genome.fa.s8526.2.7.7.80.10.50.1000.4.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: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3043201

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

This is table  4  of  12  ( 1346 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)
903007--903041	12	2.9	12	100	0	70	8	48	0	42	1.33
904880--904948	26	2.7	26	88	0	111	24	23	20	31	1.98
907065--907103	20	2.0	20	84	0	51	33	0	5	61	1.18
920121--920203	34	2.4	35	85	4	105	40	33	10	14	1.81
926464--926557	48	2.0	48	82	0	116	26	17	18	38	1.92
926461--926562	24	4.2	24	78	5	98	27	15	18	38	1.91
931112--931195	39	2.2	39	100	0	168	29	41	11	16	1.84
933286--933336	26	1.9	27	84	11	70	47	15	15	21	1.83
933313--933388	28	2.8	28	89	2	127	42	18	11	27	1.85
934474--934594	32	3.8	31	78	2	107	16	26	29	27	1.97
940402--940466	2	32.5	2	100	0	130	50	0	0	49	1.00
940466--940491	2	13.0	2	100	0	52	50	0	50	0	1.00
943670--943738	34	2.0	36	83	11	90	28	2	11	56	1.49
954298--954462	60	2.8	60	82	3	190	47	4	12	34	1.63
956497--956593	4	25.0	4	68	14	51	20	8	3	68	1.30
956520--956544	10	2.5	10	100	0	50	12	8	0	80	0.92
967039--967077	17	2.3	17	91	8	62	89	10	0	0	0.48
967042--967068	7	3.9	7	100	0	54	88	11	0	0	0.50
967900--968572	105	6.4	105	91	0	1022	33	25	17	23	1.96
970810--970906	4	25.0	4	68	14	51	20	8	3	68	1.30
970833--970857	10	2.5	10	100	0	50	12	8	0	80	0.92
971524--971561	19	2.0	20	89	5	60	13	0	34	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971586--971680	40	2.4	40	100	0	190	61	6	4	28	1.39
972922--972978	14	3.7	14	77	20	60	45	22	21	10	1.82
972903--972995	33	2.8	33	93	0	159	47	21	19	11	1.81
972866--973000	19	7.6	19	76	16	119	45	23	18	11	1.82
972996--973124	19	7.3	19	75	17	125	8	17	28	45	1.77
972996--973087	33	2.8	33	93	3	150	7	18	28	45	1.76
973168--973639	93	5.1	93	98	0	903	46	18	12	22	1.82
973168--973639	185	2.6	185	97	1	901	46	18	12	22	1.82
975345--975434	14	5.7	14	74	23	81	42	23	25	8	1.83
975337--975451	33	3.5	33	95	0	212	45	20	24	9	1.81
975344--975456	19	6.8	18	72	23	88	43	22	24	9	1.83
975468--975522	14	3.6	14	73	21	56	9	25	23	41	1.83
975452--975522	33	2.2	33	94	0	124	8	22	25	43	1.81
975463--975544	33	2.5	33	89	2	119	9	25	21	42	1.84
975475--975563	20	4.8	20	72	19	75	12	24	19	43	1.85
975643--975713	33	2.2	33	92	0	115	47	18	22	11	1.80
975895--975949	22	2.5	22	81	0	74	20	16	40	23	1.91
976095--976287	20	9.6	20	82	5	219	19	19	25	35	1.95
976095--976287	60	3.2	60	83	0	251	19	19	25	35	1.95
976343--976394	20	2.6	20	96	0	95	21	13	26	38	1.90
976658--976695	20	1.9	20	88	0	58	52	7	10	28	1.64
978787--978877	48	2.0	46	87	10	134	27	21	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
984068--984111	23	1.9	23	90	0	70	22	15	4	56	1.57
985081--985123	14	3.0	14	77	16	52	53	0	2	44	1.13
997093--997157	24	2.7	24	81	9	78	58	9	7	24	1.55
1011036--1011069	15	2.3	15	94	0	59	55	0	2	41	1.15
1011327--1011360	16	2.1	16	88	0	50	44	0	0	55	0.99
1012706--1012754	20	2.5	20	96	0	89	48	16	6	28	1.69
1031671--1031704	12	2.8	12	86	0	50	5	0	47	47	1.26
1031527--1031843	174	1.8	174	92	2	539	24	10	25	39	1.87
1032161--1032708	273	2.0	273	99	0	1087	31	14	15	39	1.87
1046286--1046325	21	2.0	21	90	5	64	60	0	0	40	0.97
1055999--1056083	31	2.7	31	74	1	80	14	27	28	30	1.95
1057764--1057808	18	2.5	18	81	0	54	51	4	0	44	1.21
1062127--1062168	20	2.0	21	86	4	59	47	0	0	52	1.00
1063602--1063726	60	2.1	60	84	3	162	39	4	25	31	1.74
1065282--1065337	25	2.2	25	81	12	62	44	32	12	10	1.77
