genome.fa.s851.2.7.7.80.10.50.1000.21.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  21  of  31  ( 3618 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)
5009207--5009274	22	3.0	23	79	10	61	48	0	0	51	1.00
5009231--5009277	22	2.1	23	88	4	69	46	0	0	53	1.00
5009235--5009301	22	3.0	22	80	6	64	50	1	0	47	1.10
5009212--5009304	32	2.8	33	76	14	102	50	1	0	48	1.07
5009457--5009501	23	2.0	23	81	0	54	51	4	2	42	1.34
5009603--5009677	23	2.9	26	75	18	68	49	1	2	46	1.24
5009767--5009871	50	2.1	50	81	10	117	40	14	6	39	1.72
5012913--5012961	25	2.0	25	95	0	89	28	30	0	40	1.57
5013755--5013830	38	2.0	38	100	0	152	15	10	15	57	1.64
5015041--5015480	224	2.0	218	95	3	803	34	11	24	30	1.90
5015694--5015799	31	3.3	31	70	14	97	42	19	17	19	1.89
5015695--5015821	66	1.9	66	86	0	182	40	22	18	19	1.92
5017601--5017671	30	2.4	30	90	0	106	33	21	23	21	1.97
5029091--5029163	21	3.3	22	76	12	69	13	20	0	65	1.26
5029786--5030109	161	2.0	162	98	1	632	27	21	16	33	1.95
5035010--5035046	2	18.5	2	100	0	74	51	0	0	48	1.00
5035317--5035361	23	2.0	23	95	0	81	40	26	20	13	1.89
5041031--5041097	2	34.0	2	96	3	127	50	0	0	49	1.00
5041173--5041630	81	5.7	81	89	1	656	27	23	11	36	1.90
5041582--5041832	68	3.7	68	91	0	396	29	23	13	32	1.94
5042212--5042378	59	2.9	58	89	1	235	33	19	12	34	1.89
5042206--5042378	58	3.0	58	87	1	238	33	19	12	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5042962--5043003	19	2.2	19	83	8	50	28	16	30	23	1.96
5043555--5043604	21	2.4	21	89	0	73	22	18	28	32	1.97
5043570--5043679	21	5.0	21	70	18	73	23	19	26	30	1.98
5043598--5043684	23	3.9	22	71	16	72	22	19	25	32	1.98
5044912--5044967	27	2.0	27	86	6	76	57	1	0	41	1.09
5045329--5045365	18	2.1	18	90	10	58	59	0	0	40	0.97
5047843--5047886	19	2.3	19	96	0	79	25	25	15	34	1.95
5052032--5052134	48	2.2	48	82	1	118	51	13	11	23	1.74
5054368--5054408	16	2.5	17	80	11	50	29	21	29	19	1.98
5057893--5057946	19	2.7	21	74	11	58	24	0	29	46	1.53
5057893--5057950	20	2.9	20	74	7	55	24	0	27	48	1.51
5057959--5057991	15	2.2	15	89	10	50	33	0	21	45	1.52
5062176--5062229	28	1.9	28	100	0	108	40	11	18	29	1.85
5064451--5064491	20	2.0	20	100	0	82	31	19	14	34	1.92
5076442--5076564	37	3.3	37	84	4	176	44	19	13	21	1.85
5076747--5076784	9	4.3	9	86	6	51	39	2	0	57	1.12
5077619--5077668	21	2.4	21	93	0	82	64	12	14	10	1.51
5081183--5081295	46	2.5	45	75	10	113	44	5	16	33	1.71
5082734--5082774	21	2.0	21	85	9	57	56	2	2	39	1.26
5082729--5082776	21	2.3	20	76	16	53	52	2	2	43	1.24
5083413--5083458	20	2.2	22	84	7	60	23	0	4	71	1.03
5084429--5084529	18	5.9	17	73	13	57	49	0	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5084454--5084517	8	8.2	8	77	6	51	54	0	0	45	0.99
5084435--5084489	23	2.3	23	84	9	67	47	1	0	50	1.11
5084449--5084513	23	2.8	23	81	4	60	52	1	0	46	1.10
5084454--5084552	29	3.4	29	72	10	87	50	0	1	48	1.07
5084454--5084617	53	3.0	53	79	12	140	49	0	1	48	1.13
5084747--5084825	28	2.8	28	77	11	70	55	0	0	44	0.99
5084769--5084808	20	2.2	17	86	13	53	60	0	0	40	0.97
5084790--5084850	22	2.8	21	78	9	59	52	0	3	44	1.17
5085483--5085516	15	2.3	15	89	0	50	44	0	0	55	0.99
5085889--5085934	18	2.5	19	75	10	51	23	34	0	41	1.55
5088819--5089348	141	3.8	138	81	4	544	45	14	11	29	1.79
5090508--5090675	71	2.3	73	81	7	193	35	13	5	44	1.68
5091219--5091586	188	2.0	189	81	4	440	33	18	10	37	1.85
5092350--5092398	25	2.0	25	95	0	89	28	16	18	36	1.92
5092812--5092857	18	2.6	18	92	0	74	47	13	6	32	1.68
