genome.fa.s12.2.7.7.80.10.50.1000.18.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  18  of  132  ( 15769 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)
5223798--5223837	18	2.2	19	86	8	57	57	2	12	27	1.48
5224971--5225074	43	2.4	44	80	4	113	53	14	15	16	1.73
5225484--5225554	20	3.5	20	79	9	65	39	7	5	47	1.54
5225684--5225723	20	2.2	18	86	13	55	30	15	2	52	1.55
5227069--5227176	43	2.6	43	82	4	123	56	12	12	17	1.67
5246231--5246287	20	2.8	20	78	5	71	40	7	3	49	1.47
5249306--5249348	20	2.2	19	87	4	59	32	0	2	65	1.06
5254896--5254939	21	2.1	21	82	0	52	40	4	13	40	1.65
5255144--5255182	19	2.1	19	90	0	60	46	0	0	53	1.00
5259191--5259224	15	2.2	16	89	5	52	41	8	2	47	1.50
5261988--5262034	22	2.1	22	81	14	53	31	6	17	44	1.73
5268418--5268457	21	1.9	21	85	10	55	37	10	0	52	1.35
5268869--5268912	11	4.0	11	79	8	54	56	0	0	43	0.99
5268871--5268916	22	2.1	22	92	4	76	63	0	0	36	0.95
5268922--5268993	9	7.6	9	75	7	54	66	1	0	31	1.00
5268961--5269002	19	2.2	19	83	8	50	64	2	4	28	1.26
5269267--5269305	19	2.0	21	85	10	55	23	5	12	58	1.54
5269485--5269555	21	3.4	21	71	19	58	38	4	4	53	1.40
5269530--5269576	20	2.4	19	82	10	58	31	2	2	63	1.18
5269646--5269698	20	2.7	20	87	0	79	33	30	11	24	1.90
5269990--5270014	2	12.5	2	100	0	50	48	0	0	52	1.00
5271623--5271664	19	2.1	19	86	8	57	23	7	9	59	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5281270--5281323	28	1.9	28	92	0	90	46	20	9	24	1.79
5283214--5283276	32	2.0	32	84	6	83	47	4	4	42	1.45
5284681--5284740	18	3.2	18	68	21	50	56	3	8	31	1.45
5284862--5284944	42	2.0	42	90	0	130	32	10	15	40	1.82
5284962--5285041	29	2.6	30	86	5	99	31	7	16	45	1.75
5285231--5285297	31	2.3	27	76	14	62	43	11	8	35	1.73
5285359--5285423	26	2.4	27	77	7	71	50	0	4	44	1.22
5285463--5285518	26	2.2	24	87	6	76	25	0	7	67	1.15
5285581--5285636	17	3.3	17	75	7	60	60	0	3	35	1.14
5296433--5296457	4	6.2	4	100	0	50	76	0	0	24	0.80
5302382--5302428	9	5.4	9	80	10	62	68	0	0	31	0.90
5302388--5302419	16	2.0	16	100	0	64	68	0	0	31	0.90
5302371--5302429	25	2.5	24	86	8	77	66	0	0	33	0.92
5302836--5302883	19	2.5	20	89	3	71	70	2	0	27	0.98
5302985--5303032	2	24.5	2	95	4	89	47	0	0	52	1.00
5302985--5303063	12	6.2	13	75	16	69	48	1	0	50	1.08
5304856--5304939	6	14.3	6	67	13	50	40	2	2	54	1.26
5304877--5304953	17	4.4	17	80	6	91	38	2	1	57	1.21
5308615--5308671	30	1.9	30	85	7	80	49	5	3	42	1.42
5309702--5309784	31	2.7	30	81	10	87	53	12	10	24	1.70
5314469--5314525	21	2.6	23	73	21	59	22	3	10	63	1.42
5318789--5318819	16	1.9	16	100	0	62	29	19	6	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5319407--5319449	21	2.0	21	90	0	68	25	11	6	55	1.60
5329631--5329806	89	2.0	89	98	0	343	35	12	9	43	1.74
5329771--5329899	60	2.2	60	84	4	170	37	16	8	37	1.79
5330470--5330517	22	2.2	22	88	0	69	75	2	6	16	1.11
5330497--5330526	15	1.9	16	93	6	53	66	0	13	20	1.24
5331342--5331384	19	2.3	19	84	8	52	58	4	0	37	1.19
5331591--5331635	23	1.9	24	90	4	74	48	6	0	44	1.29
5334384--5334469	29	2.9	29	75	16	86	29	15	4	51	1.63
5338093--5338117	3	8.3	3	100	0	50	0	32	0	68	0.90
5342356--5342403	24	2.0	24	100	0	96	20	20	4	54	1.61
5342815--5342841	14	1.9	14	100	0	54	44	18	7	29	1.77
5344389--5344426	19	2.0	20	84	5	51	47	5	5	42	1.48
5344768--5344807	15	2.5	17	84	12	57	62	0	2	35	1.09
5350321--5350441	58	2.1	59	84	7	158	26	10	11	51	1.71
5351760--5351810	12	4.2	12	82	0	57	72	21	1	3	1.11
5351760--5351842	24	3.5	24	67	15	57	73	19	2	4	1.12
