genome.fa.s7915.2.7.7.80.10.50.1000.7.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: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667290

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

This is table  7  of  10  ( 1148 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)
1172246--1172369	31	4.0	31	78	8	126	30	21	18	29	1.97
1172250--1172369	63	1.9	62	85	8	163	30	21	18	29	1.97
1173224--1173268	21	2.1	21	87	0	63	15	24	28	31	1.96
1175315--1175502	51	3.7	51	85	0	223	20	11	10	57	1.63
1176558--1176614	19	3.1	18	82	5	60	56	7	14	22	1.62
1180763--1180800	2	19.0	2	100	0	76	50	0	0	50	1.00
1181110--1181135	2	13.0	2	100	0	52	50	0	0	50	1.00
1184240--1184292	24	2.2	25	80	12	67	41	28	13	16	1.86
1191675--1191710	14	2.6	14	90	0	54	58	2	13	25	1.49
1191900--1191973	23	3.2	22	70	14	60	32	2	29	35	1.72
1192947--1192975	15	1.9	15	100	0	58	62	0	24	13	1.32
1193892--1194273	139	2.8	139	81	0	435	23	14	26	36	1.93
1194616--1194928	97	3.1	100	85	8	420	36	11	19	33	1.87
1196885--1196949	25	2.6	24	80	7	67	58	3	6	32	1.38
1197772--1197851	22	3.8	20	77	18	74	1	20	2	76	0.97
1197777--1197816	15	2.6	15	84	4	53	0	15	2	82	0.77
1197772--1197838	11	5.7	12	74	13	50	0	20	1	77	0.85
1197777--1197845	28	2.5	26	79	9	75	0	20	2	76	0.91
1197787--1197853	35	2.0	34	91	5	109	1	22	2	73	1.06
1202430--1202464	16	2.2	16	90	5	54	57	5	11	25	1.56
1202633--1202707	39	1.9	39	86	5	107	40	4	22	33	1.73
1203715--1203746	15	2.2	15	94	5	57	62	0	28	9	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204076--1204117	21	2.1	21	86	8	61	45	0	11	42	1.41
1205506--1205670	81	2.0	81	98	0	321	28	12	15	44	1.82
1206072--1206155	39	2.2	38	80	16	100	36	21	22	19	1.95
1206084--1206199	39	3.0	39	77	7	121	35	23	19	21	1.96
1210109--1210218	36	3.1	35	80	6	107	32	0	2	64	1.08
1211940--1211987	21	2.3	21	85	0	60	25	39	12	22	1.89
1211991--1212084	21	4.5	21	86	5	118	19	32	25	22	1.97
1212607--1212704	34	2.9	34	89	0	142	55	4	4	36	1.38
1213105--1213602	128	3.9	128	97	0	921	32	19	24	23	1.98
1213673--1213713	8	5.2	8	82	5	57	36	29	0	34	1.58
1219297--1219360	29	2.2	29	88	0	92	34	6	10	48	1.64
1219305--1219373	29	2.3	30	90	2	104	31	5	14	47	1.68
1219434--1219614	29	6.2	29	70	11	102	33	11	13	42	1.79
1219701--1219743	20	2.2	20	82	0	50	46	0	0	53	1.00
1220809--1220905	23	4.2	23	85	0	122	36	19	6	38	1.77
1220984--1221535	274	2.0	275	96	0	1016	43	9	5	42	1.59
1221517--1221821	155	2.0	156	98	1	585	39	14	15	31	1.87
1221965--1222015	23	2.2	23	92	0	84	33	21	7	37	1.82
1221939--1222102	87	1.9	87	97	0	310	31	17	10	40	1.83
1222052--1222108	23	2.5	23	91	0	87	35	21	5	38	1.76
1222863--1222961	31	3.3	31	78	13	134	31	4	21	43	1.71
1222862--1222976	59	1.9	59	98	0	221	34	5	19	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223139--1223177	20	2.0	20	94	0	69	38	25	25	10	1.87
1223143--1223217	29	2.6	29	83	8	98	37	24	26	12	1.90
1225778--1225807	2	15.0	2	100	0	60	50	0	0	50	1.00
1235852--1235918	9	7.4	9	75	18	52	16	2	2	77	1.01
1235857--1235925	14	5.2	13	74	8	59	14	4	2	78	1.03
1241238--1242129	84	10.8	82	80	5	868	30	24	20	25	1.99
1241244--1242124	164	5.3	163	84	4	677	30	24	20	24	1.99
1241244--1242124	413	2.1	416	86	3	1242	30	24	20	24	1.99
1241246--1242183	249	3.8	246	81	5	924	30	24	20	24	1.99
1243781--1243819	18	2.2	18	86	9	53	20	5	2	71	1.17
1245467--1245618	20	7.4	20	82	8	164	38	26	17	17	1.91
1245486--1245618	41	3.2	40	87	8	164	38	26	17	18	1.92
1245467--1245618	61	2.5	61	86	3	207	38	26	17	17	1.91
1246311--1246357	24	2.0	24	87	8	69	25	14	21	38	1.92
