genome.fa.s7760.2.7.7.80.10.50.1000.5.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: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2010226

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 949 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)
1237200--1237239	20	2.0	21	90	5	64	47	10	2	40	1.50
1237180--1237233	11	5.2	11	78	13	60	53	9	1	35	1.44
1237185--1237283	13	7.1	13	68	10	54	49	9	4	37	1.53
1237290--1237370	24	3.2	24	78	13	67	39	8	7	44	1.63
1237347--1237618	2	135.0	2	64	18	57	44	3	5	46	1.44
1237347--1237618	9	33.8	8	67	17	57	44	3	5	46	1.44
1237336--1237447	20	5.9	19	74	14	79	39	7	2	50	1.44
1237408--1237446	17	2.3	17	95	0	69	38	5	0	56	1.22
1237401--1237563	75	2.1	75	80	4	175	44	3	6	46	1.45
1237422--1237614	91	2.1	89	83	5	246	46	2	6	45	1.42
1237401--1237649	91	2.7	88	75	13	227	45	4	6	44	1.47
1237715--1237775	16	3.5	16	71	26	52	40	6	11	40	1.67
1237714--1237787	37	2.1	36	87	5	105	41	6	10	40	1.66
1237745--1237882	57	2.4	57	82	9	174	42	9	7	41	1.65
1237768--1237870	20	5.3	19	68	10	64	42	7	5	43	1.57
1237778--1237852	37	2.1	37	82	9	93	44	9	4	42	1.55
1237809--1237867	22	2.7	22	78	17	68	42	8	5	44	1.57
1237913--1238094	21	8.5	21	69	17	90	42	5	4	47	1.46
1237983--1238245	34	7.8	34	70	21	132	46	3	2	48	1.30
1237984--1238094	41	2.8	40	83	12	126	45	4	3	46	1.40
1237919--1238178	129	2.0	128	83	8	323	43	5	3	47	1.42
1238027--1238137	31	3.5	30	78	17	102	43	2	2	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238154--1238245	15	6.4	14	75	17	91	47	0	1	51	1.07
1238152--1238243	21	4.6	19	76	20	73	47	0	1	51	1.07
1238152--1238207	6	10.3	6	80	16	61	48	0	1	50	1.11
1238151--1238262	40	2.9	40	81	15	114	47	0	1	50	1.11
1239602--1239696	3	32.7	3	79	14	110	33	1	1	64	1.08
1240729--1240854	47	2.8	45	86	5	182	30	23	7	38	1.84
1240963--1241091	59	2.2	59	87	0	177	29	25	17	27	1.97
1244083--1244139	22	2.6	22	78	13	55	36	3	1	57	1.26
1249743--1249804	32	1.9	32	90	0	97	45	19	16	19	1.86
1253957--1254013	22	2.6	22	88	0	87	33	17	12	36	1.87
1254981--1255168	84	2.2	84	90	0	288	38	15	18	27	1.90
1255567--1255640	3	25.7	3	81	13	93	32	1	0	66	1.00
1256443--1256467	11	2.3	11	100	0	50	48	8	36	8	1.62
1257083--1257117	18	1.9	18	88	11	54	28	0	0	71	0.86
1256964--1257206	131	1.9	129	81	8	296	35	6	9	48	1.61
1259597--1259655	20	3.0	20	77	5	66	10	10	18	61	1.56
1259762--1259813	23	2.3	23	96	0	95	23	19	26	30	1.98
1261510--1261547	20	1.9	20	84	10	51	26	7	2	63	1.35
1261876--1261988	33	3.6	33	81	15	148	44	37	8	9	1.69
1261979--1262049	29	2.3	30	80	9	90	38	26	9	25	1.87
1262509--1262548	21	1.9	21	94	0	71	32	30	15	22	1.94
