genome.fa.s7867.2.7.7.80.10.50.1000.7.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

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

This is table  7  of  18  ( 2128 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)
1220022--1220051	15	1.9	16	93	6	53	6	30	0	63	1.20
1220905--1221256	135	2.6	132	80	9	378	27	18	15	38	1.91
1221167--1221470	118	2.6	117	83	7	371	27	19	14	38	1.90
1221168--1221596	111	3.7	117	80	9	400	28	18	13	38	1.90
1222045--1222124	22	3.6	22	93	0	124	38	13	16	31	1.87
1228436--1228519	42	2.0	42	86	4	116	22	15	11	50	1.77
1230386--1230448	12	5.3	12	74	9	58	69	0	3	26	1.03
1230386--1230448	23	2.7	23	80	9	67	69	0	3	26	1.03
1231202--1231241	15	2.5	17	76	19	50	45	5	2	47	1.38
1231298--1231323	3	8.7	3	100	0	52	69	0	0	30	0.89
1231313--1231366	25	2.0	28	83	16	71	64	7	1	25	1.30
1231564--1231614	26	2.0	26	84	0	66	68	3	1	25	1.17
1232779--1232877	48	2.1	48	90	0	153	26	12	32	29	1.92
1244801--1244912	31	3.6	31	80	8	129	30	18	21	29	1.97
1255787--1255831	20	2.2	20	92	0	72	33	13	26	26	1.93
1261272--1261340	24	2.9	24	95	0	120	34	20	20	24	1.96
1264309--1264362	20	2.6	20	75	16	56	42	0	0	57	0.98
1264338--1264419	33	2.7	29	81	10	85	45	0	2	52	1.14
1264461--1264511	23	2.2	23	82	0	57	45	0	1	52	1.12
1264494--1264567	19	3.9	19	70	16	64	45	0	1	52	1.09
1264644--1264694	23	2.2	23	96	0	93	43	0	3	52	1.19
1264684--1264730	22	2.1	23	92	4	78	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1264685--1264762	23	3.3	24	84	7	90	52	0	0	47	1.00
1264691--1264747	22	2.6	22	81	10	64	54	0	0	45	0.99
1267533--1267615	23	3.5	23	75	15	80	56	0	0	43	0.99
1267572--1267622	16	3.3	16	91	5	79	62	0	0	37	0.95
1267583--1267629	14	3.2	14	90	6	67	72	0	0	27	0.85
1267599--1267645	21	2.2	21	84	0	58	70	0	0	29	0.88
1267572--1267646	16	5.0	15	80	12	75	64	0	0	36	0.94
1270223--1270311	23	4.0	23	77	4	92	14	22	25	37	1.92
1270223--1270314	44	2.0	44	85	4	121	14	21	25	39	1.91
1270231--1270321	23	4.1	22	76	7	76	14	18	27	39	1.89
1280963--1281029	31	2.2	29	78	5	71	40	16	5	37	1.73
1280963--1281047	29	2.8	31	78	7	86	37	16	5	40	1.73
1281217--1281257	20	2.0	20	100	0	82	56	4	0	39	1.21
1282002--1282053	24	2.2	24	96	0	95	34	19	25	21	1.96
1282046--1282131	23	3.7	23	82	0	91	39	20	22	17	1.92
1282093--1282141	23	2.1	23	96	0	89	32	24	28	14	1.94
1282227--1282318	44	2.1	44	85	4	123	35	20	11	31	1.89
1288861--1288917	24	2.4	24	84	0	69	36	21	19	22	1.95
1288874--1288996	23	5.3	23	73	10	83	31	24	22	21	1.98
1288911--1289009	46	2.2	46	85	10	141	32	23	23	21	1.98
1288938--1289007	23	3.0	23	70	12	63	28	25	27	18	1.98
1289091--1289182	44	2.1	44	83	0	112	36	19	9	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291323--1291382	21	2.9	21	87	5	68	28	6	21	43	1.78
1291333--1291398	21	3.1	21	91	0	96	22	9	24	43	1.82
1292094--1292140	20	2.3	20	96	0	85	34	27	17	21	1.95
1292257--1292300	19	2.2	20	84	4	54	59	4	9	27	1.48
1294238--1294286	3	15.3	3	89	8	71	61	0	4	34	1.15
1294241--1294289	23	2.1	23	100	0	98	61	0	4	34	1.15
1294474--1294888	138	3.0	138	84	2	523	27	17	27	27	1.98
1294917--1295148	67	3.5	67	88	0	329	43	12	16	27	1.84
1294997--1295108	31	3.5	31	69	19	93	42	13	15	28	1.84
1295021--1295148	36	3.7	34	79	11	154	46	12	14	26	1.81
1294923--1295148	36	6.8	33	70	12	149	42	12	16	27	1.85
1295476--1295615	37	3.8	36	79	9	113	35	11	22	30	1.89
1295480--1295584	37	2.9	37	85	4	124	36	10	20	32	1.87
1301647--1301671	6	4.2	6	100	0	50	84	0	0	16	0.63
1303359--1303432	7	10.7	7	80	2	87	43	21	0	35	1.53
