genome.fa.s7930.2.7.7.80.10.50.1000.7.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: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2280901

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

This is table  7  of  12  ( 1413 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)
1061598--1061708	26	4.3	26	84	6	131	44	8	0	46	1.39
1061570--1061696	23	5.3	23	75	18	98	41	11	0	45	1.46
1061963--1062145	23	7.8	23	73	13	131	45	8	1	44	1.43
1062028--1062100	14	5.5	14	75	18	75	43	8	2	45	1.48
1062022--1062154	26	5.4	26	76	16	131	42	10	2	45	1.51
1062311--1062427	60	2.0	60	94	0	207	46	11	1	41	1.49
1062343--1062427	21	4.2	21	64	19	54	45	11	2	40	1.53
1062472--1062520	21	2.3	21	100	0	98	46	14	0	38	1.44
1065464--1065522	26	2.3	25	77	8	64	45	0	5	49	1.24
1065649--1065706	21	2.8	20	79	5	71	51	6	3	37	1.46
1065775--1065826	17	2.7	21	83	16	69	48	9	0	42	1.36
1066284--1066374	28	3.2	28	95	3	155	56	13	0	30	1.38
1066351--1066394	21	2.1	21	83	8	54	50	15	2	31	1.57
1066864--1066922	29	2.0	29	90	0	91	16	33	23	25	1.96
1069422--1069913	229	2.1	229	94	1	871	45	7	7	39	1.61
1069983--1070456	181	2.6	182	88	1	675	42	13	16	27	1.86
1071576--1071692	58	2.0	58	98	0	225	39	8	23	29	1.84
1072683--1072726	21	2.1	21	91	0	70	40	11	31	15	1.83
1072760--1072825	33	2.0	33	90	0	105	28	0	48	22	1.51
1074620--1074668	19	2.6	19	93	0	80	30	2	10	57	1.43
1074787--1075954	198	5.9	198	98	0	2201	36	15	17	30	1.91
1077409--1077467	12	4.9	12	89	0	91	37	10	33	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077406--1077497	6	15.3	6	79	0	67	38	7	32	21	1.82
1077409--1077479	36	2.0	36	94	0	124	36	9	33	19	1.85
1077417--1077501	12	7.1	12	84	0	89	36	7	31	24	1.82
1077421--1077501	9	9.0	9	75	0	72	37	6	32	24	1.80
1078693--1078726	16	2.1	16	88	0	50	47	8	20	23	1.78
1079087--1079149	23	2.7	23	92	0	99	36	4	20	38	1.74
1079087--1079159	23	3.2	23	82	7	85	35	4	20	39	1.72
1079518--1079590	23	3.2	23	88	0	101	34	4	21	39	1.73
1078885--1079934	431	2.4	431	96	1	1948	41	7	11	39	1.70
1079971--1080463	183	2.7	182	94	1	869	34	15	17	33	1.91
1082932--1082996	25	2.6	25	80	0	85	35	9	13	41	1.77
1083344--1083416	23	3.2	23	86	0	92	36	4	19	39	1.71
1083690--1083739	25	2.0	25	92	0	82	26	10	22	42	1.84
1084126--1084162	18	2.1	18	89	0	56	32	5	10	51	1.60
1084118--1084164	24	2.0	24	86	0	67	34	4	14	46	1.64
1084433--1084519	39	2.2	39	95	0	156	48	20	13	17	1.81
1084940--1085002	23	2.7	23	85	0	81	38	6	19	36	1.77
1084961--1085012	23	2.3	23	83	6	61	38	3	15	42	1.65
1085371--1085443	23	3.2	23	84	0	92	35	4	20	39	1.72
1085801--1085873	23	3.2	23	92	0	110	34	4	23	38	1.74
1084738--1086224	430	3.5	431	97	0	2764	41	7	12	38	1.71
1087281--1087319	6	6.5	6	96	0	51	0	7	58	33	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087281--1087319	12	3.2	12	92	0	60	0	7	58	33	1.26
1087285--1087319	3	11.7	3	87	0	52	0	5	60	34	1.21
1087393--1087501	20	5.3	20	74	4	92	36	22	19	22	1.95
1087405--1087496	41	2.2	41	92	0	157	35	25	18	20	1.95
1096037--1096150	32	3.6	31	91	5	183	41	15	27	15	1.88
1106255--1106312	22	2.5	23	86	5	82	27	27	20	24	1.99
1106697--1106733	2	18.5	2	100	0	74	51	0	0	48	1.00
1119357--1119506	77	1.9	77	98	0	291	50	4	7	38	1.49
1119745--1119789	14	3.3	14	79	17	58	35	22	4	37	1.74
1121016--1121071	22	2.5	22	91	0	85	25	23	30	21	1.99
1131371--1131415	20	2.2	20	84	0	54	37	28	15	17	1.91
1131440--1131500	31	1.9	33	83	12	83	31	22	14	31	1.94
1131559--1131650	21	4.4	21	88	0	130	25	13	17	44	1.84
1135072--1135111	21	1.9	21	85	10	55	40	10	0	50	1.36
