genome.fa.s3.2.7.7.80.10.50.1000.124.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  124  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)
39460847--39460914	21	3.2	21	91	2	109	22	0	33	44	1.53
39461284--39461358	11	6.5	11	73	14	62	69	0	25	5	1.09
39461284--39461356	23	3.1	23	75	11	67	69	0	24	5	1.09
39463092--39463138	24	2.0	23	84	12	60	25	8	10	55	1.62
39468774--39468812	20	2.0	20	89	0	60	48	5	23	23	1.70
39475170--39475220	20	2.5	21	79	17	54	50	0	7	41	1.31
39488638--39488680	17	2.5	17	84	0	50	18	11	13	55	1.68
39495574--39495629	21	2.7	21	77	0	58	37	23	7	32	1.82
39496915--39496946	16	2.0	16	93	0	55	25	18	3	53	1.59
39500646--39500700	21	2.6	21	73	0	56	32	25	12	29	1.93
39502153--39502184	16	2.0	16	93	0	55	25	18	3	53	1.59
39516843--39516875	13	2.6	13	90	4	50	0	24	0	75	0.80
39518807--39518994	23	8.1	23	79	9	136	40	22	24	11	1.87
39522396--39522432	18	2.1	18	89	0	56	43	5	27	24	1.76
39522681--39522721	21	2.1	19	86	9	55	24	17	0	58	1.38
39526137--39526226	27	3.3	27	80	6	92	32	26	14	26	1.95
39528689--39528752	26	2.5	26	92	2	112	32	26	3	37	1.72
39533295--39533325	16	1.9	16	93	0	53	61	0	16	22	1.34
39547248--39547300	27	2.0	27	96	0	97	32	5	16	45	1.71
39551451--39551493	18	2.4	18	84	0	50	46	4	16	32	1.67
39551727--39552043	30	10.6	30	80	5	270	35	2	26	36	1.69
39552988--39553021	13	2.6	13	85	0	50	61	8	8	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39553141--39553217	32	2.6	29	78	15	93	18	10	14	57	1.65
39553946--39554091	37	3.9	37	89	0	220	21	19	20	38	1.94
39554180--39554431	85	3.0	85	82	0	297	26	21	13	39	1.90
39554037--39554633	293	2.0	294	84	3	774	24	21	14	39	1.91
39554471--39554638	85	2.0	85	87	0	246	25	22	14	38	1.92
39554324--39555008	208	3.3	208	89	0	996	23	21	16	38	1.93
39554681--39554845	85	1.9	85	82	2	206	23	21	16	39	1.92
39554820--39555168	160	2.2	160	92	1	574	22	19	19	38	1.93
39555036--39555216	48	4.0	48	74	15	168	22	20	17	39	1.93
39554877--39555374	208	2.4	203	82	8	530	22	20	18	37	1.94
39554620--39555377	368	2.1	368	90	1	1198	22	20	18	38	1.94
39555048--39555213	85	2.0	85	86	0	233	22	21	17	39	1.93
39554980--39555392	208	2.0	208	92	0	691	21	21	18	38	1.94
39572733--39572770	19	2.0	19	94	0	67	21	15	18	44	1.86
39577053--39577215	84	1.9	84	86	2	229	23	22	17	36	1.94
39577730--39577978	49	5.1	49	76	6	184	20	24	17	38	1.93
39577786--39577972	98	1.9	98	81	2	223	20	24	16	39	1.92
39577786--39578003	98	2.2	98	79	4	217	20	25	14	39	1.91
39582238--39582267	15	2.0	15	100	0	60	40	13	6	40	1.71
39586331--39586374	19	2.4	18	81	7	52	47	2	15	34	1.58
39586602--39586740	30	4.6	30	74	7	102	34	5	24	35	1.77
39587965--39588035	32	2.3	30	86	9	106	18	11	14	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39588435--39588493	27	2.2	27	93	0	100	32	3	15	49	1.61
39591873--39591915	3	14.3	3	100	0	86	65	0	0	34	0.93
39592385--39592473	42	2.1	42	89	0	133	34	23	20	21	1.96
39592411--39592528	61	2.0	58	87	8	168	32	28	18	20	1.96
39592455--39592492	19	2.0	19	94	0	67	18	44	21	15	1.86
39592474--39592632	42	3.8	42	84	3	212	35	27	18	18	1.95
39592385--39592576	103	1.9	103	88	2	296	34	26	19	19	1.96
39593040--39593070	16	1.9	16	93	0	53	0	12	0	87	0.55
39604529--39604651	24	5.1	24	91	0	201	32	17	25	25	1.96
39604713--39604759	24	2.0	24	95	0	85	29	12	4	53	1.58
39606613--39606930	59	5.4	59	92	0	512	33	2	31	33	1.73
39607000--39607341	162	2.1	162	87	1	497	42	13	18	26	1.87
39608191--39608237	3	15.0	3	86	4	58	34	2	0	63	1.06
39608190--39608225	14	2.8	13	88	12	56	30	0	0	69	0.89
39610756--39610795	20	2.0	20	85	0	53	32	7	0	60	1.25
