genome.fa.s9610.2.7.7.80.10.50.1000.6.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2160 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)
1114003--1114057	20	2.7	21	94	2	94	20	34	18	27	1.95
1117751--1117839	33	2.7	33	92	0	142	26	22	4	46	1.71
1118291--1118861	201	2.8	199	88	2	813	22	25	24	28	2.00
1119018--1119148	41	2.9	44	78	12	142	33	12	5	48	1.64
1119148--1119320	43	4.0	43	75	10	158	27	16	6	49	1.71
1121965--1122209	124	2.0	124	94	0	427	35	7	15	41	1.76
1126587--1126700	36	3.1	36	98	1	219	19	16	19	44	1.87
1133210--1133242	15	2.2	15	94	0	57	9	18	66	6	1.40
1137213--1137265	21	2.5	21	90	0	79	30	30	20	18	1.97
1137758--1137813	25	2.2	25	100	0	112	21	3	23	51	1.63
1137905--1137953	23	2.2	22	92	7	82	38	22	20	18	1.93
1137967--1138053	21	4.2	21	89	5	133	29	29	20	19	1.97
1137972--1138061	40	2.2	40	92	0	144	30	26	21	22	1.99
1138070--1138117	21	2.3	21	92	0	78	18	18	31	31	1.95
1144319--1144372	21	2.5	22	81	9	65	68	1	0	29	1.00
1144805--1144923	32	3.7	32	68	12	89	22	20	26	31	1.98
1144912--1145736	252	3.3	252	91	0	1317	25	18	23	31	1.97
1145705--1146374	106	6.5	105	84	6	814	22	17	25	34	1.95
1150762--1150795	2	17.0	2	100	0	68	50	0	0	50	1.00
1153467--1153565	48	2.1	48	96	0	180	29	25	9	36	1.87
1155079--1155105	2	13.5	2	100	0	54	51	0	0	48	1.00
1156412--1156475	32	2.0	32	96	0	119	21	26	28	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163959--1164015	29	2.0	29	96	0	105	14	33	31	21	1.92
1164153--1164212	20	3.3	19	71	26	58	6	31	36	25	1.82
1164164--1164225	14	4.0	14	77	22	70	8	29	40	22	1.82
1164153--1164231	34	2.3	34	93	0	140	7	32	36	22	1.83
1164178--1164211	10	3.4	10	84	15	52	8	29	38	23	1.85
1166486--1166559	37	2.0	37	84	7	98	12	12	35	40	1.80
1166545--1166946	194	2.0	199	88	5	600	30	11	15	41	1.83
1171502--1171569	31	2.2	31	79	10	77	33	7	2	55	1.42
1172128--1172159	14	2.1	16	88	11	50	37	0	0	62	0.95
1173498--1173541	20	2.1	21	87	4	63	50	4	4	40	1.43
1174560--1174593	14	2.5	14	90	4	52	44	26	0	29	1.55
1174706--1174749	15	3.0	15	83	6	54	52	22	0	25	1.48
1174809--1174885	7	11.3	7	75	22	58	49	25	1	23	1.58
1174323--1174867	274	2.0	270	95	4	986	43	21	7	27	1.80
1174834--1174935	21	4.9	21	77	8	91	49	29	0	21	1.50
1174834--1174935	7	14.6	7	75	4	71	49	29	0	21	1.50
1174889--1174962	35	2.1	35	85	5	96	51	28	0	20	1.48
1176927--1177034	17	5.9	17	79	13	117	24	18	26	30	1.98
1176949--1177025	40	1.9	40	91	0	127	24	19	24	31	1.98
1177001--1177049	24	2.1	23	92	3	80	20	26	24	28	1.99
1185097--1185137	21	2.0	21	100	0	82	29	4	14	51	1.63
1185096--1185147	21	2.6	19	85	11	77	36	3	13	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187977--1188070	21	4.5	21	92	5	129	20	26	35	18	1.95
1188074--1188121	21	2.3	21	85	0	60	22	12	39	25	1.89
1189818--1189870	14	3.5	14	75	14	52	56	1	0	41	1.10
1193968--1194045	2	39.5	2	94	2	140	48	0	1	50	1.09
1195893--1195973	2	40.5	2	87	9	121	48	2	1	48	1.23
1199777--1199831	14	3.7	15	74	11	51	69	3	1	25	1.15
1201811--1202016	111	1.9	111	97	0	394	45	11	5	37	1.64
1206842--1206877	2	18.0	2	94	0	63	47	0	2	50	1.15
1215380--1215412	16	2.1	16	100	0	66	57	24	12	6	1.57
1215478--1215552	10	7.7	10	69	21	61	57	21	12	9	1.62
1215482--1215546	16	4.1	16	95	0	121	56	23	12	7	1.61
1216280--1216335	14	4.3	14	82	17	75	51	25	14	8	1.70
1216260--1216334	24	3.1	24	90	3	107	54	21	12	12	1.69
1216273--1216320	10	4.4	10	78	19	51	54	22	12	10	1.68
1221653--1221954	149	2.0	151	98	1	581	42	11	9	36	1.73
