genome.fa.s8548.2.7.7.80.10.50.1000.6.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: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1170587

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 723 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)
968067--968112	13	3.4	14	77	14	51	71	0	10	17	1.13
968061--968120	23	2.6	23	72	2	57	71	0	8	20	1.11
969285--969319	3	12.0	3	87	6	54	65	0	0	34	0.93
973895--973923	2	14.5	2	100	0	58	0	0	48	51	1.00
981285--981526	120	2.0	120	95	0	430	37	15	14	31	1.88
982595--982635	2	20.5	2	100	0	82	51	0	0	48	1.00
984680--984724	21	2.1	21	83	0	54	40	4	4	51	1.42
991071--991113	21	2.0	21	100	0	86	27	4	4	62	1.35
991677--991748	33	2.2	33	94	0	126	36	8	13	41	1.75
994418--994578	60	2.7	58	78	11	157	37	5	21	35	1.77
999649--999705	14	4.0	14	76	13	62	43	3	19	33	1.68
999651--999706	29	2.0	28	92	3	94	44	5	17	32	1.72
999897--999948	27	1.9	27	85	14	72	46	0	0	53	1.00
1000279--1000392	20	5.7	20	83	6	113	31	25	18	24	1.97
1000276--1000392	61	1.9	61	85	0	162	33	24	17	23	1.97
1000973--1001107	33	3.9	33	85	10	162	11	22	22	43	1.84
1000967--1001132	71	2.3	73	86	3	246	12	22	20	43	1.85
1000968--1001132	19	9.1	19	75	15	152	12	23	20	44	1.85
1003491--1003526	14	2.6	14	95	0	63	30	0	25	44	1.54
1003633--1003679	19	2.5	19	96	0	85	44	21	21	12	1.85
1003704--1003854	19	8.7	19	64	21	80	15	22	20	41	1.89
1003708--1003834	33	3.9	32	87	8	193	14	22	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003701--1003833	66	2.0	66	97	0	248	16	22	19	41	1.90
1006126--1006150	12	2.1	12	100	0	50	0	28	0	72	0.86
1007485--1007572	20	4.4	20	74	5	97	38	25	20	15	1.92
1007618--1007666	19	2.6	19	93	0	89	18	20	12	48	1.79
1007803--1007839	14	2.6	14	86	0	56	48	21	0	29	1.50
1009283--1009342	21	2.9	20	73	11	59	20	13	45	21	1.85
1009706--1009776	20	3.6	20	82	1	81	42	22	21	14	1.88
1009765--1009855	14	5.9	14	70	20	65	49	21	16	12	1.78
1009749--1009860	33	3.4	33	93	1	190	48	21	17	12	1.80
1009749--1009871	65	1.9	66	88	5	187	47	22	17	12	1.80
1009867--1009930	19	3.6	19	74	20	75	12	20	21	45	1.84
1009915--1009958	20	2.2	20	84	4	54	20	25	18	36	1.95
1011815--1011872	20	2.9	20	81	0	62	43	20	17	18	1.89
1012136--1012179	22	2.0	22	95	0	79	18	15	45	20	1.85
1012368--1012419	20	2.6	20	93	0	86	25	21	28	25	1.99
1012428--1012481	20	2.7	20	94	0	90	27	18	22	31	1.97
1012350--1012484	61	2.2	61	83	0	180	24	17	23	34	1.95
1012367--1012502	61	2.2	61	80	2	148	23	19	23	33	1.97
1012979--1013045	21	3.3	20	70	23	52	50	0	1	47	1.10
1019381--1019434	2	27.0	2	100	0	108	50	0	0	50	1.00
1020103--1020136	17	1.9	18	88	5	52	47	0	5	47	1.26
1020622--1020665	12	3.7	12	81	0	52	59	22	11	6	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027793--1027864	30	2.4	30	79	2	83	31	20	6	40	1.79
1033494--1033561	30	2.3	30	92	0	109	26	23	42	7	1.80
1036773--1036852	15	5.3	15	75	10	74	42	0	0	57	0.98
1036771--1036852	32	2.7	31	81	12	107	42	0	0	57	0.98
1036805--1036848	19	2.2	19	84	8	52	40	0	0	59	0.98
1036771--1036866	32	3.2	29	81	11	79	40	1	2	56	1.18
1039463--1039515	21	2.8	19	78	15	56	47	0	0	52	1.00
1039465--1039506	21	2.0	21	90	0	66	42	0	0	57	0.99
1039477--1039516	19	2.0	21	85	9	57	47	0	0	52	1.00
1041554--1041595	21	2.0	21	100	0	84	28	19	14	38	1.90
1046892--1046953	23	2.8	22	80	7	72	25	30	22	20	1.98
1052690--1052732	15	2.7	16	89	7	61	20	20	32	25	1.97
1059178--1059206	13	2.2	13	100	0	58	17	48	20	13	1.81
1059226--1059382	29	5.4	29	74	10	106	32	5	19	42	1.75
1059269--1059397	29	4.5	29	74	12	113	37	3	17	40	1.68
