genome.fa.s1.2.7.7.80.10.50.1000.16.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  16  of  126  ( 15035 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)
5393489--5393806	98	3.2	98	84	2	406	19	23	19	37	1.94
5393892--5393998	49	2.2	49	82	0	124	18	28	14	38	1.91
5395832--5395893	28	2.2	28	88	5	90	20	8	14	56	1.64
5396505--5396615	17	6.4	17	80	7	125	54	4	0	40	1.27
5396508--5396615	35	3.1	34	80	6	119	54	4	0	39	1.27
5396505--5396597	6	16.0	6	72	14	70	53	3	1	41	1.24
5396524--5396583	29	2.1	29	84	6	77	53	5	0	41	1.23
5398500--5398575	30	2.5	29	83	12	91	46	1	0	52	1.08
5398503--5398565	29	2.2	29	88	5	92	47	0	0	52	1.00
5398961--5399000	18	2.4	17	87	8	55	60	0	0	40	0.97
5399714--5399770	27	2.1	28	83	9	73	49	1	3	45	1.29
5399907--5399975	17	4.0	17	68	12	52	55	10	0	34	1.34
5404597--5404641	3	15.0	3	100	0	90	33	0	0	66	0.92
5406061--5406257	96	2.0	99	86	4	276	51	7	14	26	1.67
5410313--5410342	13	2.2	14	94	5	53	53	0	0	46	1.00
5410991--5411032	22	2.0	21	81	13	50	28	4	7	59	1.44
5411330--5411435	53	2.0	53	98	0	203	29	24	17	28	1.98
5412101--5412143	21	2.0	21	95	0	77	34	30	9	25	1.87
5414313--5414567	127	2.0	127	93	3	433	40	17	10	31	1.83
5415339--5415398	27	2.4	24	84	15	93	48	21	11	18	1.80
5415347--5415398	27	1.9	27	100	0	104	44	23	11	21	1.84
5424499--5424804	87	3.5	86	87	1	416	36	19	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5426871--5426929	29	2.0	30	93	3	102	30	0	13	55	1.38
5426849--5426938	30	3.0	30	75	8	94	35	0	10	54	1.34
5427072--5427144	31	2.4	30	80	8	85	41	8	10	39	1.70
5427644--5427704	30	2.0	30	100	0	122	32	9	16	40	1.81
5429598--5429656	24	2.5	24	91	0	91	55	6	6	30	1.52
5430407--5430431	5	5.0	5	100	0	50	0	20	0	80	0.72
5431012--5431052	16	2.5	17	80	15	50	34	7	2	56	1.40
5432440--5432483	23	2.0	22	82	13	54	38	0	0	61	0.96
5432998--5433073	30	2.6	29	85	4	107	31	5	0	63	1.17
5433000--5433084	29	2.9	28	77	19	84	30	7	0	62	1.22
5432989--5433101	30	3.8	30	73	12	99	32	7	0	60	1.24
5433107--5433153	22	2.1	22	84	7	60	40	2	2	55	1.24
5433924--5433996	19	3.8	19	70	14	60	26	19	1	53	1.53
5433914--5434075	85	1.9	85	83	7	213	23	20	1	54	1.54
5434701--5434746	24	1.9	24	86	0	65	47	2	6	43	1.41
5435868--5435918	22	2.3	22	76	6	59	21	7	15	54	1.66
5437442--5437479	13	2.8	14	84	8	51	57	13	7	21	1.60
5437430--5437473	22	2.0	22	81	0	52	54	13	9	22	1.67
5438130--5438473	87	4.0	87	84	1	433	37	17	15	29	1.91
5438130--5438473	173	2.0	173	84	2	449	37	17	15	29	1.91
5441622--5441646	13	1.9	13	100	0	50	48	12	0	40	1.40
5447575--5447658	39	2.2	39	86	4	116	45	0	3	51	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5447617--5447650	17	2.0	18	88	11	54	44	0	0	55	0.99
5450143--5450185	18	2.4	18	88	7	61	46	0	0	53	1.00
5464677--5464832	60	2.8	53	85	12	231	30	16	16	36	1.91
5464706--5464832	60	2.1	60	98	0	245	27	16	17	38	1.91
5471638--5471889	29	8.5	29	81	10	253	34	2	27	35	1.70
5475595--5475653	28	2.2	26	80	14	66	42	28	5	23	1.75
5475850--5475883	17	1.9	18	88	5	52	38	0	11	50	1.39
5477236--5477276	21	1.9	22	90	5	66	46	0	2	51	1.14
5477239--5477315	29	2.6	30	85	8	104	48	0	2	49	1.15
5477256--5477315	28	2.1	28	84	6	77	46	0	1	51	1.10
5478383--5478422	20	2.0	20	85	0	53	12	0	22	65	1.26
5478445--5478492	20	2.4	20	82	6	53	31	2	2	64	1.16
5479135--5479181	25	1.9	24	82	4	58	29	6	19	44	1.75
5480605--5480637	17	1.9	17	88	11	50	51	9	6	33	1.58
5482712--5482758	24	2.0	24	91	0	76	25	10	6	57	1.56
