genome.fa.s13866.2.7.7.80.10.50.1000.1.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: AWWV01013866.1 Corchorus capsularis cultivar CVL-1 contig13887, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  172337

Tables:   1   2   

This is table  1  of  2  ( 144 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)
821--858	11	3.5	11	89	10	51	39	0	2	57	1.12
1908--2157	136	1.8	136	98	0	482	21	5	23	50	1.68
2095--2219	62	2.0	62	93	0	214	25	6	19	48	1.72
2706--2795	45	2.0	45	95	0	162	33	20	22	24	1.97
4831--4902	34	2.2	34	87	9	105	29	19	2	48	1.63
4934--4987	27	2.0	28	92	3	92	11	22	3	62	1.43
4934--4980	13	3.5	13	72	16	51	8	25	2	63	1.34
4936--5008	27	2.6	28	83	10	80	12	23	2	61	1.43
5014--5068	26	2.1	27	86	10	78	23	20	7	49	1.74
5043--5127	32	2.7	31	78	12	91	24	23	4	47	1.71
5117--5158	21	2.0	22	90	4	68	21	16	7	54	1.65
5130--5171	21	2.0	21	81	9	50	26	16	7	50	1.71
5177--5351	20	8.3	20	68	17	81	19	24	2	53	1.58
5192--5375	34	5.2	34	87	10	255	20	23	3	52	1.61
5252--5365	7	16.7	7	68	15	78	17	26	2	53	1.57
5354--5920	22	25.4	22	68	15	211	20	20	4	54	1.62
5347--5491	77	1.9	78	82	7	188	24	21	5	48	1.71
5438--5919	43	11.0	43	67	15	188	19	20	4	55	1.60
5522--5767	64	3.7	67	86	6	304	17	21	2	58	1.52
5522--5792	72	4.0	71	83	8	239	17	21	3	57	1.53
6003--6070	36	1.9	35	85	5	93	23	19	8	48	1.76
10003--10104	44	2.3	44	81	3	116	29	18	23	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10101--10211	43	2.6	43	84	7	143	35	14	19	30	1.92
10039--10211	86	2.0	87	80	4	197	32	15	22	29	1.95
12168--12201	12	2.8	12	90	0	50	0	20	29	50	1.49
20269--20293	2	12.5	2	100	0	50	52	0	0	48	1.00
28449--28536	43	2.1	43	86	2	124	37	5	20	36	1.76
31114--31188	37	2.0	37	94	0	132	12	17	9	61	1.56
35000--35336	51	7.1	50	72	18	319	44	10	17	28	1.81
35020--35391	42	8.2	43	70	18	247	45	10	16	27	1.80
34993--35378	93	4.2	93	96	0	700	44	10	16	27	1.81
35412--35527	39	3.2	39	68	26	117	42	7	20	29	1.80
35383--35527	70	2.1	70	94	0	254	42	8	20	28	1.80
40023--40079	22	2.7	22	86	10	75	52	3	19	24	1.61
40045--40148	14	6.6	14	67	25	57	47	2	22	27	1.65
40052--40112	6	9.2	6	73	19	50	47	3	21	27	1.66
40052--40112	26	2.2	28	82	5	81	47	3	21	27	1.66
40206--40258	22	2.3	23	84	9	65	41	7	18	32	1.79
40331--40451	14	8.7	13	70	19	50	44	4	21	28	1.73
40336--40440	22	4.7	22	73	13	81	44	5	21	27	1.75
40470--40819	8	45.8	8	66	21	75	47	5	20	27	1.71
40548--40651	14	7.0	14	78	10	91	45	5	23	25	1.75
40577--40651	30	2.5	30	91	0	114	49	6	20	24	1.72
40623--40776	22	7.1	22	79	10	140	48	6	18	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40616--40808	58	3.2	58	80	13	212	48	6	18	26	1.72
40940--41137	8	25.4	8	64	19	62	46	1	22	29	1.61
40956--41043	24	3.8	23	75	11	81	51	2	17	29	1.57
40956--41005	25	2.0	24	88	3	73	54	4	16	26	1.59
42480--42512	6	5.7	6	85	7	50	15	3	15	66	1.37
42971--42995	12	2.1	12	100	0	50	8	8	0	84	0.79
50930--51346	70	6.0	70	91	0	654	44	7	18	29	1.78
51242--51323	31	2.7	30	79	11	87	50	7	14	28	1.70
51298--51410	44	2.7	41	76	11	120	43	10	19	26	1.83
51302--51390	44	2.0	44	88	0	133	42	11	20	25	1.85
51385--51529	40	3.6	39	87	4	209	48	9	15	26	1.76
51536--52667	41	27.8	41	88	5	1656	46	10	20	22	1.81
52022--52086	32	2.0	32	93	0	112	44	13	18	23	1.85
51561--52660	606	1.8	607	93	2	1906	46	10	20	22	1.80