1303359--1303462	14	7.4	14	80	8	97	44	22	0	33	1.53
1303359--1303438	21	3.9	21	90	1	117	43	21	0	35	1.53
1303421--1303494	31	2.4	31	93	2	123	45	27	0	27	1.54
1311555--1311616	26	2.4	25	76	10	63	20	3	6	69	1.25
1313943--1314003	32	1.9	32	89	0	95	18	9	26	45	1.80
1322419--1322511	21	4.5	21	78	4	100	39	18	24	17	1.91
1322500--1322594	20	4.7	20	80	2	91	33	25	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322419--1322511	41	2.3	41	100	0	186	39	18	24	17	1.91
1322497--1322574	41	1.9	40	84	2	102	38	23	16	21	1.93
1322782--1322825	22	2.0	22	95	0	79	20	45	15	18	1.85
1323089--1323126	20	1.9	20	88	0	58	13	15	21	50	1.78
1324445--1324489	18	2.5	18	88	0	72	26	44	15	13	1.83
1324970--1325025	20	2.8	20	83	2	69	37	23	23	16	1.93
1325025--1325082	14	3.9	14	77	16	62	48	22	17	12	1.80
1325009--1325099	32	2.8	33	93	3	157	47	20	18	13	1.82
1325116--1325173	14	3.9	14	79	16	71	8	17	25	48	1.75
1325111--1325189	32	2.4	33	95	2	142	10	18	24	46	1.80
1325130--1325247	20	6.4	19	77	11	95	13	20	24	41	1.88
1325985--1326038	24	2.2	24	90	0	81	24	16	20	38	1.92
1326213--1326237	12	2.1	12	100	0	50	72	0	28	0	0.86
1328529--1328655	33	3.8	33	84	4	175	43	19	21	15	1.88
1328529--1328659	19	7.7	19	62	23	67	43	19	21	15	1.88
1328530--1328662	66	2.0	66	92	0	221	42	19	21	17	1.90
1328655--1328697	20	2.2	20	87	4	61	16	18	23	41	1.89
1328683--1328716	14	2.4	14	85	0	50	8	23	20	47	1.78
1328838--1328874	14	2.6	14	91	0	65	45	24	0	29	1.53
1330269--1330352	42	2.0	42	85	0	114	22	16	39	21	1.92
1332377--1332475	33	3.0	33	89	1	144	39	26	23	11	1.88
1332352--1332536	19	10.1	19	77	14	174	43	22	22	11	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332447--1332536	39	2.3	38	94	1	153	46	22	20	11	1.81
1332532--1332598	19	3.5	19	85	2	89	10	14	25	49	1.76
1333159--1333287	20	6.3	19	71	12	71	19	20	18	41	1.90
1333113--1333206	20	4.7	20	80	2	89	24	17	24	34	1.96
1333134--1333268	41	3.3	41	84	4	148	20	20	20	39	1.93
1333195--1333287	21	4.6	20	79	4	105	17	23	18	40	1.90
1333195--1333287	41	2.3	41	98	0	177	17	23	18	40	1.90
1338187--1338347	65	2.5	65	94	0	277	26	18	22	33	1.96
1344336--1344411	39	1.9	39	83	0	98	19	23	26	30	1.98
1345526--1345556	2	15.5	2	100	0	62	51	0	0	48	1.00
1345783--1345816	12	2.8	12	95	0	59	64	5	5	23	1.38
1353536--1353563	12	2.3	12	100	0	56	14	14	17	53	1.73
1359839--1359869	3	10.3	3	100	0	62	32	32	0	35	1.58
1363957--1363984	13	2.2	13	100	0	56	35	14	0	50	1.43
1369843--1369899	21	2.7	21	81	10	80	26	15	19	38	1.92
1369961--1370015	20	2.5	23	74	17	62	32	21	10	34	1.89
1369971--1370035	20	3.3	20	85	4	80	33	20	7	38	1.81
1372045--1372085	14	2.9	15	82	14	59	78	2	17	2	0.98
1375538--1375564	13	2.1	13	100	0	54	55	22	14	7	1.64
1376815--1377196	190	2.0	193	98	1	743	26	19	15	38	1.91
1383851--1383909	21	2.8	21	92	0	91	33	15	18	32	1.92
1384673--1384772	50	2.0	50	100	0	200	30	24	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390797--1390910	42	2.7	42	82	1	140	24	21	22	31	1.98
1390676--1391885	257	4.7	257	86	2	1662	32	15	17	34	1.91
1391311--1391417	42	2.6	42	76	7	103	28	18	20	32	1.96
1395415--1395475	22	3.0	20	79	11	70	31	14	29	24	1.95
1398282--1398409	59	2.2	57	81	4	148	34	8	19	37	1.82
1398691--1399331	81	8.0	81	86	3	868	38	11	21	28	1.88
1398691--1399331	241	2.7	242	87	3	897	38	11	21	28	1.88
1400475--1400530	25	2.2	25	90	3	85	19	17	10	51	1.74
1402760--1402801	2	22.0	2	90	9	70	52	0	0	47	1.00
1404491--1404565	20	3.7	20	70	19	64	21	20	22	36	1.96

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