5488127--5488158	3	10.7	3	100	0	64	31	0	0	68	0.90
5506795--5506889	12	8.2	12	74	6	63	70	17	4	7	1.27
5506793--5506856	23	2.9	22	79	6	76	71	15	3	9	1.24
5506800--5506841	20	2.1	20	82	8	50	73	16	2	7	1.15
5506832--5506889	24	2.4	24	85	0	80	68	18	5	6	1.31
5506802--5506919	56	2.2	53	80	9	121	68	17	5	8	1.34
5506924--5506969	19	2.3	19	92	7	74	71	13	6	8	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5517722--5517782	12	5.3	11	76	7	50	73	16	3	6	1.17
5517722--5517764	21	2.1	20	91	4	68	74	18	2	4	1.10
5517760--5517839	30	2.6	31	82	9	83	66	12	8	12	1.45
5533830--5533909	25	3.2	25	78	7	65	48	22	17	11	1.78
5535852--5535881	13	2.3	13	94	0	51	70	3	3	23	1.18
5540816--5540896	17	4.6	18	80	11	87	37	2	6	54	1.39
5540840--5540898	23	2.6	22	86	5	73	40	0	5	54	1.23
5541982--5542023	17	2.5	17	82	17	52	73	0	21	4	1.01
5542731--5542799	30	2.2	31	87	5	95	40	23	2	33	1.69
5542831--5542999	60	2.9	59	90	1	250	31	29	4	33	1.78
5542884--5542967	30	2.9	28	68	15	71	33	28	3	34	1.75
5547544--5547576	12	2.8	12	90	0	57	72	0	0	27	0.85
5554367--5554414	26	1.9	25	83	8	62	16	43	2	37	1.60
5554887--5554921	16	2.1	18	89	10	56	54	0	37	8	1.31
5554892--5554935	18	2.4	19	80	3	54	56	0	36	6	1.26
5561351--5561375	1	25.0	1	100	0	50	100	0	0	0	0.00
5563535--5563574	19	2.0	20	85	4	55	30	32	7	30	1.85
5576042--5576089	9	5.0	9	82	12	60	70	2	2	25	1.09
5576042--5576104	29	2.1	31	85	11	87	65	1	3	30	1.18
5578645--5578705	21	3.0	21	82	2	61	36	1	3	59	1.24
5584064--5584137	37	2.0	37	89	5	114	44	29	8	17	1.77
5587666--5587694	14	2.1	14	100	0	58	0	6	6	86	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5589725--5589753	5	5.8	5	100	0	58	20	58	0	20	1.39
5593101--5593145	19	2.5	19	85	7	58	42	0	2	55	1.12
5593593--5593637	22	2.0	23	84	16	60	55	0	0	44	0.99
5596870--5597179	29	10.7	28	67	16	159	32	2	31	32	1.72
5596870--5597181	58	5.4	59	89	2	454	32	2	32	33	1.72
5598983--5599037	28	1.9	29	88	3	85	18	12	27	41	1.86
5599095--5599155	17	3.6	17	93	0	104	55	0	1	42	1.09
5599094--5599155	6	10.8	6	76	10	67	54	0	1	43	1.09
5599093--5599178	34	2.5	33	79	5	84	53	3	1	41	1.25
5599101--5599177	28	2.8	28	78	7	77	53	3	1	41	1.27
5612093--5612408	59	5.4	58	80	5	343	32	2	29	35	1.72
5612093--5612378	30	9.8	29	64	23	100	32	3	29	34	1.73
5612093--5612409	117	2.7	116	82	2	393	33	2	29	35	1.72
5612305--5612398	28	3.2	28	72	12	82	30	2	32	34	1.70
5619340--5619417	39	2.0	39	89	0	120	24	12	23	39	1.89
5622129--5622168	21	2.0	21	95	5	73	27	27	15	30	1.96
5622562--5622600	21	1.9	21	89	5	62	33	25	5	35	1.78
5626935--5626990	26	2.2	26	83	6	69	41	7	0	51	1.29
5628060--5628110	9	5.7	9	79	9	59	41	0	31	27	1.56
5642024--5642066	6	7.2	6	94	0	77	51	0	46	2	1.13
5665912--5666005	44	2.1	44	84	7	120	14	34	20	30	1.93
5666015--5666171	30	5.3	30	88	1	183	16	28	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5666015--5666171	60	2.6	59	84	2	224	16	28	19	36	1.93
5666270--5666357	44	2.0	44	97	0	167	20	21	20	37	1.94
5668796--5668923	10	12.8	10	70	13	59	62	4	3	29	1.31
5668786--5668946	28	5.5	30	67	20	92	64	5	2	27	1.28
5668781--5668848	29	2.4	26	75	15	64	70	2	1	25	1.09
5668784--5668859	19	4.0	19	70	14	59	69	3	1	25	1.13
5670193--5670241	20	2.5	18	78	18	53	32	6	4	57	1.42
5670286--5670318	16	2.0	17	88	5	50	24	0	0	75	0.80
5670296--5670335	20	2.1	19	95	4	71	22	0	0	77	0.77
5674199--5674248	19	2.7	18	76	11	57	70	6	2	22	1.20

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