genome.fa.s9174.2.7.7.80.10.50.1000.6.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: VEPZ01009174.1 Hibiscus syriacus cultivar Beakdansim tig00112737_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1358226

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 802 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)
1070180--1070389	65	3.2	64	80	8	221	30	25	17	27	1.97
1070180--1070409	64	3.6	64	80	6	225	29	25	18	26	1.98
1074298--1074390	46	2.0	46	91	0	150	24	21	18	35	1.95
1074911--1074945	18	2.1	16	89	10	52	40	0	2	57	1.14
1075559--1075659	15	6.2	15	73	20	51	51	0	0	47	1.07
1075563--1075640	28	3.0	27	85	9	99	51	0	0	48	1.00
1075588--1075694	6	18.3	6	69	25	54	49	0	0	48	1.13
1075586--1075696	28	3.6	31	83	11	122	50	0	0	47	1.13
1075682--1075742	31	2.0	31	90	6	97	50	3	4	40	1.40
1075583--1075728	65	2.2	63	80	12	154	50	1	2	45	1.21
1075587--1075822	15	15.5	15	67	17	89	49	2	3	44	1.34
1075804--1075906	22	4.8	22	74	11	88	47	8	5	37	1.59
1075607--1075878	88	3.2	85	72	14	222	48	3	4	43	1.42
1075831--1075921	21	4.3	20	74	9	83	46	7	6	39	1.59
1076088--1076148	7	8.7	7	74	0	50	29	1	24	44	1.63
1076262--1076443	81	2.2	81	87	4	260	43	7	2	47	1.43
1076403--1076492	13	6.1	15	67	20	57	43	6	5	44	1.53
1076447--1076499	18	2.8	19	80	11	65	49	3	5	41	1.44
1076262--1076470	81	2.6	80	83	8	210	44	7	2	45	1.45
1076447--1076524	18	4.6	18	74	19	62	46	2	5	46	1.38
1076489--1076522	13	2.6	13	85	0	50	41	0	5	52	1.25
1076595--1076699	49	2.1	50	76	16	112	43	5	1	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076646--1076762	22	5.5	22	69	12	84	47	3	3	45	1.36
1076717--1076780	2	32.0	2	73	17	53	50	1	3	45	1.27
1076708--1076780	11	7.0	11	76	14	57	47	1	4	46	1.30
1076702--1076781	41	2.0	41	90	5	126	50	1	3	45	1.28
1076675--1076780	9	12.2	9	68	20	57	48	1	2	47	1.27
1086493--1086521	7	4.1	7	100	0	58	41	31	13	13	1.84
1087015--1087042	12	2.3	12	100	0	56	53	0	7	39	1.28
1087114--1087185	10	7.3	10	71	13	51	73	1	5	19	1.10
1087114--1087152	18	2.2	18	90	0	60	74	0	2	23	0.94
1089717--1089766	12	4.2	12	85	10	68	74	2	0	24	0.93
1089735--1089780	15	3.3	14	77	20	51	69	2	0	28	1.00
1089726--1089789	12	5.4	12	88	3	67	67	4	0	28	1.11
1089783--1090204	39	11.1	36	78	12	313	45	6	1	45	1.40
1089783--1090213	38	11.4	36	77	15	140	45	6	1	45	1.40
1089782--1089969	71	2.6	69	77	9	182	46	7	1	44	1.42
1089919--1090204	81	3.6	80	87	8	390	45	5	1	47	1.36
1090087--1090141	28	1.9	29	88	3	85	43	5	3	47	1.44
1090083--1090247	38	4.5	36	80	15	137	42	6	3	47	1.45
1090123--1090241	37	3.4	34	80	15	109	43	6	3	46	1.46
1091007--1091199	80	2.3	81	89	6	282	26	17	22	33	1.96
1091205--1091325	21	5.8	20	80	8	127	20	33	21	23	1.97
1091205--1091325	42	2.9	43	82	9	160	20	33	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091346--1091459	20	5.7	20	88	4	167	18	28	21	31	1.97
1091346--1091459	61	1.9	60	87	5	167	18	28	21	31	1.97
1091346--1091468	41	3.0	41	89	5	171	18	27	23	30	1.98
1091571--1091610	20	1.9	22	90	10	66	37	40	10	12	1.77
1092831--1093498	77	8.7	77	80	2	657	37	8	17	36	1.81
1094780--1094808	14	2.1	14	100	0	58	24	13	20	41	1.89
1108626--1108672	3	16.3	3	82	8	62	31	0	2	65	1.04
1108626--1108695	9	7.1	10	76	12	56	27	0	1	71	0.94
1113845--1113985	66	2.1	66	93	0	237	32	22	15	29	1.95
1113765--1114105	175	1.9	178	91	2	555	34	22	15	26	1.94
1113911--1114234	111	3.0	109	87	3	440	34	24	16	24	1.95
1114341--1114800	85	5.5	84	79	6	421	31	24	19	24	1.98
1114350--1114792	166	2.7	165	80	4	478	31	24	18	25	1.98
1115395--1115428	15	2.3	15	94	0	59	35	0	2	61	1.11