52677--52859	32	5.5	32	82	10	206	43	6	19	30	1.77
52660--52859	68	2.9	67	83	10	198	42	6	20	30	1.77
52660--52859	100	2.0	102	90	5	316	42	6	20	30	1.77
56609--56682	33	2.2	33	90	0	112	25	9	22	41	1.84
57061--57119	30	2.0	30	90	6	93	30	16	30	22	1.96
58606--58782	77	2.3	77	92	0	291	20	16	29	32	1.95
64127--64158	3	10.7	3	100	0	64	31	0	0	68	0.90
64512--64545	2	17.5	2	93	6	61	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)
71676--71717	20	2.1	20	86	0	57	14	23	19	42	1.87
77844--77926	42	2.0	43	83	11	109	25	18	22	33	1.96
81652--81676	12	2.1	12	100	0	50	52	8	0	40	1.31
85096--85139	19	2.3	19	88	0	61	11	52	2	34	1.50
90208--90273	31	2.1	31	94	5	116	28	21	3	46	1.66
90463--90513	26	1.9	27	84	4	68	43	3	1	50	1.31
90835--90897	22	2.9	22	95	0	108	33	14	17	34	1.90
90791--90951	22	7.2	22	73	5	99	32	10	19	37	1.86
90987--91045	22	2.7	22	79	10	66	37	10	16	35	1.83
91051--91347	22	13.3	22	68	12	113	39	10	16	34	1.82
91161--91372	22	9.5	22	74	8	99	42	9	13	34	1.77
91139--91353	44	4.9	44	72	5	157	41	9	14	33	1.79
91453--91522	19	3.5	20	84	7	88	44	10	17	28	1.81
91491--91971	22	22.1	22	68	13	154	39	10	14	35	1.81
96589--96617	1	29.0	1	100	0	58	100	0	0	0	0.00
100518--100588	28	2.5	28	90	4	108	16	15	22	45	1.85
103347--103795	51	8.7	51	77	8	385	42	5	13	38	1.67
103514--103795	104	2.7	103	80	3	316	40	6	13	39	1.69
103348--103724	156	2.4	156	92	2	627	42	4	13	38	1.66
103348--103795	105	4.3	102	77	6	300	42	5	13	38	1.67
104475--104789	47	6.4	47	85	11	407	45	9	21	23	1.80
104475--104789	94	3.2	99	86	8	453	45	9	21	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104670--104811	56	2.6	56	92	3	225	49	9	17	23	1.76
104750--104905	71	2.2	70	83	8	183	49	7	17	25	1.73
104821--104886	31	2.1	31	88	8	98	48	6	19	25	1.72
105025--105060	14	2.6	14	86	0	54	55	2	19	22	1.56
104999--105065	35	1.9	35	87	6	100	55	2	20	20	1.57
104999--105094	51	1.9	49	85	4	129	56	3	19	20	1.56
104995--105151	86	1.8	85	87	4	235	56	2	22	17	1.53
105072--105166	35	2.7	35	91	0	154	56	3	24	15	1.54
105140--105372	22	10.3	22	71	17	104	54	6	18	19	1.65
105163--105242	29	3.0	25	73	21	74	62	5	13	18	1.49
105246--105633	21	18.8	21	69	20	110	51	7	20	20	1.71
105230--105591	35	8.7	43	72	18	181	51	7	20	20	1.71
105329--105598	36	7.3	35	74	13	213	51	7	21	19	1.71
105333--105474	71	2.0	71	91	0	230	50	9	20	19	1.74
105394--105426	14	2.3	15	85	15	52	48	6	24	21	1.72
105422--105455	14	2.3	15	90	5	52	55	5	14	23	1.61
105521--105576	15	3.9	15	74	9	62	57	5	21	16	1.59
105557--105675	21	5.5	22	75	20	83	52	6	18	21	1.68
110793--110818	8	3.2	8	100	0	52	0	50	11	38	1.39
112601--112634	2	17.0	2	93	0	59	47	0	2	50	1.16
116687--116720	2	17.0	2	100	0	68	50	0	0	50	1.00
117403--117468	33	2.0	33	100	0	132	42	12	6	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124160--124199	2	19.5	2	89	5	62	47	2	2	47	1.29
124439--124473	8	4.2	8	88	3	52	71	0	2	25	1.00
125053--125077	13	1.9	13	100	0	50	36	0	16	48	1.46
125871--125977	30	3.6	30	88	0	160	46	14	28	10	1.77
125901--125948	13	3.4	13	74	20	51	50	10	27	12	1.73
126232--126273	15	2.8	15	92	0	66	21	33	16	28	1.95
127279--127341	24	2.6	24	90	9	101	20	11	7	60	1.55
127279--127343	26	2.6	25	92	7	107	21	10	7	60	1.55
127279--127366	25	3.6	25	85	11	103	20	12	9	57	1.61
128505--128537	15	2.3	14	94	5	57	33	54	6	6	1.50

Tables:   1   2