39611863--39612109	51	4.9	51	69	10	166	45	10	3	41	1.54
39611711--39612367	151	4.4	148	85	6	795	43	10	3	42	1.56
39612780--39612825	3	15.3	3	95	0	56	43	32	0	23	1.54
39612824--39612860	3	12.3	3	100	0	74	64	0	0	35	0.94
39615014--39615071	22	2.6	23	80	17	61	41	18	6	32	1.78
39615050--39615094	20	2.2	20	88	7	65	46	15	4	33	1.66
39617639--39617759	23	5.2	22	86	7	134	10	22	22	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39617639--39617759	48	2.6	46	83	12	149	10	22	22	44	1.83
39617744--39617809	17	4.0	17	92	3	100	12	25	22	39	1.89
39617744--39617809	33	2.0	33	88	5	98	12	25	22	39	1.89
39617800--39617909	25	4.8	22	73	16	89	11	22	18	47	1.81
39624095--39624131	19	1.9	19	94	0	65	35	21	8	35	1.83
39624701--39624800	50	2.0	50	81	14	118	51	0	25	24	1.49
39624590--39624914	160	2.0	162	82	8	396	44	0	32	23	1.54
39624957--39624981	9	2.8	9	100	0	50	24	12	20	44	1.85
39626423--39626482	17	3.2	19	70	18	54	20	6	3	70	1.25
39626507--39626544	18	2.2	18	90	4	60	10	21	21	47	1.80
39627665--39627722	27	2.2	27	81	3	64	48	0	1	50	1.11
39631307--39631353	21	2.2	21	85	7	60	68	4	4	23	1.26
39631770--39631821	23	2.3	22	80	6	59	71	0	0	28	0.87
39639245--39639279	18	1.9	18	100	0	70	48	5	0	45	1.26
39639375--39639420	22	2.0	22	83	4	56	45	2	4	47	1.34
39641226--39641278	2	26.5	2	100	0	106	50	0	0	49	1.00
39640864--39641662	414	1.9	414	98	1	1539	48	5	8	36	1.58
39646813--39647800	493	2.0	493	99	0	1958	32	17	17	32	1.93
39656386--39656439	18	3.1	16	77	17	54	61	1	37	0	1.07
39660899--39661038	70	2.0	70	98	0	271	40	19	12	27	1.88
39665133--39665199	30	2.2	30	91	0	107	25	25	28	20	1.99
39668500--39668529	16	1.9	15	93	6	51	66	6	0	26	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39678892--39678959	34	2.0	34	100	0	136	29	14	23	32	1.94
39679919--39679948	6	5.0	6	100	0	60	0	0	50	50	1.00
39683817--39683876	27	2.3	26	82	2	75	35	0	3	61	1.12
39684003--39684048	24	1.9	24	100	0	92	43	8	30	17	1.79
39694258--39694304	24	2.0	24	87	4	69	61	27	2	8	1.36
39694402--39694447	24	1.9	24	81	0	56	47	8	6	36	1.60
39699520--39699558	20	2.0	20	89	0	60	48	2	10	38	1.51
39706743--39706781	20	2.0	20	89	0	60	48	2	10	38	1.51
39710888--39710947	24	2.5	24	88	0	93	28	26	23	21	1.99
39713340--39713614	30	9.3	29	80	9	157	37	2	24	35	1.69
39713375--39713609	30	7.9	31	82	7	238	38	1	24	35	1.66
39718046--39718097	24	2.2	24	85	0	68	55	7	3	32	1.46
39722560--39722590	16	1.9	16	93	0	53	22	16	0	61	1.34
39726142--39726237	38	2.5	38	91	0	156	32	20	10	36	1.87
39732399--39732441	12	3.7	12	81	3	52	79	2	18	0	0.85
39734944--39734998	27	2.0	29	89	7	87	58	0	5	36	1.21
39734939--39734988	9	5.4	9	79	11	57	62	0	4	34	1.14
39735063--39735121	31	1.9	31	86	3	84	66	0	5	28	1.13
39737798--39737826	4	7.2	4	100	0	58	24	0	24	51	1.48
39738295--39738362	31	2.2	31	82	7	77	39	13	8	38	1.75
39740131--39740166	16	2.2	16	90	0	54	25	8	13	52	1.68
39744438--39744665	111	2.1	111	94	0	393	32	18	17	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39754374--39754456	33	2.4	35	84	7	109	31	22	20	25	1.98
39766609--39766679	11	6.5	11	72	18	67	4	26	0	69	1.07
39767224--39767268	20	2.2	20	92	0	72	24	20	15	40	1.91
39773781--39773856	22	3.4	23	80	7	79	7	27	0	64	1.21
39773788--39773852	11	5.9	11	75	13	71	7	27	0	64	1.20
39774377--39774465	7	13.4	7	73	11	62	19	24	23	32	1.97
39774371--39774452	25	3.2	25	77	6	85	19	26	23	30	1.98
39774435--39774468	13	2.6	13	90	9	52	14	14	20	50	1.78
39780450--39780574	40	3.1	40	86	3	171	23	16	29	31	1.96
39780450--39780567	41	3.0	40	87	3	166	24	16	27	31	1.96

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