genome.fa.s4.2.7.7.80.10.50.1000.128.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  128  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)
40453197--40453246	24	2.1	24	100	0	100	42	20	8	30	1.80
40453285--40453337	23	2.3	23	96	0	97	52	20	3	22	1.62
40457633--40457692	26	2.3	27	94	2	104	58	6	0	35	1.24
40466279--40466320	21	2.0	21	90	0	66	35	7	7	50	1.57
40467709--40467881	60	2.9	60	85	6	244	21	19	12	45	1.84
40468058--40468144	31	2.8	29	81	11	102	48	10	14	26	1.76
40468515--40468592	29	2.7	30	86	5	108	62	3	2	30	1.26
40470194--40470269	34	2.2	34	90	0	116	51	0	19	28	1.47
40470841--40470953	59	1.9	59	81	3	138	27	17	10	44	1.82
40476761--40476817	30	1.9	30	85	7	80	56	10	14	19	1.67
40476828--40477022	30	6.5	30	75	8	164	47	11	13	27	1.77
40476828--40477022	61	3.2	61	87	6	240	47	11	13	27	1.77
40477330--40477367	19	2.0	19	100	0	76	31	5	15	47	1.68
40478318--40478353	19	1.9	19	88	5	56	52	27	0	19	1.46
40482009--40482078	31	2.2	33	82	10	92	38	7	7	47	1.59
40485194--40485225	15	2.1	16	94	5	57	53	9	6	31	1.58
40491335--40491359	3	8.3	3	100	0	50	68	0	0	32	0.90
40491989--40492054	15	4.6	15	71	26	54	3	30	0	66	1.06
40494071--40494111	21	2.0	21	85	0	55	65	4	2	26	1.25
40498451--40498520	30	2.3	31	76	9	72	45	7	0	47	1.30
40499676--40499847	43	4.0	43	76	1	184	30	26	17	25	1.97
40501675--40501771	23	4.2	23	77	17	101	9	27	21	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40501736--40501810	39	1.9	39	83	5	98	13	24	21	41	1.88
40502765--40502820	21	2.7	21	82	0	58	0	41	17	41	1.50
40505289--40505595	41	7.6	40	77	6	269	26	29	15	28	1.96
40505289--40505595	82	3.8	81	82	2	296	26	29	15	28	1.96
40505392--40505595	81	2.5	82	80	4	225	27	28	15	27	1.96
40510515--40510549	6	5.8	6	100	0	70	51	0	14	34	1.42
40520957--40521265	43	7.3	43	78	6	319	29	27	20	23	1.99
40520957--40521265	125	2.4	125	81	5	356	29	27	20	23	1.99
40529206--40530098	335	2.7	335	96	0	1630	32	14	15	38	1.88
40539041--40539093	21	2.5	21	77	17	56	62	1	1	33	1.17
40539031--40539161	52	2.5	51	85	6	174	63	1	0	34	1.09
40539112--40539159	18	2.5	19	86	6	62	72	0	0	27	0.84
40539110--40539155	19	2.3	20	82	10	60	73	0	0	26	0.83
40539534--40539607	20	3.8	20	79	15	73	6	6	13	72	1.25
40539521--40539619	20	4.9	19	70	22	69	6	6	18	69	1.30
40539595--40539652	31	1.9	31	85	3	82	8	3	18	68	1.30
40539632--40539696	20	3.0	21	72	14	53	7	4	21	66	1.36
40540517--40540579	24	2.6	24	87	0	90	25	14	11	49	1.76
40542465--40542515	24	2.1	24	96	0	93	23	9	7	58	1.56
40542465--40542527	24	2.6	24	87	0	81	25	12	9	52	1.69
40544816--40544876	24	2.5	25	76	10	63	36	4	0	59	1.19
40545906--40545934	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40547333--40547375	20	2.2	19	80	19	52	34	0	0	65	0.93
40547961--40548008	13	3.8	12	84	13	60	41	2	16	39	1.60
40549028--40549079	21	2.4	22	84	12	72	65	0	0	34	0.93
40549028--40549086	21	2.7	22	80	12	68	64	0	1	33	1.04
40556850--40556889	19	2.1	19	85	0	53	62	7	5	25	1.42
40564808--40564851	23	2.0	22	86	4	61	43	6	6	43	1.57
40568337--40568891	281	2.0	281	86	2	776	40	16	10	31	1.83
40571992--40572050	27	2.2	27	81	6	66	40	0	11	47	1.40
40572000--40572051	27	1.9	27	84	7	70	36	0	11	51	1.38
40578199--40578271	33	2.2	33	95	0	128	47	5	8	38	1.56
40578451--40578500	24	2.1	24	81	7	57	18	8	14	60	1.58
40582796--40582999	102	2.0	102	100	0	408	42	19	15	22	1.89
40588248--40588282	9	3.8	9	92	3	52	17	0	2	80	0.84
40592133--40592193	31	2.0	31	90	0	95	42	11	11	34	1.77
40596447--40596502	12	4.6	12	81	2	58	67	23	3	5	1.27
40596451--40596505	24	2.3	24	83	0	65	69	20	3	7	1.28
