genome.fa.s8229.2.7.7.80.10.50.1000.6.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  6  of  17  ( 2034 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)
1107442--1107486	15	3.1	15	78	12	58	35	13	13	37	1.84
1109334--1109373	13	3.1	13	100	0	80	47	0	0	52	1.00
1110044--1110081	20	1.9	20	88	0	58	60	7	2	28	1.38
1110678--1110791	46	2.5	46	91	1	183	36	14	21	28	1.92
1110762--1110940	87	2.1	87	81	6	202	31	14	19	34	1.92
1111347--1111388	21	2.0	21	90	0	66	2	42	9	45	1.49
1111353--1111396	21	2.1	21	86	0	61	2	45	6	45	1.42
1116828--1116890	16	4.0	16	93	2	101	31	25	17	25	1.97
1117084--1117142	28	2.1	28	87	0	82	49	10	3	37	1.54
1124134--1124334	42	4.8	42	89	0	276	40	17	16	24	1.91
1124135--1124398	84	3.2	84	84	1	300	40	19	15	23	1.90
1128045--1128300	39	6.6	39	83	0	307	16	27	24	31	1.96
1128342--1128535	107	1.8	107	94	0	343	26	9	23	40	1.85
1132000--1132244	39	6.3	39	87	1	341	15	26	26	31	1.95
1132291--1132496	105	2.0	105	88	0	304	27	9	25	36	1.87
1133498--1133527	15	1.9	16	93	6	53	66	0	0	33	0.92
1133519--1133548	3	10.0	3	92	0	51	66	3	0	30	1.07
1146453--1146549	41	2.3	41	96	1	176	38	7	25	28	1.83
1146453--1146587	41	3.2	41	88	5	155	38	9	22	28	1.86
1149283--1149321	20	2.0	20	85	10	53	43	25	0	30	1.55
1150881--1150914	17	1.9	18	88	5	52	14	5	11	67	1.39
1157660--1157697	20	2.0	20	89	5	60	5	15	2	76	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159322--1159537	76	2.9	75	86	3	274	29	1	12	56	1.45
1159429--1159473	19	2.4	19	84	0	54	35	0	13	51	1.41
1159458--1159486	12	2.3	13	94	5	51	44	0	3	51	1.18
1160138--1160171	17	2.0	17	88	0	50	23	0	2	73	0.97
1160237--1160268	8	4.1	8	96	4	57	28	0	0	71	0.86
1165489--1165536	12	4.3	11	82	12	62	10	2	8	79	1.02
1165488--1165536	11	4.5	10	83	16	62	12	2	8	77	1.07
1167526--1167740	76	2.8	76	86	7	278	28	0	13	58	1.39
1168341--1168374	17	2.0	17	88	0	50	23	0	2	73	0.97
1168438--1168494	7	7.2	8	76	21	50	22	0	0	77	0.77
1168438--1168494	15	4.1	14	76	19	66	22	0	0	77	0.77
1168457--1168508	8	6.4	8	76	12	52	19	1	0	78	0.84
1176760--1177523	194	4.0	191	97	2	1455	39	19	13	28	1.89
1178616--1178676	29	2.1	29	81	6	70	42	3	6	47	1.45
1196811--1197277	49	9.5	49	86	0	637	35	12	20	30	1.91
1202771--1202820	19	2.5	20	83	6	66	70	2	4	24	1.15
1202763--1202816	19	2.9	19	83	5	58	68	1	3	25	1.16
1202868--1202909	17	2.4	18	88	4	59	69	2	7	21	1.25
1203510--1203731	76	3.0	73	79	10	231	56	12	0	30	1.42
1208302--1208353	15	3.4	15	76	17	54	73	0	1	25	0.94
1208393--1208432	17	2.3	18	91	4	64	70	0	7	22	1.12
1209019--1209205	76	2.5	74	85	7	238	57	12	0	29	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209101--1209148	25	2.0	24	83	4	60	62	12	2	22	1.40
1217709--1217803	23	4.0	23	76	12	75	68	4	1	26	1.14
1217756--1217822	27	2.5	26	79	13	73	68	2	2	25	1.18
1217807--1217843	15	2.4	16	82	13	51	59	0	5	35	1.20
1217707--1217822	3	40.0	3	69	22	54	66	3	2	27	1.21
1218044--1218297	81	3.1	81	88	0	382	27	23	11	37	1.88
1218504--1218697	55	3.6	54	83	4	221	37	16	12	34	1.86
1219060--1219103	22	2.1	21	84	12	56	29	15	15	38	1.89
1219731--1219783	21	2.5	21	72	6	54	20	24	16	37	1.93
1219773--1219826	21	2.6	21	91	2	83	40	16	22	20	1.91
1220056--1220117	20	3.2	19	84	8	79	12	24	17	45	1.84
1221684--1222961	81	15.8	81	85	1	1594	29	24	11	35	1.90
1223162--1223368	54	3.8	55	85	6	269	33	18	12	36	1.88
1228052--1228084	12	2.7	13	90	9	52	24	6	15	54	1.63
1228401--1228440	19	2.1	18	86	9	53	67	0	7	25	1.16
1229304--1229357	27	2.0	26	85	3	72	31	24	14	29	1.95
