genome.fa.s8033.2.7.7.80.10.50.1000.7.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: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3048429

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

This is table  7  of  14  ( 1580 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)
1149647--1149682	14	2.5	14	90	4	54	30	5	8	55	1.52
1153478--1153549	29	2.4	32	77	15	82	45	9	18	26	1.80
1158054--1158106	15	3.5	15	94	0	88	24	3	64	7	1.37
1158287--1158351	31	2.1	31	91	0	103	29	10	20	40	1.86
1158296--1158363	31	2.2	31	81	0	82	32	8	17	41	1.80
1158630--1158677	19	2.5	18	81	18	53	33	0	6	60	1.22
1159785--1159822	19	2.0	19	89	0	58	52	15	0	31	1.43
1159787--1159829	19	2.3	19	83	0	50	58	11	2	27	1.46
1161626--1161999	46	8.1	46	92	0	595	21	22	12	42	1.87
1163171--1163208	3	12.7	3	88	0	58	65	2	28	2	1.19
1168755--1169203	46	9.8	46	92	0	675	21	22	10	44	1.83
1169626--1169803	95	1.9	94	83	5	234	25	21	14	38	1.91
1172606--1172742	49	2.8	48	75	2	139	39	17	16	27	1.90
1172606--1172737	48	2.7	49	73	8	124	39	18	16	25	1.91
1174186--1174227	19	2.3	19	87	4	59	78	2	11	7	1.04
1174482--1174535	28	1.9	28	82	14	67	68	0	3	27	1.06
1174759--1174894	32	4.2	32	80	8	143	38	2	5	52	1.41
1174760--1174897	64	2.2	64	79	10	158	39	2	5	52	1.38
1175912--1175952	22	1.9	21	90	5	64	21	0	7	70	1.11
1176896--1177343	20	19.7	20	68	22	205	20	24	11	43	1.85
1176872--1177357	47	10.6	47	85	6	592	20	23	11	44	1.84
1176872--1177349	140	3.5	138	84	8	588	20	23	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183975--1184416	47	9.5	47	91	1	692	21	20	11	46	1.82
1183975--1184416	140	3.2	140	93	0	724	21	20	11	46	1.82
1183975--1184416	187	2.4	186	92	0	722	21	20	11	46	1.82
1184812--1184883	22	3.6	19	80	9	72	29	26	13	30	1.94
1185096--1185174	19	4.4	18	65	24	51	43	22	0	34	1.54
1185096--1185202	52	2.1	52	98	0	205	40	23	0	36	1.55
1185113--1185198	28	3.2	28	62	18	74	38	25	0	36	1.56
1186273--1186322	24	2.1	24	84	0	64	44	6	10	40	1.63
1186814--1186859	21	2.2	21	92	0	74	34	13	13	39	1.83
1188045--1188137	2	46.5	2	97	0	177	0	50	0	49	1.00
1188137--1188166	2	15.0	2	100	0	60	50	0	0	50	1.00
1189426--1189469	18	2.5	17	85	7	61	54	0	2	43	1.12
1192638--1192696	3	19.7	3	100	0	118	33	0	0	66	0.92
1197243--1197338	36	2.7	36	88	6	158	43	17	18	19	1.88
1197515--1197552	8	4.9	8	84	15	53	44	0	2	52	1.14
1197522--1197554	14	2.4	14	94	0	57	45	0	0	54	0.99
1197603--1197653	25	2.0	27	88	7	79	35	27	11	25	1.91
1199549--1199865	45	7.0	45	90	0	481	45	11	20	23	1.83
1199907--1199950	24	2.0	23	82	13	56	45	6	18	29	1.75
1206573--1207118	45	12.2	45	90	1	810	43	12	21	21	1.85
1207816--1207911	30	3.2	30	88	2	131	26	14	30	29	1.95
1218409--1218435	14	1.9	14	100	0	54	29	7	18	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219402--1219460	15	3.7	15	76	12	64	32	1	5	61	1.28
1219397--1219465	33	2.1	33	91	0	111	33	2	5	57	1.37
1219499--1219553	23	2.4	23	100	0	110	36	7	14	41	1.74
1219883--1219932	24	2.1	25	82	14	61	54	10	2	34	1.45
1222459--1222496	5	7.8	5	91	5	60	2	21	55	21	1.56
1222493--1222565	19	3.7	19	82	7	92	26	24	27	21	2.00
1228204--1228439	113	2.1	114	97	1	447	41	18	15	24	1.89
1229485--1229521	5	7.8	5	85	11	51	2	18	56	21	1.54
1236733--1236774	19	2.2	19	83	8	50	30	26	26	16	1.97
1238075--1238247	36	5.1	35	86	7	193	33	15	17	32	1.92
1243350--1243493	36	4.1	35	92	3	227	31	15	18	34	1.92
1248255--1248307	24	2.3	22	81	12	61	66	1	1	30	1.13
1248262--1248312	4	12.8	4	76	15	52	68	0	1	29	1.00
1248263--1248312	20	2.5	20	83	6	66	68	0	2	30	1.01
