genome.fa.s2660.2.7.7.80.10.50.1000.5.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: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2211860

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1072 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)
1074576--1074639	23	2.8	23	85	0	92	35	4	20	39	1.73
1075058--1075130	23	3.2	23	88	0	101	35	4	20	39	1.72
1074345--1076012	479	3.4	487	96	1	3058	41	7	10	40	1.67
1075545--1075608	23	2.8	23	92	0	101	35	4	20	39	1.73
1077874--1077915	17	2.5	16	84	7	57	52	0	2	45	1.13
1078548--1078603	20	2.8	20	86	0	76	42	10	23	23	1.85
1078761--1078835	38	2.0	37	82	5	89	46	2	1	49	1.24
1102059--1102090	2	16.5	2	93	6	57	50	0	0	50	1.00
1104204--1104287	30	2.8	30	81	0	96	30	28	20	20	1.97
1104263--1104386	31	4.0	31	78	8	126	31	20	18	29	1.96
1104267--1104386	63	1.9	62	85	8	163	31	20	18	30	1.96
1107888--1107971	30	2.8	30	81	0	96	30	28	20	20	1.97
1109113--1109157	21	2.1	21	87	0	63	15	24	28	31	1.96
1114241--1114273	14	2.4	14	89	0	57	48	12	6	33	1.65
1124806--1124839	2	17.0	2	100	0	68	50	0	0	50	1.00
1136589--1136637	23	2.1	23	84	0	62	10	14	18	57	1.65
1136657--1136710	20	2.7	20	94	0	90	9	5	22	62	1.45
1139790--1140277	266	1.8	265	85	5	689	39	10	15	34	1.81
1140809--1140879	34	2.2	32	84	5	88	22	29	14	33	1.93
1141697--1141733	2	18.5	2	100	0	74	51	0	0	48	1.00
1141855--1141911	20	2.8	21	73	21	66	43	7	0	49	1.29
1144315--1144366	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144355--1144468	20	5.7	20	83	6	113	31	25	18	24	1.97
1144352--1144468	61	1.9	61	85	0	162	33	24	17	23	1.97
1144973--1145030	18	3.2	18	80	4	71	51	22	15	10	1.73
1144977--1145042	19	3.6	17	75	15	60	51	25	13	9	1.70
1145043--1145103	33	1.9	32	93	6	106	9	22	19	47	1.79
1145043--1145126	17	4.7	19	77	18	92	11	21	17	48	1.79
1146563--1146688	63	2.0	61	95	3	225	19	18	36	25	1.94
1147246--1147447	42	4.8	42	78	4	194	23	36	16	23	1.95
1147246--1147417	84	2.1	83	95	1	308	22	37	15	23	1.93
1147389--1147447	21	2.8	21	73	0	64	25	33	20	20	1.97
1147246--1147447	84	2.4	84	90	2	273	23	36	16	23	1.95
1148794--1148829	14	2.6	14	90	0	54	30	0	22	47	1.52
1148933--1149003	18	4.1	18	79	17	87	46	19	19	14	1.84
1149007--1149132	33	3.9	32	86	9	184	15	23	19	42	1.89
1149000--1149131	66	2.0	65	95	1	237	16	22	19	40	1.91
1151383--1151407	12	2.1	12	100	0	50	0	28	0	72	0.86
1151581--1151634	24	2.2	24	87	6	74	42	20	14	22	1.88
1152380--1152430	20	2.5	20	96	0	93	29	19	29	21	1.98
1152703--1152756	14	3.5	14	75	22	54	11	22	20	46	1.82
1152685--1152755	33	2.2	33	81	0	79	19	21	21	38	1.94
1152749--1152787	20	2.0	20	89	0	60	15	10	28	46	1.78
1152870--1152906	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154759--1154812	20	2.7	20	83	11	74	38	24	22	14	1.91
1154799--1154874	18	4.3	19	73	19	65	47	23	17	11	1.80
1154799--1154863	33	2.0	33	85	8	89	47	21	18	12	1.81
1154892--1154949	14	3.9	14	79	16	71	10	17	24	48	1.78
1154879--1154965	32	2.7	33	94	3	158	12	18	21	47	1.82
1154950--1155004	20	2.8	19	83	8	65	16	23	23	36	1.94
1155474--1155518	18	2.5	18	88	0	72	13	15	44	26	1.83
1156823--1156882	20	3.0	20	87	0	75	41	23	18	16	1.90
1157122--1157165	22	2.0	22	95	0	79	18	15	45	20	1.85
1157330--1157443	41	2.8	41	82	4	142	23	17	23	35	1.95
1157391--1157444	20	2.7	20	97	0	99	25	18	24	31	1.97
1157330--1157447	61	1.9	62	86	5	168	22	16	22	37	1.94
1157330--1157465	61	2.2	61	81	6	150	22	19	22	36	1.95
1159281--1159321	22	1.9	21	85	5	55	51	0	2	46	1.14