1229915--1229960	2	23.0	2	100	0	92	50	0	0	50	1.00
1230015--1230287	49	5.5	49	84	3	350	36	12	20	29	1.90
1230009--1230287	101	2.8	99	86	4	377	37	12	20	29	1.89
1231626--1231677	20	2.5	20	93	3	86	30	13	30	25	1.94
1233551--1233676	47	2.8	44	84	5	144	30	22	7	38	1.83
1238700--1238724	6	4.2	6	100	0	50	32	36	16	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240636--1240717	40	2.0	40	97	0	155	34	26	15	23	1.95
1247202--1247327	47	2.8	44	84	5	144	30	22	7	38	1.83
1270483--1270582	44	2.3	44	89	0	155	31	18	19	32	1.95
1270503--1270581	24	3.5	23	72	19	76	31	15	18	34	1.92
1274107--1274237	39	3.4	39	88	0	190	29	28	19	22	1.98
1274390--1274432	22	2.0	22	90	0	68	39	11	9	39	1.74
1280700--1280820	59	2.1	59	88	0	179	23	16	21	38	1.93
1283406--1283778	193	1.9	193	89	2	570	36	21	15	26	1.93
1283595--1284540	487	1.9	487	89	1	1468	36	20	14	29	1.92
1285394--1285511	59	2.0	59	83	0	146	26	15	20	38	1.92
1290822--1290859	10	3.9	10	82	3	51	55	2	0	42	1.14
1291929--1291971	10	4.0	11	82	11	54	72	0	2	25	0.97
1291915--1291990	28	2.7	28	78	8	75	60	1	3	34	1.23
1294501--1294550	14	3.6	14	78	10	57	26	30	18	26	1.98
1300192--1300469	138	2.0	138	100	0	556	36	14	19	29	1.91
1304565--1304659	24	4.0	24	81	2	111	47	16	13	22	1.82
1304565--1304656	48	1.9	48	88	4	141	47	16	14	21	1.81
1304570--1304673	24	4.3	24	74	7	70	48	16	13	22	1.81
1309063--1309157	24	4.0	24	79	5	93	47	15	12	24	1.80
1309495--1309553	27	2.2	27	90	0	91	37	20	15	27	1.92
1314187--1314222	18	1.9	19	88	5	56	36	5	2	55	1.38
1316908--1317162	137	1.8	141	85	6	360	48	5	7	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318842--1319275	123	3.6	124	81	8	463	26	18	14	40	1.89
1319094--1319957	113	7.6	114	87	2	1233	28	19	13	38	1.89
1319094--1319954	226	3.8	226	93	1	1415	28	19	13	38	1.89
1319444--1319488	23	1.9	23	82	13	56	15	26	6	51	1.68
1319097--1319968	453	1.9	451	92	0	1476	29	19	13	38	1.89
1320013--1320334	73	4.4	73	90	3	477	28	21	22	27	1.99
1320957--1321014	22	2.6	22	91	0	89	36	15	15	32	1.89
1328199--1328229	7	4.4	7	100	0	62	61	12	12	12	1.58
1329890--1329927	15	2.6	15	87	4	51	68	2	0	28	1.03
1329907--1329964	28	2.2	26	84	6	71	60	1	5	32	1.29
1336718--1336752	2	17.5	2	100	0	70	48	0	0	51	1.00
1338261--1338755	22	22.6	22	88	2	685	47	10	0	41	1.42
1344429--1344544	21	5.6	21	67	7	58	34	25	18	21	1.96
1344532--1344786	20	12.6	20	71	9	142	38	23	18	19	1.93
1344532--1344787	40	6.4	39	79	7	237	38	23	17	19	1.93
1344532--1344783	121	2.1	121	86	4	348	38	23	17	19	1.93
1344532--1344763	101	2.3	101	77	7	231	39	23	18	19	1.92
1345358--1345438	33	2.5	33	89	0	117	49	22	18	9	1.77
1345502--1345556	20	2.8	19	86	8	74	14	21	23	40	1.90
1345434--1345565	19	7.1	19	74	14	123	12	21	20	45	1.84
1347373--1347405	17	1.9	17	88	11	50	24	15	15	45	1.84
1347255--1347540	94	3.1	94	95	0	502	21	12	19	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347588--1347670	19	4.2	19	74	7	76	43	26	15	14	1.85
1347705--1347791	20	4.3	20	94	0	138	21	19	20	37	1.94
1348275--1348373	21	4.7	21	73	3	83	23	34	20	22	1.97
1348272--1348382	42	2.6	42	73	8	109	21	36	18	23	1.95
1349738--1349773	14	2.6	14	90	0	54	30	0	22	47	1.52
1349929--1349983	14	3.6	14	73	21	56	14	23	20	41	1.89
1349907--1350002	33	2.9	33	98	1	183	14	22	18	43	1.87
1349909--1350021	19	6.4	19	75	20	120	15	22	16	45	1.85
1349943--1350074	52	2.5	53	85	2	167	17	21	18	41	1.90
1350027--1350119	20	4.7	20	85	2	125	19	19	24	36	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17