genome.fa.s8338.2.7.7.80.10.50.1000.7.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: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2210178

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1386 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)
929660--929760	15	6.2	16	70	21	52	46	3	5	43	1.46
929738--929815	21	3.9	20	66	22	56	46	7	6	39	1.58
929650--929760	28	3.9	28	70	17	79	45	3	6	44	1.46
929803--929948	67	2.2	65	82	12	174	39	6	10	43	1.65
929879--929959	29	2.8	29	83	12	87	38	7	9	44	1.66
929905--929948	18	2.5	17	81	3	52	40	6	9	43	1.63
930041--930105	7	9.4	7	80	12	73	43	36	0	20	1.52
930041--930105	27	2.4	28	97	2	123	43	36	0	20	1.52
930136--930225	23	3.7	24	70	15	69	45	3	2	48	1.31
930128--930195	31	2.2	32	84	7	86	47	2	1	48	1.26
930284--930332	20	2.5	20	83	3	64	42	4	8	44	1.53
930305--930378	22	3.1	24	73	11	62	47	5	1	45	1.34
930327--930395	22	3.2	21	86	8	95	44	7	2	44	1.46
930329--930395	20	3.2	20	78	15	82	44	7	2	44	1.47
930458--931135	204	3.3	204	87	6	926	27	12	8	51	1.69
937520--937549	15	2.0	15	100	0	60	40	6	26	26	1.81
944343--944376	17	2.1	17	88	5	52	26	5	2	64	1.30
944762--944792	15	2.1	15	100	0	62	58	0	0	41	0.98
949169--949318	67	2.3	67	88	3	214	27	28	27	17	1.98
949659--949717	30	2.0	30	93	0	100	38	3	23	33	1.72
949931--949998	22	3.0	22	97	2	127	19	26	27	26	1.99
956029--956071	21	2.0	21	81	0	50	30	30	25	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956029--956199	66	2.6	67	86	4	222	28	28	26	17	1.98
956540--956598	30	2.0	30	93	0	100	40	3	22	33	1.70
956812--956879	22	3.0	22	97	2	127	19	26	27	26	1.99
958252--958311	26	2.3	26	91	5	95	50	3	11	35	1.56
959492--959523	2	16.5	2	93	6	57	53	0	0	46	1.00
959969--960006	18	2.1	18	100	0	76	36	10	5	47	1.61
964900--964932	15	2.2	15	89	10	50	57	0	0	42	0.98
969016--969049	16	2.1	16	100	0	68	52	0	47	0	1.00
971992--972094	35	3.0	34	72	12	93	42	5	5	45	1.52
972035--972156	62	2.0	62	85	4	165	44	4	8	42	1.55
975360--975407	23	2.2	22	85	10	64	54	0	2	43	1.12
995091--995185	47	2.0	47	100	0	190	37	26	8	27	1.85
995288--995386	33	3.0	33	86	0	135	36	12	17	34	1.87
1002904--1002949	14	3.3	14	81	6	58	30	4	0	65	1.12
1015018--1015043	6	4.3	6	100	0	52	0	53	15	30	1.42
1015325--1015372	16	2.7	17	76	17	53	43	0	16	39	1.48
1016408--1016471	25	2.8	23	76	19	71	35	1	0	62	1.05
1016408--1016471	23	2.7	22	77	20	67	35	1	0	62	1.05
1019404--1019522	48	2.5	49	86	8	158	41	17	13	27	1.87
1019404--1019519	24	4.8	24	82	9	139	41	17	13	27	1.87
1022008--1022043	13	2.8	13	91	0	54	16	19	47	16	1.83
1023413--1023452	15	2.7	15	88	0	62	42	17	25	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024980--1025038	22	2.6	23	91	5	102	23	30	27	18	1.98
1025249--1025325	30	2.5	30	89	2	109	32	23	3	40	1.73
1025339--1025410	29	2.5	29	90	0	108	37	13	9	38	1.78
1025716--1025866	67	2.3	67	88	2	214	18	25	28	27	1.98
1031930--1031981	22	2.3	23	90	3	88	25	28	26	19	1.98
1032199--1032275	30	2.5	30	91	2	118	31	23	5	40	1.76
1032289--1032360	29	2.5	29	90	0	108	37	13	9	38	1.78
1032664--1032815	68	2.2	68	89	1	225	18	25	28	27	1.98
1035279--1035434	31	4.9	33	78	11	132	29	17	20	32	1.96
1035514--1035547	17	1.9	18	88	5	52	38	23	5	32	1.79
1039009--1039148	32	4.4	32	77	9	135	29	17	19	33	1.95
1041646--1041773	60	2.1	60	81	2	150	37	18	21	21	1.94
1046099--1046131	16	2.1	16	94	0	57	45	6	0	48	1.27
1046294--1046339	18	2.6	18	86	6	58	36	2	6	54	1.39
1047404--1047430	4	6.8	4	100	0	54	25	0	0	74	0.83