1224392--1224424	16	1.9	17	88	11	50	54	0	3	42	1.15
1229230--1229254	2	12.5	2	100	0	50	52	48	0	0	1.00
1232314--1232384	32	2.2	32	87	2	99	49	14	15	21	1.79
1234775--1234827	24	2.2	25	93	3	90	47	16	7	28	1.74
1235876--1235928	18	2.9	18	91	0	88	28	32	20	18	1.97
1239895--1239952	23	2.5	23	94	2	98	46	22	8	22	1.79
1242950--1242984	18	1.9	18	100	0	70	25	34	22	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244072--1244096	13	1.9	13	100	0	50	68	0	32	0	0.90
1248158--1248195	19	2.0	19	94	0	67	34	31	2	31	1.72
1252420--1252773	176	2.0	176	93	0	600	39	25	9	25	1.86
1258179--1258303	66	1.9	66	89	0	196	11	27	25	36	1.90
1259015--1259091	24	3.5	21	77	16	77	23	11	19	45	1.83
1258994--1259094	47	2.3	43	93	6	166	23	10	18	46	1.81
1258994--1259077	24	3.6	23	82	4	114	22	10	20	46	1.81
1266451--1266507	19	3.1	19	78	9	64	42	0	5	52	1.24
1266614--1266662	18	2.8	18	76	14	57	46	0	2	51	1.12
1266629--1266687	29	2.0	30	87	9	86	49	0	3	47	1.18
1266981--1267021	19	2.2	19	86	8	57	4	12	0	82	0.81
1267108--1267133	13	2.0	13	100	0	52	15	7	15	61	1.55
1267254--1267324	21	3.6	21	66	24	64	19	19	26	33	1.96
1267278--1267366	21	4.2	21	76	11	83	20	16	22	40	1.91
1267956--1268000	5	8.6	5	97	2	72	0	20	55	24	1.43
1268005--1268122	21	5.7	20	82	12	141	23	21	23	31	1.98
1268004--1268122	42	2.9	42	86	9	156	23	21	23	31	1.98
1269226--1269275	25	2.0	25	96	0	91	42	18	0	40	1.50
1272316--1272484	91	1.9	91	85	5	234	37	13	11	37	1.82
1273938--1273984	12	4.2	12	81	15	55	38	6	48	6	1.54
1273945--1273987	21	2.0	21	95	0	77	39	4	51	4	1.44
1279785--1279829	17	2.6	17	100	0	90	13	24	44	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286460--1286485	13	2.0	13	100	0	52	53	15	7	23	1.67
1286970--1287007	17	2.2	17	100	0	76	10	23	47	18	1.79
1286950--1286980	7	4.4	7	100	0	62	25	29	29	16	1.96
1286963--1287018	22	2.4	23	88	8	78	14	23	46	16	1.83
1287006--1287043	19	2.0	19	89	0	58	26	26	31	15	1.96
1288609--1288658	12	4.5	11	76	16	50	42	2	52	4	1.31
1288612--1288654	21	2.0	21	90	0	68	41	2	51	4	1.35
1289958--1290106	73	2.0	76	92	3	250	20	4	18	56	1.59
1294943--1295038	35	2.7	35	79	9	106	38	28	3	30	1.72
1295196--1295491	148	2.0	148	92	1	495	38	5	8	47	1.56
1295447--1295489	18	2.5	17	78	10	52	51	0	0	48	1.00
1295449--1295490	16	2.5	17	80	7	50	50	0	0	50	1.00
1295973--1296058	36	2.4	36	81	11	104	24	2	27	45	1.65
1295989--1296068	36	2.2	36	80	8	92	30	1	21	47	1.59
1303711--1303967	20	12.6	21	78	9	219	33	19	19	26	1.96
1303711--1303967	41	6.3	40	76	7	115	33	19	19	26	1.96
1303711--1303967	61	4.2	61	73	11	186	33	19	19	26	1.96
1304519--1304625	20	5.5	19	89	3	133	51	20	17	10	1.74
1304630--1304719	20	4.6	19	87	5	135	12	22	18	46	1.82
1306398--1306773	94	4.1	94	93	2	593	21	11	19	47	1.81
1306864--1306933	33	2.1	33	91	0	113	50	21	20	8	1.74
1306940--1307052	19	5.8	19	83	4	127	11	18	21	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307505--1307571	21	3.2	21	64	6	55	25	35	19	19	1.95
1307483--1307571	42	2.1	42	83	8	110	24	35	19	20	1.95
1308888--1308923	14	2.6	14	95	0	63	33	0	22	44	1.53
1309072--1309264	33	5.8	33	94	0	332	11	24	18	45	1.83
1309248--1309291	20	2.3	19	88	4	61	20	22	20	36	1.95
1309258--1309330	20	3.6	20	70	17	60	23	17	24	34	1.96
1311802--1311855	24	2.2	24	93	0	90	40	20	18	20	1.91
1311802--1311869	24	2.8	24	84	0	64	38	20	17	23	1.93
1312717--1312787	20	3.5	20	77	7	72	23	18	16	40	1.90
1312771--1312826	21	2.7	20	81	8	67	33	17	25	23	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18