1159269--1159392	49	2.5	46	74	21	108	51	0	1	46	1.10
1159305--1159354	23	2.2	22	89	3	73	50	0	2	48	1.12
1159357--1159387	10	3.0	10	90	9	53	51	0	0	48	1.00
1159357--1159388	11	3.0	11	95	4	57	53	0	0	46	1.00
1159470--1159503	14	2.5	14	90	4	52	47	0	0	52	1.00
1159501--1159583	42	2.0	42	90	0	130	48	1	2	48	1.22
1159484--1159577	17	5.1	17	69	19	55	48	1	2	47	1.20
1159769--1159919	20	7.4	20	81	5	160	27	24	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159769--1159919	60	2.5	61	80	4	180	27	24	20	27	1.99
1162957--1162991	18	1.9	18	94	0	61	54	25	2	17	1.57
1163169--1163460	20	15.6	20	74	14	194	36	20	20	21	1.95
1163174--1163443	53	4.9	53	78	9	272	37	20	21	21	1.95
1163321--1163506	73	2.5	73	85	3	221	38	19	19	22	1.94
1163169--1163505	167	2.0	164	80	8	378	37	19	20	21	1.95
1164951--1165042	42	2.2	42	82	3	105	22	17	36	22	1.94
1164951--1165067	42	2.8	42	77	5	103	23	16	36	23	1.94
1165557--1165601	18	2.4	19	92	7	74	37	26	15	20	1.92
1165632--1165699	20	3.4	20	89	4	102	17	22	26	33	1.96
1167582--1167689	20	5.5	19	83	6	92	46	22	16	14	1.84
1168069--1168125	22	2.6	22	82	0	78	19	19	40	21	1.92
1168290--1168383	20	4.7	20	81	5	100	25	22	23	28	1.99
1168312--1168407	40	2.4	40	92	0	156	22	20	21	34	1.97
1168332--1168403	20	3.6	20	79	7	92	22	20	19	37	1.94
1168635--1168677	14	3.0	15	83	10	54	58	0	2	39	1.11
1187788--1187837	23	2.2	23	96	0	91	36	4	14	46	1.63
1193678--1193707	2	15.0	2	100	0	60	50	0	0	50	1.00
1194071--1194689	4	155.0	4	99	0	1141	25	1	25	48	1.60
1199992--1200017	6	4.3	6	100	0	52	30	53	0	15	1.42
1200362--1200390	13	2.2	13	100	0	58	48	37	6	6	1.57
1202562--1202587	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202801--1202830	2	15.0	2	100	0	60	50	0	0	50	1.00
1204898--1204947	24	2.0	25	84	7	66	44	0	4	52	1.20
1208128--1208278	68	2.2	68	97	0	293	22	13	25	39	1.90
1219026--1219065	20	2.0	21	90	5	64	35	2	2	60	1.24
1219026--1219065	21	2.0	20	85	14	55	35	2	2	60	1.24
1220720--1220748	14	2.0	15	93	6	51	41	6	6	44	1.58
1221354--1221441	16	5.4	16	72	2	77	44	30	14	10	1.79
1226250--1226283	17	1.9	18	88	5	52	52	8	17	20	1.71
1231052--1231085	17	1.9	18	88	5	52	55	2	2	38	1.30
1231621--1231908	142	2.0	145	95	4	530	51	12	10	25	1.72
1233306--1233361	3	19.0	3	78	10	62	66	1	3	28	1.19
1233311--1233373	29	2.2	30	85	8	94	68	3	4	23	1.24
1233696--1234330	170	3.7	170	87	6	980	25	19	31	23	1.98
1233569--1234291	213	3.4	210	79	9	690	25	18	32	23	1.97
1234340--1234393	28	1.9	28	88	7	83	46	16	14	22	1.84
1234523--1234691	66	2.6	64	76	5	178	37	14	20	26	1.92
1235289--1235356	4	17.2	4	76	19	63	25	0	22	52	1.47
1235289--1235356	16	4.3	16	90	1	111	25	0	22	52	1.47
1240613--1240646	17	1.9	18	88	5	52	55	2	2	38	1.30
1240811--1240858	21	2.3	21	80	16	55	54	14	0	31	1.41
1242925--1243092	14	10.9	15	66	20	62	39	1	5	52	1.33
1242933--1242971	15	2.7	15	88	4	53	51	5	0	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242980--1243134	45	3.4	47	83	13	182	32	0	12	55	1.37
1243075--1243220	22	5.8	24	71	21	111	32	0	13	53	1.45
1243118--1243318	50	3.9	51	73	16	173	31	0	13	54	1.46
1243358--1243417	31	2.0	31	90	3	95	45	8	6	40	1.61
1246165--1246211	21	2.4	19	86	10	60	38	8	6	46	1.60
1249021--1249063	22	2.0	22	86	9	61	20	6	6	65	1.41
1250034--1250070	19	1.9	19	94	0	65	32	29	16	21	1.95
1250343--1250385	15	2.9	14	90	10	68	62	0	0	37	0.95
1251010--1251049	21	1.9	21	94	0	71	30	20	27	22	1.98
1251261--1251289	14	2.0	15	93	6	51	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9