5096312--5096358	18	2.6	18	90	10	78	48	2	42	6	1.40
5101312--5101382	18	3.8	18	85	7	106	18	22	30	28	1.97
5102985--5103037	25	2.1	25	96	0	97	26	16	22	33	1.96
5103533--5103574	17	2.5	17	88	0	66	45	11	11	30	1.77
5108786--5108949	77	2.1	77	91	0	265	32	18	6	42	1.76
5110831--5110873	20	2.2	20	86	0	59	41	16	13	27	1.86
5116653--5116708	16	3.5	16	83	9	78	30	39	10	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5116650--5116713	32	2.0	33	90	3	103	32	39	9	18	1.83
5116960--5117010	18	2.8	20	77	14	56	54	0	1	43	1.11
5121340--5121396	2	28.5	2	100	0	114	49	0	0	50	1.00
5123639--5123686	18	2.7	18	90	0	69	31	20	22	25	1.98
5124437--5124497	28	2.2	28	87	0	86	60	9	13	16	1.58
5126331--5126602	4	68.8	4	68	11	132	66	5	1	26	1.21
5126335--5126588	19	13.6	19	72	14	133	66	4	1	27	1.20
5126362--5126604	54	4.8	49	73	10	168	66	4	1	27	1.20
5126331--5126558	23	9.7	23	66	16	69	67	4	1	26	1.19
5126381--5126537	46	3.3	45	75	11	145	67	1	2	28	1.14
5126338--5126518	31	5.5	31	69	12	85	66	3	2	27	1.19
5132417--5132445	15	2.0	15	93	6	51	55	20	13	10	1.68
5138268--5138439	81	2.1	81	83	2	211	35	19	18	26	1.95
5138828--5138872	20	2.2	20	100	0	90	22	51	8	17	1.73
5143245--5143286	22	2.0	23	86	13	63	28	9	19	42	1.82
5144193--5144226	16	2.1	17	88	5	52	35	0	0	64	0.94
5147901--5147932	2	16.0	2	100	0	64	50	0	0	50	1.00
5155628--5155679	2	26.5	2	96	3	97	48	0	0	51	1.00
5155718--5155917	9	21.9	9	69	20	78	16	7	2	74	1.13
5155705--5155863	22	7.3	20	69	18	79	16	6	1	74	1.09
5155706--5155857	21	7.2	21	69	20	57	17	7	1	74	1.11
5155718--5155836	17	7.2	16	70	17	75	19	5	1	73	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155718--5155918	5	41.8	5	66	20	65	15	7	1	74	1.13
5155706--5155802	34	2.8	35	81	12	103	21	5	1	72	1.11
5155705--5155792	46	1.9	46	81	9	108	21	4	1	72	1.09
5155715--5155797	38	2.2	37	81	10	89	22	2	1	73	1.02
5155801--5155850	12	4.3	12	75	17	52	8	12	2	78	1.05
5155872--5155928	14	3.6	16	79	18	57	12	8	3	75	1.16
5155818--5155918	14	7.3	14	69	18	61	10	8	1	78	1.05
5155903--5155932	9	3.3	9	95	0	51	20	10	0	70	1.16
5165624--5165654	12	2.6	12	94	0	53	35	29	12	22	1.91
5165769--5165955	93	2.0	93	100	0	374	36	16	19	27	1.93
5166216--5166249	15	2.3	15	89	0	50	82	0	17	0	0.67
5166226--5166362	60	2.2	60	85	7	186	56	12	20	10	1.66
5167214--5167505	60	4.7	60	79	10	309	40	20	14	25	1.90
5167203--5167452	129	1.9	129	92	3	423	40	20	14	25	1.90
5168254--5168314	2	32.0	2	85	9	83	50	1	0	47	1.10
5169506--5169642	5	26.8	5	70	20	54	18	4	1	75	1.05
5169478--5169517	20	2.1	20	86	9	57	17	12	0	70	1.18
5169492--5169738	9	28.1	9	70	17	121	17	7	1	74	1.13
5169492--5169670	17	10.4	17	73	14	109	17	5	1	74	1.09
5169551--5169738	23	8.9	21	67	24	85	14	8	1	75	1.09
5169554--5169683	58	2.2	59	81	10	151	14	7	0	76	1.04
5169660--5169695	13	2.6	13	91	8	54	13	13	2	69	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5170728--5170759	2	16.0	2	100	0	64	0	50	0	50	1.00
5172642--5173109	200	2.4	199	82	5	547	33	9	22	34	1.87
5174887--5174940	20	2.8	19	83	5	56	33	18	7	40	1.78
5174905--5174940	18	1.9	19	88	5	56	33	16	5	44	1.71
5176842--5176911	30	2.3	30	92	0	113	54	4	22	18	1.61
5180359--5180406	18	2.8	17	78	6	51	56	2	2	39	1.23
5181229--5181316	30	2.9	30	75	0	86	34	30	2	32	1.70
5181291--5181383	3	31.0	3	75	4	62	34	34	2	29	1.70
5181342--5181376	12	2.9	12	100	0	70	34	25	0	40	1.56
5184892--5184941	25	2.0	25	92	7	84	32	28	4	36	1.76

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