genome.fa.s1174.2.7.7.80.10.50.1000.6.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

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

This is table  6  of  11  ( 1247 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)
1138064--1138122	21	2.8	21	86	0	82	20	5	23	50	1.67
1141546--1141608	23	2.7	23	92	0	99	19	25	33	22	1.97
1141537--1141596	23	2.7	22	90	7	95	18	28	31	21	1.97
1149306--1149344	21	2.0	21	85	10	55	56	17	2	23	1.53
1167091--1167415	57	6.1	54	75	11	258	31	8	17	42	1.80
1167478--1168127	240	2.7	240	87	1	910	31	17	16	34	1.93
1170184--1170216	15	2.2	15	100	0	66	18	6	6	69	1.30
1171793--1171822	15	2.0	15	93	0	51	20	13	16	50	1.78
1177513--1177697	55	3.3	55	89	2	273	30	20	14	34	1.93
1177743--1178740	54	19.2	53	80	8	814	24	25	18	31	1.97
1177598--1178727	262	4.3	258	82	6	1183	25	24	17	31	1.97
1177800--1178740	208	4.5	207	89	2	1327	25	25	18	31	1.97
1178983--1179018	16	2.2	17	90	5	56	27	25	0	47	1.52
1179990--1180038	23	2.1	23	88	0	71	0	18	4	77	0.92
1179949--1180052	49	2.1	49	80	8	113	5	16	2	75	1.12
1179990--1180055	12	5.3	12	73	12	62	3	16	3	77	1.02
1194265--1194409	17	8.4	17	73	10	105	40	11	13	35	1.79
1194238--1194377	35	4.0	35	81	7	128	41	10	9	38	1.72
1194302--1194347	18	2.6	17	86	6	65	45	8	8	36	1.66
1196677--1196704	3	9.3	3	100	0	56	0	0	32	67	0.91
1203292--1203425	52	2.6	50	81	8	144	44	10	7	38	1.67
1203280--1203425	69	2.1	69	82	7	172	42	10	8	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203280--1203450	17	9.9	17	74	5	119	42	9	10	37	1.73
1203395--1203443	18	2.8	17	84	6	53	42	10	16	30	1.81
1204460--1204492	16	2.1	16	88	5	50	66	6	0	27	1.15
1204468--1204522	28	2.0	27	82	10	67	56	10	1	30	1.44
1205275--1205317	19	2.2	20	84	8	54	34	23	9	32	1.87
1206507--1206550	21	2.1	21	91	0	70	45	6	38	9	1.63
1207613--1207645	13	2.5	13	95	0	57	30	42	0	27	1.56
1211272--1211312	21	2.0	21	90	0	64	43	7	43	4	1.53
1218811--1218845	12	2.8	13	83	16	56	54	0	0	45	0.99
1218807--1218844	12	3.2	12	86	13	53	60	0	0	39	0.97
1218934--1219070	68	2.0	68	97	0	256	40	5	6	46	1.54
1224080--1224270	95	2.0	95	100	0	382	35	11	24	28	1.90
1225686--1225722	18	2.0	19	94	5	67	48	35	16	0	1.46
1229307--1229350	13	3.5	13	78	12	56	65	0	0	34	0.93
1229367--1229397	11	2.8	11	95	0	53	74	0	0	25	0.82
1231177--1231429	126	2.0	126	100	0	506	30	12	18	38	1.88
1231945--1231984	17	2.5	17	80	19	50	67	2	7	22	1.28
1233265--1233302	20	1.9	20	88	0	58	76	2	7	13	1.11
1233261--1233312	26	2.0	26	85	7	70	75	1	7	15	1.12
1233355--1233601	77	3.2	75	90	4	363	44	6	1	47	1.37
1233587--1233618	14	2.2	15	94	5	57	43	9	0	46	1.35
1236795--1236839	18	2.4	18	96	3	81	40	24	4	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237088--1237242	44	3.5	44	93	2	249	30	23	9	37	1.86
1244556--1245781	55	22.4	55	85	3	1562	30	25	13	31	1.93
1246819--1246891	10	6.8	11	78	12	73	6	19	0	73	1.04
1246818--1246888	31	2.2	31	81	16	83	7	19	0	73	1.06
1246866--1246927	17	3.8	16	77	10	54	4	19	0	75	0.97
1246846--1246903	17	3.4	18	76	9	59	5	18	0	75	0.98
1246834--1246950	41	2.9	41	76	17	120	6	19	0	73	1.05
1249663--1249768	56	1.9	55	82	5	133	24	24	22	28	2.00
1249737--1251030	55	23.5	55	86	1	1727	30	24	13	31	1.93
1252114--1252172	8	8.1	7	75	17	50	3	18	0	77	0.90
1252068--1252140	11	6.6	11	70	22	55	6	16	0	76	0.99
1252119--1252180	32	1.9	32	90	6	99	4	17	0	77	0.94
1252321--1252568	20	12.2	20	75	14	167	41	23	19	15	1.89
1252321--1252568	40	6.1	40	79	13	249	41	23	19	15	1.89
1252664--1252744	6	13.5	6	100	0	162	33	50	16	0	1.45
