genome.fa.s8449.2.7.7.80.10.50.1000.5.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: VEPZ01008449.1 Hibiscus syriacus cultivar Beakdansim tig00111254_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1344907

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 690 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)
975317--975526	45	4.6	45	84	7	257	37	10	21	30	1.87
975321--975437	23	5.2	23	63	8	78	34	10	23	32	1.88
975307--975526	90	2.4	90	88	5	320	37	10	22	29	1.87
979438--979496	23	2.6	23	83	5	66	37	1	8	52	1.42
979715--979759	18	2.5	18	96	0	81	57	4	4	33	1.38
982693--982768	37	2.1	37	95	5	136	40	25	11	22	1.88
984987--985029	21	2.1	21	86	4	61	41	6	0	51	1.29
986015--986069	23	2.4	24	85	11	71	67	0	0	32	0.91
986008--986069	23	2.8	23	77	20	69	62	0	0	37	0.95
987686--987726	21	2.0	21	85	9	57	36	24	4	34	1.77
994697--994845	80	1.9	80	84	2	201	28	23	19	28	1.98
994808--995187	196	1.9	196	84	2	508	26	17	22	34	1.96
994803--995249	200	2.3	196	82	1	534	26	18	21	33	1.96
999032--999066	18	1.9	18	88	0	52	28	28	22	20	1.98
1005338--1005376	14	2.9	14	85	11	55	76	0	23	0	0.78
1007674--1007715	17	2.5	17	80	7	50	80	2	11	4	0.95
1007797--1007823	14	1.9	14	100	0	54	37	11	7	44	1.68
1007833--1007894	19	3.4	18	78	10	72	41	6	4	46	1.51
1007866--1007949	30	3.1	29	77	20	92	45	5	1	47	1.35
1007895--1007978	22	4.0	22	78	7	86	47	4	0	47	1.23
1007852--1007949	52	1.9	50	87	8	144	44	6	1	47	1.34
1010690--1010776	45	1.9	45	90	0	138	32	21	10	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015651--1015855	102	2.0	102	90	3	324	28	25	18	27	1.98
1023287--1023732	221	2.0	223	99	0	878	36	11	11	40	1.77
1027163--1027198	14	2.5	14	90	4	54	72	2	16	8	1.21
1035736--1035899	76	2.2	76	87	3	233	56	11	2	29	1.48
1044367--1044503	69	2.0	69	100	0	274	36	16	13	33	1.88
1045026--1045107	42	2.0	42	92	0	137	30	19	18	31	1.96
1045070--1045320	80	3.1	80	93	0	430	32	18	20	28	1.96
1045330--1045404	22	3.5	21	70	15	64	25	20	22	32	1.98
1045324--1045387	20	3.2	19	71	16	65	25	21	23	29	1.99
1045324--1045406	42	2.0	42	95	0	148	25	20	24	30	1.99
1045904--1046156	106	2.4	106	87	2	337	32	21	23	22	1.98
1045904--1046110	53	3.9	53	91	0	333	32	22	25	19	1.98
1049381--1049433	14	3.8	14	75	9	54	81	3	1	13	0.92
1049384--1049430	20	2.3	20	82	10	69	82	4	2	10	0.88
1049385--1049421	19	1.9	20	94	5	67	83	2	2	10	0.84
1055078--1055120	22	1.9	23	85	4	61	67	2	6	23	1.27
1055737--1055905	76	2.2	74	83	8	223	56	10	2	30	1.47
1067099--1067162	22	3.0	23	82	15	75	48	0	3	48	1.17
1067072--1067187	50	2.4	50	82	5	139	50	0	1	47	1.11
1069669--1069820	17	8.9	17	80	1	169	42	7	15	34	1.75
1072816--1073185	45	8.3	44	85	5	465	24	18	14	42	1.87
1072816--1073185	90	4.1	90	90	1	539	24	18	14	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073067--1073143	26	3.2	26	65	30	71	20	16	12	49	1.79
1072833--1073192	179	2.0	179	90	3	564	24	17	14	43	1.86
1073627--1073710	34	2.5	34	90	1	134	25	17	15	41	1.89
1074407--1074433	8	3.4	8	100	0	54	11	25	0	62	1.28
1080143--1080341	45	4.4	45	83	1	247	25	20	13	41	1.88
1090976--1091139	85	1.9	85	91	3	269	30	1	11	56	1.46
1097536--1097652	5	22.8	5	72	14	87	22	5	0	72	1.04
1097536--1097652	21	5.8	20	74	16	98	22	5	0	72	1.04
1097536--1097597	11	5.8	11	84	7	83	16	6	0	77	0.97
1100559--1100648	37	2.5	35	78	8	99	55	8	14	21	1.66
1101010--1101044	15	2.3	15	100	0	70	31	20	0	48	1.50
1101543--1101720	85	2.1	85	88	7	263	30	2	12	54	1.52
1102441--1102502	19	3.4	18	78	17	58	24	6	0	69	1.12
1102462--1102486	12	2.1	12	100	0	50	32	0	0	68	0.90