5351789--5351850	20	3.1	20	81	13	74	70	22	3	3	1.16
5351789--5351841	18	2.8	19	85	8	72	71	20	3	3	1.17
5361019--5361049	15	2.0	16	93	6	55	22	6	0	70	1.09
5365178--5365206	2	14.5	2	100	0	58	48	0	0	51	1.00
5366683--5366711	10	2.9	10	100	0	58	51	37	0	10	1.36
5367923--5367959	16	2.4	16	90	4	58	62	5	0	32	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5369114--5369175	19	3.3	18	80	14	56	56	4	1	37	1.30
5369885--5369957	20	3.7	20	76	12	71	58	5	0	35	1.21
5369938--5370028	17	5.2	18	75	10	82	46	2	1	50	1.20
5370143--5370185	22	2.0	22	86	4	61	41	11	6	39	1.68
5379611--5380031	139	3.0	139	96	0	772	23	14	20	42	1.88
5384540--5384685	58	2.5	58	85	8	199	46	1	0	52	1.09
5384559--5384685	32	4.3	31	72	17	99	48	0	0	51	1.00
5384780--5384873	44	2.1	44	86	7	127	37	26	5	30	1.79
5384855--5384910	16	3.5	16	82	7	78	26	26	5	41	1.77
5390437--5390479	16	3.0	14	83	13	52	53	0	34	11	1.37
5396686--5396731	9	4.6	10	80	17	51	2	6	19	71	1.18
5396673--5396743	22	3.5	20	79	7	81	2	5	22	69	1.23
5396755--5396861	12	9.3	12	73	10	62	5	4	21	68	1.29
5396735--5396861	24	5.0	24	74	13	112	5	4	22	67	1.30
5396758--5396862	55	1.9	54	90	1	165	5	4	20	68	1.29
5396774--5396875	43	2.3	43	83	5	116	6	3	21	67	1.31
5396989--5397081	49	1.9	48	84	6	125	25	0	7	66	1.18
5397733--5397771	20	2.0	19	85	14	53	41	0	28	30	1.57
5417327--5417380	16	3.4	16	75	10	65	16	11	20	51	1.74
5417327--5417388	32	2.1	29	82	14	74	16	12	19	51	1.76
5421102--5421158	26	2.2	26	84	9	71	35	0	0	64	0.93
5426854--5426907	15	3.7	15	70	22	51	70	0	3	25	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5427077--5427130	12	4.5	12	72	25	51	53	1	1	42	1.22
5433313--5433348	2	18.0	2	100	0	72	50	0	0	50	1.00
5440307--5440353	24	2.0	24	95	0	85	34	27	10	27	1.90
5450892--5450959	26	2.7	26	84	11	79	47	5	8	38	1.59
5452622--5452659	20	1.9	20	88	0	58	18	2	23	55	1.55
5452621--5452665	20	2.2	20	80	0	54	24	2	20	53	1.57
5453018--5453067	19	2.6	19	80	17	59	54	8	2	36	1.42
5453017--5453080	19	3.4	19	70	12	51	56	6	1	35	1.34
5453397--5453429	7	4.6	7	92	7	57	27	57	0	15	1.38
5455352--5455397	24	1.9	24	86	0	65	50	6	4	39	1.48
5459170--5459307	31	4.6	30	70	4	116	25	17	12	44	1.83
5459241--5459307	30	2.2	30	86	7	91	28	16	10	44	1.80
5459170--5459358	89	2.1	91	85	5	251	24	16	13	44	1.84
5459530--5459624	29	3.4	26	75	18	75	52	12	13	21	1.73
5459529--5459703	60	2.9	60	80	6	194	50	12	14	22	1.76
5473908--5473946	17	2.3	17	90	0	60	46	25	12	15	1.81
5487706--5487748	22	2.0	21	86	4	59	48	16	4	30	1.66
5499870--5499953	42	2.0	42	90	4	134	32	0	20	47	1.50
5504394--5504421	6	4.7	6	100	0	56	17	0	28	53	1.44
5512185--5512221	14	2.7	14	84	16	51	67	2	5	24	1.25
5516052--5516177	63	2.0	63	96	0	234	34	11	7	46	1.70
5519683--5519712	15	2.0	15	93	0	51	73	0	3	23	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5527140--5527470	150	2.2	150	97	0	626	22	28	13	35	1.92
5529226--5529284	31	1.9	31	85	0	82	40	16	8	33	1.79
5530382--5530423	16	2.5	18	85	11	54	19	0	16	64	1.30
5531880--5531911	14	2.1	16	88	11	50	53	3	0	43	1.16
5533598--5533637	17	2.3	18	86	4	55	40	10	7	42	1.67
5540201--5540258	30	1.9	31	89	3	91	51	5	8	34	1.55
5543141--5543179	2	19.5	2	100	0	78	51	0	0	48	1.00
5551899--5551970	30	2.3	33	83	11	98	55	1	0	43	1.08
5557939--5558104	23	7.4	23	76	14	150	42	22	23	11	1.86
5557945--5558019	39	1.9	39	91	0	123	44	21	22	12	1.85

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