1066362--1066405	20	2.1	20	87	8	61	34	0	29	36	1.58
1090936--1090969	17	2.0	17	88	11	52	47	0	0	52	1.00
1092039--1092088	26	1.9	26	84	8	66	34	12	24	30	1.91
1094256--1094346	44	2.1	44	87	8	132	46	15	20	17	1.84
1103840--1103885	19	2.5	19	86	13	69	32	2	0	65	1.05
1105454--1105616	60	2.7	60	80	3	175	33	21	6	38	1.80
1105525--1105637	60	1.9	60	84	0	154	32	26	6	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107550--1107651	34	2.9	36	89	5	163	45	13	13	27	1.82
1108038--1108103	27	2.4	27	76	18	75	28	3	0	68	1.05
1108063--1108285	18	11.9	18	64	22	61	32	4	2	60	1.29
1108240--1108288	10	5.3	10	78	14	52	28	2	0	69	1.00
1111420--1111510	15	6.1	15	72	19	73	78	5	15	1	1.00
1111423--1111499	31	2.4	33	81	16	90	77	6	15	0	0.95
1111423--1111520	16	6.1	16	71	19	55	76	6	16	1	1.04
1111481--1111510	10	3.0	10	90	0	51	86	0	10	3	0.67
1112143--1112197	22	2.5	22	100	0	110	36	27	12	23	1.91
1113087--1113409	72	4.6	73	77	10	257	26	19	15	39	1.91
1113129--1113409	36	8.0	36	80	8	328	25	19	14	40	1.89
1113226--1113541	65	4.7	65	74	12	206	29	19	11	39	1.86
1113184--1113372	102	1.9	102	88	2	290	26	17	13	41	1.88
1113148--1113472	138	2.4	137	86	2	463	27	19	12	40	1.88
1114145--1114805	105	6.3	105	88	3	886	33	25	17	22	1.96
1115340--1115439	34	2.8	36	90	6	159	45	14	13	28	1.81
1115832--1115874	18	2.5	17	85	7	61	25	4	2	67	1.22
1116858--1116889	13	2.5	13	94	0	55	25	0	0	75	0.81
1117143--1117185	16	2.7	15	86	10	59	74	0	0	25	0.82
1122775--1122813	20	2.0	20	84	0	51	28	17	2	51	1.59
1132181--1132246	34	2.0	34	96	3	125	36	18	12	33	1.88
1132817--1132861	20	2.4	19	85	7	56	46	6	24	22	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132885--1132964	35	2.3	35	93	0	133	22	6	28	42	1.78
1133602--1133634	16	2.0	17	88	5	50	60	0	0	39	0.97
1134195--1134243	24	2.0	24	100	0	98	38	4	16	40	1.67
1135089--1135133	22	2.0	22	83	8	56	53	2	2	42	1.25
1140376--1140403	2	14.0	2	100	0	56	50	0	0	50	1.00
1149899--1149944	19	2.5	19	96	3	85	39	4	0	56	1.19
1156290--1156357	16	4.1	17	81	9	79	50	0	0	50	1.00
1156290--1156355	17	4.1	15	74	18	53	50	0	0	50	1.00
1156975--1157012	16	2.3	17	90	4	60	39	0	0	60	0.97
1158950--1158994	14	3.1	14	83	3	54	37	2	2	57	1.23
1159286--1159327	22	1.9	22	100	0	84	47	0	9	42	1.36
1167981--1168020	20	2.0	20	95	0	71	20	32	25	22	1.98
1169235--1169298	22	3.0	22	82	13	80	20	17	28	34	1.95
1169775--1169815	19	2.2	18	86	4	55	56	0	0	43	0.99
1171150--1171193	7	6.3	7	100	0	88	15	29	40	13	1.86
1171324--1171363	20	2.1	18	86	9	53	15	2	7	75	1.14
1171831--1171887	25	2.1	27	81	15	66	63	0	7	29	1.21
1171871--1171915	15	3.1	14	80	6	54	68	0	2	28	1.01
1171879--1171919	19	2.1	20	86	13	59	73	0	2	24	0.96
1173111--1173187	5	14.8	5	74	17	52	71	0	5	23	1.06
1173111--1173187	19	3.8	18	74	24	64	71	0	5	23	1.06
1173126--1173190	3	22.7	3	72	20	50	70	0	4	24	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173111--1173187	22	3.4	22	75	13	77	71	0	5	23	1.06
1173185--1173581	36	10.9	36	80	13	402	45	4	2	47	1.35
1173274--1173444	45	4.2	44	71	24	137	45	3	2	49	1.32
1173329--1173583	139	1.8	139	91	5	426	45	3	2	48	1.33
1173436--1173536	35	3.2	30	78	13	96	46	3	1	47	1.32
1173396--1173583	68	2.7	66	84	12	220	44	3	2	49	1.32
1173565--1173606	2	21.0	2	90	0	66	47	2	2	47	1.28
1174174--1175176	165	6.1	165	86	2	1201	24	19	25	30	1.98
1174234--1175176	494	1.9	493	87	1	1368	24	19	24	30	1.98
1178025--1178077	21	2.5	22	75	12	56	13	26	7	52	1.66

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