1103703--1103792	44	2.0	44	100	0	180	26	13	25	34	1.93
1104345--1104543	35	5.8	35	78	8	230	21	23	19	35	1.96
1104345--1104543	68	2.9	68	87	8	282	21	23	19	35	1.96
1104369--1104549	67	2.7	67	89	5	269	19	23	19	37	1.95
1105704--1105788	35	2.4	36	90	2	127	17	21	23	37	1.94
1112229--1112277	23	2.1	23	88	7	73	28	2	12	57	1.46
1117325--1117446	49	2.6	46	79	11	138	40	7	20	31	1.80
1119147--1119171	6	4.2	6	100	0	50	16	16	36	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122626--1122662	16	2.3	16	100	0	74	48	5	29	16	1.68
1130043--1130076	5	6.8	5	96	0	59	14	2	0	82	0.79
1130368--1130412	20	2.2	20	88	0	63	15	22	0	62	1.33
1133638--1133686	23	2.1	23	88	7	73	28	2	12	57	1.46
1135486--1135530	20	2.2	20	96	0	81	40	4	13	42	1.64
1135772--1135819	2	24.0	2	100	0	96	50	0	0	50	1.00
1136203--1136228	12	2.2	12	100	0	52	38	0	0	61	0.96
1136223--1136298	24	3.3	23	78	18	79	56	0	2	40	1.13
1136244--1136306	22	3.0	22	80	13	71	55	0	3	41	1.16
1147873--1147930	27	2.1	27	81	6	64	48	8	6	36	1.61
1148573--1148615	22	2.0	21	82	13	52	51	0	0	48	1.00
1148846--1148896	25	2.0	25	82	14	61	41	0	5	52	1.25
1149613--1149698	35	2.5	35	92	0	136	40	23	24	11	1.87
1149639--1149697	16	3.5	16	71	13	55	38	23	25	11	1.89
1151625--1151651	2	13.5	2	100	0	54	0	48	0	51	1.00
1154146--1154206	2	30.5	2	100	0	122	49	0	0	50	1.00
1155530--1155581	20	2.6	20	87	9	79	46	13	17	23	1.83
1162034--1162816	414	1.9	414	85	5	1107	42	8	9	38	1.69
1162640--1163082	182	2.5	179	78	9	447	38	11	9	40	1.74
1167805--1167844	21	2.0	19	85	9	53	45	15	15	25	1.84
1167855--1168939	199	5.5	197	83	3	1256	38	14	12	33	1.84
1169451--1169495	18	2.5	18	92	0	72	26	31	8	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173265--1173302	18	2.1	19	85	5	51	55	0	18	26	1.43
1176500--1176529	15	2.0	15	93	0	51	30	26	30	13	1.94
1178169--1178199	6	5.2	6	92	0	53	35	3	12	48	1.58
1178165--1178199	12	2.9	12	91	0	61	31	5	11	51	1.61
1179860--1180601	200	3.7	199	84	2	893	40	13	12	33	1.83
1180678--1180742	20	3.2	20	82	10	80	46	12	13	27	1.79
1180704--1180751	20	2.4	20	85	0	60	50	14	10	25	1.74
1181050--1181096	20	2.4	20	85	3	69	46	17	10	25	1.79
1183392--1183430	20	2.0	20	100	0	78	30	12	20	35	1.90
1183416--1183975	200	2.8	198	84	5	654	38	13	13	34	1.84
1184133--1184541	109	3.7	109	71	12	330	33	16	12	37	1.86
1184154--1184566	224	1.8	226	87	3	618	33	16	11	38	1.85
1184713--1184752	21	1.9	21	94	0	71	22	50	15	12	1.77
1187161--1187463	151	2.0	151	98	1	590	29	12	14	43	1.83
1187692--1187783	46	2.0	46	100	0	184	39	10	43	6	1.66
1188432--1188466	18	1.9	18	88	0	52	42	2	11	42	1.55
1189383--1189508	43	3.0	43	84	4	141	31	16	20	30	1.95
1193069--1193121	3	17.7	3	84	7	72	67	1	30	0	1.01
1193598--1193646	20	2.5	20	86	3	64	53	4	12	30	1.57
1200145--1200262	40	3.0	40	88	1	148	23	17	26	32	1.97
1200174--1200279	40	2.7	40	89	1	160	27	16	24	31	1.97
1202741--1202772	16	2.0	16	100	0	64	43	25	18	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207357--1207398	21	2.0	21	86	4	59	40	9	14	35	1.78
1207677--1207719	19	2.2	20	83	4	52	55	13	0	30	1.39
1208184--1208411	114	2.0	114	100	0	456	37	6	8	47	1.60
1212504--1212575	31	2.4	31	84	6	87	36	23	5	34	1.78
1221449--1221483	15	2.3	15	90	9	54	42	0	0	57	0.99
1221586--1221619	17	2.0	17	88	11	52	64	0	5	29	1.17
1221622--1221657	16	2.2	16	90	9	56	63	0	0	36	0.94
1221710--1221752	23	1.9	22	81	13	52	55	4	16	23	1.59
1222880--1222932	3	19.0	3	81	14	60	66	1	0	32	1.03
1222880--1222932	19	2.8	19	85	0	70	66	1	0	32	1.03

Tables:   1   2   3   4   5   6