35	1.70
4120113--4120218	29	3.6	29	68	14	83	32	24	6	36	1.81
4120116--4120325	59	3.6	60	80	5	207	32	23	7	37	1.82
4131911--4132565	92	7.1	92	93	0	1123	32	16	18	32	1.94
4134594--4134729	29	4.7	29	74	8	96	40	25	2	31	1.70
4134677--4134810	59	2.3	58	78	5	144	33	21	5	38	1.78
4134708--4134845	59	2.3	58	88	2	195	31	21	7	40	1.80
4140200--4140230	15	2.1	15	93	0	53	51	9	0	38	1.35
4146476--4146531	27	2.0	29	86	6	80	64	3	3	28	1.27
4147228--4147286	28	2.1	28	77	19	70	30	1	3	64	1.20
4147230--4147286	30	2.0	29	86	10	82	29	1	3	64	1.20
4148509--4148548	21	2.0	20	85	5	53	60	17	2	20	1.48
4149018--4149096	36	2.2	36	81	6	88	50	5	1	43	1.32
4157982--4158212	109	2.1	109	90	0	356	22	16	22	38	1.93
4160615--4160687	25	3.0	25	91	2	94	17	16	12	53	1.73
4160615--4160676	25	2.5	25	97	0	115	17	17	12	51	1.76
4166851--4166904	21	2.6	21	82	5	65	33	24	12	29	1.92
4168660--4168706	21	2.1	23	84	11	62	36	8	2	53	1.44
4173764--4173815	18	2.9	18	72	13	54	32	0	0	67	0.91
4173999--4174035	17	2.2	17	90	4	58	72	0	2	24	0.97
4175089--4175131	20	2.1	21	86	4	61	25	34	0	39	1.56
4175106--4175425	171	1.9	171	83	5	423	24	34	0	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4175721--4175791	18	3.9	18	71	14	56	42	4	0	53	1.20
4186037--4186076	2	20.0	2	100	0	80	50	0	0	50	1.00
4190823--4190863	19	2.1	19	86	9	55	65	4	4	24	1.32
4193417--4193472	29	1.9	29	85	0	76	35	10	0	53	1.36
4197744--4198118	187	2.0	188	87	4	540	36	13	19	30	1.90
4200560--4200601	17	2.4	17	84	11	50	50	2	21	26	1.61
4202835--4202875	14	2.9	14	85	7	55	36	0	4	58	1.20
4202835--4202876	15	2.9	15	86	10	52	38	0	4	57	1.20
4203196--4203246	15	3.4	14	84	10	66	41	0	1	56	1.10
4206903--4206939	19	1.9	19	94	0	65	27	0	5	67	1.12
4207353--4207404	20	2.6	20	80	17	63	67	0	3	28	1.08
4207353--4207395	10	4.6	9	82	5	50	67	0	4	27	1.10
4207481--4207519	2	19.5	2	100	0	78	48	0	0	51	1.00
4207599--4207636	20	1.9	19	89	5	58	47	5	5	42	1.48
4208744--4208803	11	5.9	11	75	18	67	50	0	1	48	1.11
4208753--4208830	31	2.6	30	90	8	115	51	0	0	48	1.00
4209407--4209601	96	2.0	97	84	3	257	39	8	28	24	1.84
4209699--4209752	14	3.6	14	75	18	54	61	0	25	12	1.32
4209684--4209762	32	2.5	32	97	0	149	56	0	26	16	1.40
4209779--4209817	11	3.7	11	83	13	55	48	2	0	48	1.15
4209767--4209817	20	2.6	20	90	3	77	47	1	1	49	1.24
4209776--4209809	9	3.6	9	85	14	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4219527--4219559	2	16.5	2	93	0	57	51	0	0	48	1.00
4221934--4221989	28	2.0	27	89	3	85	41	3	3	51	1.36
4223819--4223886	32	2.1	32	83	8	84	60	0	1	38	1.06
4223832--4223893	32	2.0	32	90	3	99	58	0	0	41	0.98
4248322--4248364	23	1.9	22	90	4	68	48	0	9	41	1.35
4254435--4254460	2	13.0	2	100	0	52	50	0	0	50	1.00
4257294--4257325	3	10.7	3	93	0	55	31	37	0	31	1.58
4258688--4258733	6	7.7	6	95	0	83	0	50	0	50	1.00
4261725--4261756	2	16.0	2	93	0	55	53	0	46	0	1.00
4262084--4262113	11	2.6	12	94	5	53	26	0	10	63	1.26
4268986--4269054	31	2.2	30	82	5	75	50	5	5	37	1.50
4269918--4269947	15	2.0	15	93	0	51	43	26	23	6	1.78
4283537--4283587	15	3.5	15	72	5	50	62	9	1	25	1.36
4284263--4284287	6	4.2	6	100	0	50	16	16	52	16	1.76
4291022--4291069	16	3.0	15	80	14	51	33	0	2	64	1.05
4291356--4291405	23	2.3	21	79	6	55	64	0	0	36	0.94
4292014--4292076	24	2.6	24	89	0	99	50	11	14	23	1.74
4294004--4294062	24	2.5	24	82	0	73	50	10	11	27	1.71
4294020--4294066	24	2.0	24	91	0	76	57	8	10	23	1.60
4294287--4294354	23	3.0	23	76	20	63	44	0	2	52	1.16
4307900--4307949	11	4.5	11	82	0	55	66	12	4	18	1.39
4308177--4308332	39	4.1	38	75	7	127	33	6	14	44	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4308763--4308800	18	2.3	17	83	16	53	34	2	5	57	1.35
4308898--4308945	16	3.0	16	76	11	53	68	0	0	31	0.90
4319318--4319363	14	3.2	14	81	6	65	60	2	0	36	1.09
4319615--4319654	19	2.2	19	90	4	64	35	10	2	52	1.48
4321360--4321386	11	2.5	11	100	0	54	29	22	11	37	1.89
4325208--4325249	22	1.9	22	95	0	75	40	21	4	33	1.74
4325295--4325356	28	2.3	27	82	2	70	37	20	8	33	1.83
4326750--4326976	29	7.8	29	72	15	105	32	2	33	32	1.70
4326757--4326982	59	3.9	59	85	6	300	33	1	31	33	1.68
4326757--4326987	30	7.9	29	73	13	147	32	2	32	32	1.70

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