1246522--1246546	12	2.1	12	100	0	50	72	0	28	0	0.86
1248838--1248992	33	4.4	34	81	13	172	44	19	21	14	1.86
1248899--1248970	20	3.7	20	98	1	137	47	15	22	15	1.82
1249086--1249119	14	2.4	14	90	0	59	44	20	0	35	1.52
1249338--1249374	18	2.1	18	89	0	56	32	5	10	51	1.60
1249330--1249382	24	2.2	24	86	0	70	35	3	13	47	1.61
1249759--1249898	19	7.4	19	97	2	264	47	15	22	15	1.82
1250079--1250112	14	2.4	14	90	0	59	44	20	0	35	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250006--1250170	84	2.0	84	96	0	303	44	18	3	33	1.65
1251977--1252130	19	8.6	19	73	14	112	46	22	18	12	1.83
1251993--1252125	33	3.9	33	87	5	149	48	21	18	12	1.80
1252142--1252200	14	3.9	14	74	20	55	10	16	25	47	1.78
1252126--1252220	33	2.9	33	88	0	145	10	16	25	47	1.79
1252126--1252184	19	3.4	18	77	22	72	8	15	28	47	1.74
1252189--1252235	19	2.4	20	89	3	69	12	17	25	44	1.84
1252283--1252556	94	3.1	86	85	10	297	45	18	13	22	1.84
1252333--1252556	94	2.4	93	93	2	378	45	17	13	22	1.84
1254253--1254367	19	5.9	19	87	4	167	46	19	21	12	1.82
1254295--1254389	38	2.7	36	88	8	133	47	18	22	11	1.81
1254407--1254463	14	3.7	14	70	20	51	10	24	21	43	1.83
1254390--1254471	33	2.5	33	93	0	137	9	21	20	47	1.79
1254448--1254526	21	3.8	21	83	6	115	11	22	17	48	1.79
1255041--1255177	20	6.7	20	79	10	143	18	17	28	35	1.94
1255041--1255177	41	3.3	41	79	9	145	18	17	28	35	1.94
1255051--1255176	42	3.0	42	84	7	116	19	17	27	35	1.94
1255163--1255215	20	2.7	19	83	13	63	11	20	26	41	1.86
1261308--1261339	16	2.0	16	100	0	64	43	6	6	43	1.54
1263034--1263087	19	2.9	19	72	8	58	31	1	20	46	1.61
1263224--1263307	33	2.5	33	92	1	141	46	10	16	26	1.80
1275879--1275903	8	3.1	8	100	0	50	40	12	24	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296946--1297509	282	2.0	281	95	3	1028	42	16	15	25	1.87
1298844--1298880	20	2.0	20	89	10	60	37	0	8	54	1.30
1300214--1300291	35	2.2	35	90	0	120	44	25	1	28	1.62
1300214--1300307	35	2.7	35	86	0	98	43	28	2	25	1.66
1300456--1300723	151	1.8	145	91	5	423	33	5	10	50	1.61
1301202--1301281	35	2.3	35	88	0	124	35	0	22	42	1.54
1303403--1303516	60	1.9	60	80	7	133	40	4	23	31	1.74
1307311--1307380	29	2.4	29	92	0	122	31	27	15	25	1.96
1309958--1310044	2	43.5	2	95	0	156	49	0	2	48	1.13
1310136--1310204	35	2.0	35	97	0	129	47	14	4	33	1.64
1328566--1328627	32	1.9	32	90	0	97	4	27	30	37	1.78
1328769--1328813	22	2.0	22	83	8	56	44	4	0	51	1.21
1329208--1329383	20	8.6	20	84	7	221	33	27	18	20	1.96
1329764--1329834	33	2.2	33	94	0	124	14	23	14	47	1.80
1329914--1329990	21	3.7	21	82	6	111	46	18	23	11	1.81
1329975--1330031	14	3.7	14	75	20	60	43	21	24	10	1.83
1329967--1330047	33	2.5	33	93	0	135	46	20	22	9	1.80
1330043--1330121	19	4.1	19	86	3	113	12	22	18	45	1.84
1330043--1330121	39	2.1	38	87	2	113	12	22	18	45	1.84
1332107--1332133	14	1.9	14	100	0	54	48	29	14	7	1.71
1332051--1332149	33	2.8	36	87	7	132	48	27	17	7	1.72
1332035--1332149	19	6.3	19	80	10	132	46	27	16	8	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332145--1332209	19	3.7	19	76	19	86	13	23	18	44	1.85
1332150--1332225	33	2.3	33	97	0	143	11	21	19	47	1.81
1332214--1332279	19	3.4	19	87	2	87	10	15	27	46	1.78
1334204--1334240	14	2.6	14	82	0	56	35	0	21	43	1.53
1334347--1334458	19	6.4	19	73	20	118	44	18	23	13	1.85
1334365--1334419	14	3.6	14	73	21	56	43	21	23	10	1.84
1334347--1334438	33	2.8	33	96	0	175	44	19	22	13	1.85
1334467--1334597	20	7.0	19	86	11	182	15	22	16	45	1.84
1334453--1334563	53	2.1	53	82	0	132	18	23	18	39	1.92
1334712--1334759	23	2.1	23	88	0	69	35	12	18	33	1.89

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