1059343--1059408	29	2.3	29	86	2	89	34	4	18	42	1.70
1060709--1060747	19	2.1	19	86	13	55	30	5	5	58	1.41
1075683--1075751	31	2.3	31	84	2	86	27	24	13	34	1.92
1075695--1075759	31	2.1	31	88	0	94	24	29	12	33	1.92
1078266--1078331	9	6.7	10	80	16	68	42	0	0	57	0.98
1078268--1078313	2	24.5	2	87	12	71	45	0	0	54	0.99
1080107--1080154	24	2.0	24	87	0	69	22	22	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082928--1082983	21	2.7	21	100	0	112	39	12	5	42	1.65
1083460--1083518	31	1.9	31	89	6	93	33	15	25	25	1.95
1083994--1084020	2	13.5	2	100	0	54	0	48	0	51	1.00
1088957--1089034	36	2.2	36	83	0	93	37	15	16	30	1.90
1089816--1089866	27	1.9	26	84	4	66	23	13	19	43	1.87
1091465--1091505	2	20.5	2	94	0	73	51	2	0	46	1.14
1092154--1092210	24	2.4	24	87	0	78	36	10	31	21	1.87
1096138--1096164	12	2.2	12	100	0	54	37	7	0	55	1.28
1096092--1096203	56	2.0	56	82	3	136	21	14	10	53	1.70
1099007--1099066	31	1.9	32	86	10	88	41	1	5	51	1.33
1099027--1099073	20	2.3	20	82	7	60	40	2	2	55	1.24
1099191--1099223	16	2.1	16	88	11	50	30	6	9	54	1.56
1100865--1100922	24	2.4	24	94	0	98	34	22	25	17	1.96
1103283--1103343	30	2.0	30	100	0	122	16	22	19	40	1.90
1110843--1110896	24	2.2	24	90	0	81	20	18	18	42	1.89
1113164--1113204	18	2.3	18	86	0	55	53	24	2	19	1.57
1114083--1114273	31	6.2	31	92	0	319	34	15	11	38	1.84
1114108--1114191	15	5.5	15	64	25	50	30	15	14	39	1.87
1114783--1115003	64	3.5	64	80	7	209	25	18	21	34	1.96
1115541--1115572	3	10.7	3	93	0	55	62	0	34	3	1.11
1117924--1118117	31	6.3	31	92	0	307	35	15	10	38	1.81
1118626--1118804	64	2.8	63	81	5	207	25	20	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121642--1121693	16	3.3	16	70	24	56	32	17	11	38	1.85
1121633--1121823	31	6.2	31	89	0	292	35	15	9	38	1.81
1121630--1121823	62	3.1	62	93	0	334	36	15	9	38	1.81
1122876--1122953	23	3.3	23	83	1	102	33	23	19	24	1.97
1123055--1123108	18	3.0	18	88	0	81	35	29	22	12	1.91
1122951--1123211	139	1.9	139	97	0	495	36	23	15	24	1.94
1123091--1123310	103	2.1	103	97	0	413	35	24	14	26	1.94
1127943--1127996	18	3.0	18	94	0	99	33	31	22	12	1.92
1127839--1128099	139	1.9	139	96	0	486	35	24	15	24	1.94
1127979--1128205	103	2.2	103	96	0	427	35	24	14	26	1.93
1132582--1132770	31	6.2	31	88	2	283	34	15	11	38	1.83
1133279--1133455	64	2.8	64	81	5	187	25	18	22	32	1.97
1136372--1136565	31	6.3	31	95	0	325	36	15	10	37	1.82
1137074--1137252	64	2.8	63	83	5	216	25	19	22	32	1.97
1138182--1138223	20	2.1	20	82	8	50	16	26	21	35	1.94
1138648--1138684	18	2.1	18	89	0	56	32	5	10	51	1.60
1138640--1138692	24	2.2	24	86	0	70	35	3	13	47	1.61
1138995--1139081	39	2.2	39	97	0	165	47	20	14	17	1.83
1139286--1139395	20	5.8	20	71	12	97	20	20	20	39	1.93
1140968--1141066	21	4.7	21	78	13	105	21	19	34	25	1.96
1140968--1141066	42	2.4	42	80	10	121	21	19	34	25	1.96
1143090--1143121	13	2.5	13	94	0	55	0	6	12	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143629--1143759	20	6.5	21	74	15	107	25	16	22	35	1.95
1143646--1143731	40	2.1	41	87	6	131	24	16	23	36	1.94
1144061--1144109	20	2.5	20	96	0	89	12	28	20	38	1.89
1147572--1147620	19	2.7	17	84	9	53	26	20	28	24	1.99
1147592--1147801	65	3.2	65	77	14	220	27	18	22	31	1.97
1152874--1152954	23	3.7	21	77	11	83	23	25	23	27	2.00
1152902--1152973	21	3.4	21	75	9	67	23	20	25	30	1.99
1158744--1158792	19	2.7	17	84	9	53	26	20	28	24	1.99
1158763--1158922	64	2.5	63	80	5	187	29	18	21	30	1.97
1158875--1158920	18	2.6	18	86	6	58	26	17	26	30	1.97

Tables:   1   2   3   4   5   6   7