1117308--1117485	62	2.9	62	81	11	213	35	11	16	36	1.85
1121496--1121541	20	2.3	20	96	0	83	23	15	15	45	1.84
1124074--1124106	16	2.1	17	88	11	52	36	0	0	63	0.95
1127761--1127853	3	31.0	3	91	0	60	32	45	1	21	1.59
1131578--1131620	23	1.9	22	90	4	68	69	4	0	25	1.07
1135005--1135097	19	4.6	19	71	16	71	40	9	1	48	1.43
1134989--1135098	42	2.5	42	86	5	139	42	10	0	46	1.43
1135379--1135471	21	4.5	21	75	4	91	39	17	24	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135379--1135452	20	3.7	20	76	3	85	40	17	22	18	1.91
1135460--1135574	20	5.7	20	78	6	97	32	25	18	24	1.97
1135379--1135471	41	2.3	41	98	0	177	39	17	24	18	1.91
1135457--1135594	41	3.4	41	75	6	127	34	23	17	23	1.96
1135762--1135805	22	2.0	22	95	0	79	20	45	15	18	1.85
1136082--1136124	20	2.2	20	95	0	77	9	18	18	53	1.70
1137437--1137478	18	2.3	18	83	0	57	28	47	9	14	1.75
1137960--1138026	20	3.4	20	81	2	73	38	23	22	14	1.92
1138015--1138072	14	3.9	14	79	16	71	48	25	17	8	1.75
1137999--1138077	32	2.4	33	95	2	142	46	24	18	10	1.80
1138099--1138247	19	8.3	19	72	15	95	13	18	23	44	1.85
1138116--1138173	14	3.9	14	75	16	62	10	15	24	50	1.75
1138099--1138189	32	2.8	33	91	3	157	12	17	21	48	1.80
1138174--1138228	20	2.8	19	89	5	83	16	25	23	34	1.95
1139965--1141444	106	14.0	106	90	2	2183	23	18	24	33	1.96
1142523--1142596	20	3.7	20	81	3	94	28	24	27	20	1.99
1142618--1142715	21	4.7	20	80	10	99	23	20	32	23	1.98
1142617--1142715	42	2.4	41	83	10	112	23	20	33	23	1.97
1144697--1144721	13	1.9	13	100	0	50	40	0	16	44	1.47
1145301--1145460	65	2.5	65	84	5	191	32	23	17	26	1.97
1153253--1153278	2	13.0	2	100	0	52	50	0	0	50	1.00
1153462--1153504	5	8.4	5	82	12	52	79	0	2	18	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154375--1154429	26	2.2	25	83	9	67	40	1	3	54	1.28
1165787--1165826	20	2.0	20	90	4	64	37	0	7	55	1.29
1166020--1166090	35	2.0	36	94	2	126	19	35	28	16	1.94
1166032--1166091	20	3.3	19	71	20	65	16	40	26	16	1.90
1167413--1167460	19	2.5	20	82	3	62	52	6	12	29	1.63
1168645--1168684	20	2.0	20	90	4	64	37	0	7	55	1.29
1168878--1168947	35	2.0	35	91	0	113	21	32	28	17	1.96
1171892--1171951	30	2.0	30	96	0	111	43	28	6	21	1.78
1175077--1175228	76	2.0	74	82	8	182	28	3	12	55	1.53
1179135--1179242	23	4.9	21	78	17	112	27	17	26	27	1.98
1179117--1179235	44	2.8	44	81	12	140	28	19	27	24	1.98
1187343--1187431	40	2.3	39	82	7	108	38	23	15	22	1.93
1187437--1187466	15	1.9	16	93	6	53	26	26	6	40	1.81
1192053--1192141	40	2.2	40	90	2	135	37	23	16	22	1.94
1199628--1199766	60	2.3	60	78	9	158	30	15	17	37	1.90
1201348--1201408	2	30.5	2	100	0	122	49	0	0	50	1.00
1202279--1202466	43	4.4	43	83	5	211	27	15	23	32	1.95
1202407--1202522	57	2.1	56	83	4	144	25	8	27	38	1.85
1202953--1203052	21	4.8	21	74	14	91	2	32	20	46	1.62
1203018--1203060	21	2.0	21	82	8	52	0	34	20	44	1.52
1205727--1205791	3	21.0	3	81	6	60	56	0	0	43	0.99
1205716--1205791	18	4.3	18	76	17	79	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205716--1205791	15	4.6	16	77	18	75	55	0	0	44	0.99
1205942--1206010	29	2.3	30	82	9	79	40	21	15	21	1.91
1205950--1206739	166	5.0	151	78	13	855	34	20	20	24	1.96
1205950--1206282	75	4.4	75	92	2	542	34	21	18	25	1.96
1206223--1206371	45	3.3	45	90	3	237	34	18	22	24	1.96
1206260--1206688	121	3.6	118	70	11	368	34	20	20	23	1.96
1206304--1206524	76	2.9	76	91	2	356	35	20	19	24	1.96
1206062--1206739	242	2.8	240	94	2	1155	34	20	20	24	1.97
1206465--1206614	45	3.3	45	85	2	194	34	18	22	24	1.96
1206465--1206613	46	3.3	45	88	2	210	34	18	22	24	1.96

Tables:   1   2   3   4   5   6   7