40596480--40596570	45	2.0	44	84	14	116	67	19	4	8	1.36
40596513--40596572	22	2.7	23	75	19	63	70	16	5	8	1.31
40596532--40596591	25	2.7	21	74	18	66	66	20	5	8	1.37
40596504--40596587	23	3.7	23	73	13	75	65	19	5	9	1.42
40596492--40596597	46	2.3	45	82	11	126	65	18	4	11	1.42
40599994--40600061	21	3.2	20	68	15	57	58	8	8	23	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40603577--40603627	12	4.2	12	84	0	57	0	15	33	50	1.44
40603582--40603622	6	6.8	6	88	0	64	0	14	34	51	1.43
40603577--40603627	15	3.8	15	69	28	51	0	15	33	50	1.44
40605561--40605596	17	2.1	17	89	0	54	25	0	2	72	0.98
40608229--40608261	17	1.9	17	93	0	57	69	3	0	27	1.03
40609596--40609636	15	2.7	15	84	0	55	51	2	19	26	1.59
40610198--40610237	20	1.9	22	85	10	57	55	12	0	32	1.38
40612046--40612074	14	2.1	14	93	6	51	34	0	17	48	1.47
40614076--40614135	29	2.1	28	78	9	66	58	11	0	30	1.34
40627163--40627620	60	7.6	59	73	10	356	29	17	17	36	1.92
40627163--40627588	119	3.5	122	83	6	505	30	17	17	34	1.93
40629012--40629041	12	2.5	12	94	0	51	10	30	30	30	1.90
40629746--40629785	17	2.5	16	84	11	55	72	0	2	25	0.97
40630697--40630745	22	2.2	23	78	10	57	20	6	30	42	1.76
40630927--40631626	84	8.3	84	93	1	1134	46	4	5	44	1.46
40630838--40631626	254	3.2	253	90	3	1207	46	3	5	44	1.45
40631410--40631542	45	3.1	45	63	24	106	46	3	4	45	1.38
40631423--40631559	38	3.5	38	65	25	88	48	2	3	44	1.35
40634602--40634626	2	12.5	2	100	0	50	48	0	0	52	1.00
40635477--40636052	62	9.6	59	80	6	525	37	15	18	27	1.92
40636748--40636789	18	2.3	19	79	4	50	23	4	11	59	1.51
40638933--40638992	25	2.5	23	78	10	66	38	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40662287--40662326	15	2.7	15	84	0	53	22	32	2	42	1.67
40664207--40664243	15	2.5	15	86	0	56	16	40	0	43	1.48
40668888--40669281	217	1.8	218	90	0	646	36	22	15	25	1.94
40674146--40674220	31	2.5	30	85	12	100	44	20	13	22	1.86
40674295--40674327	3	11.0	3	93	0	57	36	0	63	0	0.95
40676127--40676275	29	5.2	27	69	20	88	48	8	14	28	1.73
40687183--40687245	31	2.0	31	100	0	126	49	6	9	34	1.61
40700668--40700703	18	2.0	18	100	0	72	38	11	5	44	1.63
40700701--40700732	15	2.1	16	94	5	57	37	6	6	50	1.53
40703615--40703897	156	1.8	153	85	4	383	27	24	24	23	2.00
40708102--40708149	26	2.0	24	84	12	62	58	6	0	35	1.23
40712165--40712374	79	2.7	76	85	5	264	41	22	14	21	1.89
40719944--40720019	39	1.9	39	83	0	98	43	11	10	34	1.76
40724651--40724715	2	34.0	2	75	14	57	52	0	3	44	1.16
40732457--40732510	24	2.3	23	75	9	56	24	11	5	59	1.53
40736068--40736106	6	6.5	6	100	0	78	0	48	0	51	1.00
40738245--40738320	31	2.6	28	74	12	71	43	13	3	39	1.62
40738246--40738321	29	2.5	31	77	8	77	44	11	3	39	1.60
40745479--40745510	2	16.5	2	93	6	57	50	0	0	50	1.00
40752582--40752616	16	2.2	16	89	0	52	71	5	2	20	1.19
40752689--40752721	7	4.6	7	96	3	57	15	0	0	84	0.61
40752993--40753026	18	2.0	17	88	11	52	44	0	2	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40754586--40754636	15	3.3	15	78	10	50	62	0	37	0	0.95
40754787--40754821	18	1.9	18	88	11	54	28	0	11	60	1.32
40754989--40755031	21	2.1	20	91	4	68	27	0	13	58	1.37
40757235--40757594	30	11.9	30	81	5	368	36	23	0	38	1.60
40757235--40757594	61	6.0	60	82	6	381	36	23	0	38	1.60
40757239--40757594	91	3.9	90	83	4	430	37	23	0	39	1.59
40762714--40762769	14	3.6	14	83	11	58	80	0	17	1	0.80
40762714--40762777	8	8.0	8	79	11	69	79	0	18	1	0.81
40762714--40762777	30	2.0	31	88	11	94	79	0	18	1	0.81
40762714--40762776	17	3.9	16	81	12	76	79	0	19	1	0.82

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