1248318--1248365	25	1.9	25	86	0	69	47	0	4	47	1.21
1253623--1253691	35	2.0	35	85	5	95	42	11	10	36	1.75
1253621--1253723	18	5.8	18	73	13	88	39	11	12	35	1.80
1260757--1260855	14	7.3	13	70	22	55	42	1	0	56	1.06
1260776--1260859	23	3.5	22	75	15	62	42	1	0	55	1.07
1260789--1260861	16	4.7	16	79	15	82	42	0	0	57	0.98
1260787--1260847	32	1.9	32	93	6	106	44	0	0	55	0.99
1270505--1270548	15	2.9	15	89	3	61	15	38	9	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273119--1273178	27	2.2	26	85	8	84	30	8	11	50	1.68
1278359--1278440	42	2.0	42	87	0	119	23	15	21	39	1.92
1278355--1278444	21	4.3	21	76	0	90	21	15	25	37	1.92
1281816--1281859	13	3.4	13	77	0	52	27	20	18	34	1.96
1288721--1288803	21	3.9	21	78	13	80	24	12	26	37	1.90
1288710--1288768	21	2.9	19	80	14	73	23	15	25	35	1.94
1288710--1288805	42	2.3	42	81	3	113	22	15	26	35	1.94
1288790--1288846	22	2.5	22	83	13	64	15	22	29	31	1.95
1290019--1290073	21	2.6	21	79	0	65	21	18	29	30	1.97
1301524--1301565	12	3.2	12	81	18	57	40	7	26	26	1.81
1301727--1301776	25	2.0	25	84	0	64	22	18	22	38	1.94
1301883--1301947	32	2.0	32	84	0	85	24	9	23	43	1.83
1302491--1302515	5	5.0	5	100	0	50	80	0	0	20	0.72
1308090--1308158	23	3.0	23	80	0	84	31	26	24	17	1.97
1313455--1313523	23	3.0	23	82	0	93	31	26	24	17	1.97
1335361--1335429	23	3.0	23	86	0	102	17	27	23	31	1.97
1335575--1335639	32	2.0	32	87	0	94	24	4	23	47	1.70
1337360--1337444	30	2.8	30	96	0	161	42	22	16	18	1.89
1337686--1337710	4	6.2	4	100	0	50	24	0	0	76	0.80
1345926--1345965	22	1.9	20	90	10	62	45	2	0	52	1.14
1346194--1346232	20	1.9	21	89	5	62	51	5	15	28	1.64
1346992--1347050	26	2.2	28	80	17	72	33	1	3	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347486--1347527	8	4.7	9	80	19	52	30	0	0	69	0.89
1347481--1347530	14	3.4	15	78	13	59	32	0	0	68	0.90
1347601--1347625	13	1.9	13	100	0	50	32	12	0	56	1.36
1350950--1351101	76	2.0	76	97	2	288	32	20	13	34	1.91
1351072--1351103	9	3.8	9	84	16	50	34	21	9	34	1.86
1351628--1351684	21	2.8	21	76	10	55	63	3	17	15	1.45
1355228--1355319	45	2.0	45	100	0	184	35	26	19	18	1.95
1358079--1358130	9	5.4	10	80	13	56	88	0	11	0	0.52
1358079--1358120	1	42.0	1	85	0	57	92	0	7	0	0.37
1358079--1358122	14	3.0	15	80	6	63	90	0	9	0	0.44
1358929--1359563	105	6.0	105	96	0	1162	33	25	18	22	1.97
1358928--1359559	211	3.0	211	97	0	1176	33	25	18	22	1.97
1358929--1359563	316	2.0	316	96	1	1166	33	25	18	22	1.97
1359621--1359662	20	2.1	20	86	0	57	23	19	19	38	1.93
1361059--1361107	18	2.7	18	77	0	53	26	12	0	61	1.31
1361465--1361523	26	2.3	25	83	13	75	23	5	3	67	1.26
1364850--1364905	15	3.9	15	74	6	62	46	5	16	32	1.69
1365248--1365298	23	2.2	23	82	0	57	45	1	1	50	1.24
1365311--1365375	27	2.4	28	80	14	82	52	3	0	44	1.16
1365386--1365438	23	2.3	23	83	6	63	47	1	1	49	1.23
1365399--1365472	31	2.4	29	80	10	76	48	1	2	47	1.24
1365691--1365785	42	2.3	42	84	0	118	47	16	16	18	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367032--1367096	21	3.1	21	64	4	60	35	20	16	27	1.94
1367103--1367151	20	2.5	20	100	0	98	44	24	14	16	1.84
1367158--1367214	19	2.9	19	84	2	69	35	19	8	36	1.83
1367632--1367669	20	1.9	20	88	0	58	13	15	21	50	1.78
1369338--1369387	21	2.4	21	80	6	57	24	14	30	32	1.94
1369379--1369500	63	1.9	63	81	3	147	21	12	33	32	1.90
1369791--1369893	42	2.5	42	88	0	143	24	34	18	22	1.96
1369791--1369893	21	4.9	21	76	8	102	24	34	18	22	1.96
1369791--1369913	42	2.9	42	85	0	129	25	34	17	23	1.96
1371300--1371336	14	2.6	14	100	0	74	29	0	21	48	1.50

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