1053542--1053634	3	31.0	3	100	0	186	66	0	0	33	0.92
1055327--1055419	30	3.1	30	77	9	82	21	23	19	35	1.96
1057931--1058021	47	1.9	47	100	0	182	39	26	12	21	1.89
1058064--1058114	14	3.6	14	78	10	50	50	0	0	49	1.00
1058075--1058123	2	26.5	2	76	15	52	51	0	0	48	1.00
1078357--1078520	44	3.8	44	78	7	147	26	14	6	52	1.65
1079229--1079277	25	1.9	26	83	4	64	40	2	0	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080604--1080658	13	3.9	14	75	15	60	27	1	3	67	1.17
1081402--1081503	34	3.0	34	84	2	116	40	17	17	24	1.91
1081521--1081582	24	2.6	22	80	12	61	46	16	9	27	1.78
1081527--1081582	23	2.4	24	87	3	78	44	16	10	28	1.80
1081604--1081691	30	2.9	30	68	6	79	60	20	6	12	1.55
1083143--1083196	21	2.6	21	84	0	72	24	24	18	33	1.97
1083162--1083297	41	3.3	40	82	3	164	34	19	20	25	1.96
1083186--1083299	20	5.7	20	87	2	156	36	19	21	22	1.95
1083186--1083317	20	6.6	20	85	1	129	35	20	21	22	1.96
1083186--1083317	40	3.3	39	80	13	151	35	20	21	22	1.96
1083487--1083561	22	3.4	22	83	0	78	28	40	12	20	1.87
1083913--1083965	20	2.7	20	90	0	79	16	18	26	37	1.93
1085842--1086016	20	9.4	20	77	16	153	41	20	18	18	1.90
1085863--1085943	33	2.4	33	83	2	99	45	23	19	11	1.82
1086063--1086134	20	3.6	20	92	0	108	26	18	19	36	1.94
1086063--1086169	40	2.7	40	85	2	126	22	17	21	38	1.93
1086081--1086169	20	4.4	20	90	5	126	21	19	22	37	1.95
1086653--1086744	21	4.4	20	71	6	60	20	35	17	26	1.95
1086650--1086760	42	2.6	42	76	8	118	21	36	18	24	1.95
1088140--1088175	14	2.6	14	90	0	54	30	0	22	47	1.52
1088293--1088376	33	2.5	33	88	1	114	48	16	19	15	1.81
1088391--1088486	33	2.8	33	82	6	113	14	20	20	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088458--1088546	20	4.4	20	91	2	144	16	22	25	34	1.95
1090983--1091034	24	2.2	23	86	3	77	38	15	19	26	1.91
1091873--1091947	20	3.8	20	89	0	114	28	17	24	30	1.97
1091873--1091960	20	4.4	20	89	0	113	27	18	22	31	1.97
1091947--1092040	20	4.7	20	78	2	107	24	21	17	37	1.94
1098773--1098802	2	15.0	2	100	0	60	50	0	0	50	1.00
1108257--1108296	20	2.0	21	95	5	73	25	22	20	32	1.98
1114240--1114616	186	2.0	183	95	4	675	25	17	17	39	1.91
1124814--1124882	17	3.7	18	74	16	52	68	5	1	24	1.20
1125561--1125591	10	3.1	10	95	0	53	32	32	0	35	1.58
1125633--1125671	18	2.2	18	90	4	62	30	2	2	64	1.21
1125735--1125955	111	2.0	110	96	0	406	36	8	10	44	1.68
1134256--1134407	59	2.5	59	82	4	180	19	15	8	57	1.63
1134259--1134434	30	6.1	30	74	7	143	19	13	8	58	1.60
1138206--1138253	13	3.6	13	83	5	51	77	6	14	2	1.06
1139595--1139669	31	2.4	29	79	14	80	30	17	13	38	1.88
1139758--1139945	83	2.3	83	85	0	241	25	35	17	21	1.95
1145086--1145167	37	2.2	37	95	0	155	20	25	12	41	1.87
1145701--1145726	10	2.6	10	100	0	52	15	7	0	76	0.99
1145687--1145733	18	2.6	17	80	12	58	14	8	0	76	1.01
1150928--1150962	3	11.7	3	88	11	54	34	0	0	65	0.93
1152444--1152653	30	7.1	30	78	2	192	19	12	10	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152444--1152653	59	3.6	58	79	3	206	19	12	10	58	1.62
1152929--1152972	5	8.2	5	92	2	52	15	6	2	75	1.12
1161402--1161453	21	2.5	21	80	0	59	26	1	30	40	1.67
1161420--1161456	14	2.6	14	91	0	56	27	0	24	48	1.51
1161742--1161767	11	2.4	11	100	0	52	7	7	0	84	0.77
1161990--1162019	14	2.1	14	93	0	51	43	0	6	50	1.28
1176628--1176700	21	3.5	20	79	3	83	21	21	19	36	1.95
1176690--1176783	20	4.7	20	84	2	125	39	18	21	21	1.93
1176690--1176784	41	2.3	41	87	1	129	38	17	21	22	1.93
1177012--1177086	27	2.8	27	97	0	141	34	34	9	21	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12