1135137--1135196	21	2.8	22	79	5	77	58	11	13	16	1.63
1143071--1143102	10	3.2	10	90	0	55	34	15	0	50	1.45
1143201--1143240	10	4.0	10	80	0	53	40	12	0	47	1.41
1148626--1148675	21	2.4	21	89	0	82	24	14	28	34	1.93
1148741--1148896	65	2.4	64	83	3	206	32	17	21	27	1.96
1151046--1151079	17	2.1	16	89	10	52	58	8	0	32	1.29
1151496--1151598	44	2.4	43	83	4	127	28	19	21	31	1.97
1152407--1152446	21	1.9	21	94	0	71	37	45	5	12	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153350--1153434	34	2.5	36	74	16	90	31	4	3	60	1.35
1153439--1153504	31	2.1	31	85	0	87	16	7	0	75	1.02
1153464--1153504	19	2.1	20	86	4	57	12	9	0	78	0.98
1153521--1153554	7	5.1	7	89	10	54	14	0	0	85	0.60
1153521--1153554	13	2.6	13	90	9	52	14	0	0	85	0.60
1153641--1153712	9	7.8	9	71	11	56	15	12	2	69	1.30
1164162--1164314	43	3.6	43	89	0	234	31	30	15	22	1.95
1164162--1164331	86	2.0	86	89	2	261	31	29	15	22	1.95
1165219--1165278	19	3.1	20	75	15	63	46	1	0	51	1.10
1165219--1165278	12	5.3	12	72	27	60	46	1	0	51	1.10
1166608--1166672	19	3.5	18	85	6	85	13	7	0	78	0.95
1166623--1166724	6	16.2	6	72	20	75	12	7	2	76	1.11
1166603--1166724	19	6.4	18	75	11	84	13	8	2	76	1.11
1166843--1166886	19	2.4	18	84	3	52	13	9	0	77	0.99
1170333--1170372	20	2.0	21	85	5	55	25	17	10	47	1.78
1171665--1171721	21	2.7	21	86	0	87	26	24	24	24	2.00
1171795--1171929	65	2.1	65	86	6	186	33	16	22	27	1.95
1172782--1172824	13	3.4	13	81	15	54	32	0	0	67	0.91
1180223--1180254	12	2.7	12	95	0	55	37	0	18	43	1.51
1180469--1180511	19	2.3	19	84	8	52	30	0	11	58	1.34
1180576--1180631	15	3.7	15	95	0	94	23	10	19	46	1.81
1181242--1181361	45	2.7	45	78	2	125	41	17	19	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183287--1183346	29	2.0	31	90	6	97	35	6	16	41	1.75
1183515--1183556	21	2.0	21	95	0	75	23	21	28	26	1.99
1186083--1186142	29	2.0	31	90	6	97	35	6	16	41	1.75
1186207--1186253	18	2.5	19	89	3	69	38	8	12	40	1.74
1186378--1186419	21	2.0	21	95	0	75	23	16	28	30	1.96
1187021--1187091	13	5.5	13	81	6	90	28	9	14	47	1.75
1187012--1187088	26	3.0	26	84	7	111	29	9	12	48	1.73
1187760--1187809	16	3.0	17	77	14	59	22	8	16	54	1.68
1190100--1190171	12	5.4	13	82	12	76	30	0	2	66	1.06
1190112--1190171	3	19.7	3	83	10	77	31	0	3	65	1.09
1190100--1190167	18	3.9	18	81	10	72	30	0	2	66	1.07
1208121--1208254	30	4.7	29	88	5	166	34	4	23	38	1.75
1208121--1208295	29	6.1	28	83	7	174	33	4	21	40	1.74
1211252--1211288	19	1.9	19	100	0	74	43	5	18	32	1.73
1212004--1212072	15	4.3	16	75	10	61	18	27	31	21	1.97
1212016--1212072	15	3.7	15	77	9	69	17	28	33	21	1.96
1212004--1212073	32	2.2	32	92	0	113	20	27	31	21	1.98
1212552--1212600	20	2.5	20	89	0	80	38	18	14	28	1.90
1214244--1214332	29	2.9	31	70	20	78	43	5	16	33	1.72
1214259--1214375	60	2.0	60	88	6	175	47	3	13	35	1.60
1214280--1214393	29	3.9	29	69	17	81	49	2	13	35	1.56
1221385--1221432	18	2.7	18	80	9	62	54	4	0	41	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222267--1222396	69	1.9	69	95	0	233	36	7	10	45	1.68
1222885--1222954	32	2.2	32	92	0	113	32	30	0	37	1.58
1225231--1225273	22	2.0	22	100	0	86	37	23	9	30	1.86
1227548--1227608	23	2.7	23	81	0	77	32	26	24	16	1.96
1232651--1232705	23	2.4	23	87	0	92	29	23	27	20	1.99
1233921--1233983	20	2.9	20	77	15	63	23	26	19	30	1.98
1233921--1233985	24	2.9	22	80	13	71	24	26	18	30	1.98
1234903--1235023	34	3.4	34	71	14	116	42	5	4	47	1.46
1234883--1235039	75	2.1	74	92	2	260	38	5	3	51	1.44
1239000--1239168	72	2.4	71	90	1	275	21	11	15	50	1.76

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