1253239--1253325	6	14.5	6	100	0	174	0	16	50	33	1.45
1253428--1253927	20	24.8	20	87	10	677	15	19	26	37	1.92
1253421--1254006	40	14.6	40	85	10	549	15	19	25	39	1.91
1253918--1253971	20	2.7	20	94	0	90	11	20	18	50	1.77
1260540--1260578	21	1.9	21	89	5	62	51	0	10	38	1.36
1264373--1264434	23	2.9	21	85	7	81	20	35	25	17	1.95
1266002--1266341	169	2.0	169	100	0	680	32	26	21	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267155--1267207	19	2.7	19	94	2	88	22	30	30	16	1.96
1267566--1267673	55	2.0	55	100	0	216	28	7	30	33	1.85
1271172--1271225	22	2.5	21	74	11	56	70	3	1	24	1.13
1271708--1271812	37	2.8	38	86	4	151	29	15	14	40	1.86
1272405--1273877	106	14.0	106	89	2	2138	23	17	25	34	1.96
1272405--1273877	628	2.3	631	89	3	2277	23	17	25	34	1.96
1275320--1275392	16	4.8	15	73	20	62	1	16	5	76	1.04
1279373--1279451	4	20.2	4	72	21	53	75	0	6	17	1.00
1279447--1279536	34	2.5	35	79	18	96	62	1	5	31	1.25
1280304--1280400	37	2.6	37	86	0	140	31	12	15	40	1.84
1282534--1282568	18	2.0	18	88	5	54	65	17	8	8	1.44
1285052--1285077	2	13.0	2	100	0	52	50	0	0	50	1.00
1288535--1288571	17	2.1	18	90	5	58	83	0	0	16	0.64
1289815--1289865	7	7.3	7	82	6	59	58	3	0	37	1.16
1289874--1290085	37	5.5	37	84	9	237	46	7	2	43	1.45
1289890--1289939	26	1.9	26	92	8	84	46	8	0	46	1.32
1297932--1297995	22	2.8	24	79	13	80	57	12	18	10	1.63
1298461--1298556	44	2.2	44	96	0	174	48	8	1	41	1.40
1298764--1298826	18	3.6	18	70	20	53	57	1	0	41	1.08
1301776--1301818	21	2.0	21	95	0	77	39	6	32	20	1.80
1305424--1305471	24	2.0	24	87	0	69	10	6	37	45	1.64
1306075--1306134	28	2.1	27	87	6	84	28	10	6	55	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306493--1306524	2	16.0	2	100	0	64	0	50	0	50	1.00
1306524--1306558	2	17.5	2	100	0	70	48	0	0	51	1.00
1306819--1306855	19	1.9	19	94	0	65	32	8	13	45	1.73
1307183--1307234	20	2.6	20	100	0	104	40	19	9	30	1.83
1312336--1312617	69	4.1	67	78	8	264	28	23	24	23	1.99
1314697--1314847	60	2.5	60	82	7	173	44	3	19	32	1.67
1314705--1314870	60	2.8	57	80	10	156	45	4	19	31	1.69
1314755--1314883	60	2.2	58	80	8	143	44	5	16	34	1.70
1315959--1316002	2	22.0	2	100	0	88	50	0	0	50	1.00
1316171--1316200	2	15.0	2	100	0	60	50	0	0	50	1.00
1320112--1320189	37	2.1	37	97	0	147	32	15	8	43	1.78
1322177--1322206	2	15.0	2	92	0	51	53	0	0	46	1.00
1323149--1323193	6	7.7	6	87	5	56	53	0	2	44	1.13
1323470--1323729	90	2.9	88	84	7	335	35	17	17	30	1.93
1323777--1323930	43	3.6	43	83	3	202	29	27	14	28	1.95
1323952--1324255	39	7.6	38	77	14	249	37	14	17	30	1.90
1324085--1324116	15	2.1	15	100	0	64	34	25	21	18	1.96
1323968--1324216	126	1.9	128	83	10	321	37	15	17	29	1.91
1324124--1324336	78	2.7	77	84	6	250	38	12	15	32	1.86
1324151--1324320	39	4.3	39	89	3	227	40	11	16	31	1.85
1324150--1324320	79	2.2	78	88	3	245	39	12	16	31	1.85
1324105--1324458	78	4.6	77	75	10	226	38	12	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324333--1324449	37	3.2	37	67	11	105	42	11	17	28	1.84
1324341--1324522	73	2.5	73	81	10	201	40	13	18	28	1.88
1331793--1331969	93	1.9	94	91	2	293	16	16	20	46	1.84
1333828--1333858	15	2.1	15	93	0	53	45	0	0	54	0.99
1335299--1335326	2	14.0	2	100	0	56	50	0	0	50	1.00
1335300--1335337	16	2.5	15	87	12	51	44	0	2	52	1.14
1343321--1343359	16	2.7	14	85	14	53	7	15	0	76	0.99
1343663--1343776	44	2.6	44	83	2	122	27	19	20	33	1.96
1346323--1346357	14	2.5	14	100	0	70	5	14	0	80	0.89
1350623--1350660	4	9.5	4	94	0	67	73	0	2	23	0.95

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