1262574--1262612	19	2.1	19	95	0	69	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262509--1262738	64	3.5	64	80	10	213	30	26	16	26	1.96
1262690--1262738	19	2.6	19	84	9	57	24	30	18	26	1.98
1264655--1264701	21	2.3	21	85	10	62	53	2	6	38	1.39
1268529--1268608	24	3.5	22	75	14	83	23	26	22	27	2.00
1271159--1271198	21	1.9	21	94	0	71	32	30	15	22	1.94
1271224--1271262	19	2.1	19	95	0	69	20	38	15	25	1.92
1271159--1271323	64	2.5	65	83	6	183	33	25	15	26	1.95
1271340--1271388	19	2.6	19	84	9	57	24	30	18	26	1.98
1271209--1271387	64	2.8	62	77	13	168	30	26	15	27	1.96
1274616--1274663	13	3.7	13	75	10	53	37	18	22	20	1.94
1275306--1275372	33	2.0	33	88	0	98	29	23	17	28	1.97
1283322--1283346	3	8.3	3	100	0	50	0	32	0	68	0.90
1286058--1286130	30	2.4	30	90	2	110	58	8	4	28	1.45
1298031--1298236	58	3.5	58	77	9	247	35	8	23	32	1.85
1298032--1298248	117	1.9	117	98	0	416	36	8	22	32	1.84
1298031--1298291	58	4.4	58	74	5	193	38	8	22	30	1.84
1298033--1298293	117	2.2	117	88	4	384	38	9	21	30	1.85
1298267--1298396	59	2.2	59	82	8	158	38	11	19	30	1.87
1298531--1299025	44	11.2	45	91	3	758	37	5	24	32	1.79
1298531--1299025	89	5.6	89	92	3	768	37	5	24	32	1.79
1298531--1299025	133	3.7	133	90	5	743	37	5	24	32	1.79
1300195--1300302	37	2.9	37	83	0	144	38	16	14	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302237--1302274	18	2.1	18	90	0	58	31	36	10	21	1.87
1302366--1302405	10	3.8	10	86	6	53	30	17	0	52	1.45
1312181--1312228	23	2.0	24	84	11	64	27	2	0	70	0.98
1312292--1312326	17	2.1	17	89	10	54	25	5	5	62	1.40
1312460--1312526	21	3.2	21	81	8	75	23	2	0	73	0.97
1312386--1312527	22	6.6	21	68	25	59	28	4	1	65	1.20
1312459--1312527	34	2.2	28	76	23	68	26	2	0	71	1.00
1312611--1312666	19	2.9	19	75	19	62	23	8	1	66	1.30
1316947--1317016	16	4.2	16	76	10	70	81	5	12	0	0.86
1316947--1317006	10	5.8	10	75	19	52	81	5	13	0	0.84
1316948--1317003	24	2.5	21	81	13	67	82	5	12	0	0.83
1316947--1317006	31	1.9	32	86	10	88	81	5	13	0	0.84
1316942--1317016	34	2.3	31	80	17	82	80	6	13	0	0.91
1316978--1317029	20	2.6	19	82	11	61	80	5	11	1	0.96
1316953--1317027	20	3.8	20	75	14	59	80	6	12	1	0.97
1316944--1317029	16	6.1	13	75	17	66	80	6	11	1	0.96
1316955--1317029	7	10.7	7	75	11	55	80	6	12	1	0.97
1317641--1317716	22	3.5	22	92	0	125	38	27	13	21	1.90
1317908--1317968	24	2.5	24	89	0	95	36	18	3	42	1.66
1318543--1320030	106	14.0	106	91	0	2285	34	25	17	22	1.96
1320788--1320882	37	2.6	37	87	0	127	41	13	14	30	1.85
1321300--1321346	23	2.0	23	84	15	62	27	2	0	70	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324594--1324639	20	2.2	21	88	7	67	45	6	13	34	1.69
1328715--1328782	33	2.2	31	79	10	77	27	7	30	33	1.84
1329107--1329151	20	2.1	22	88	8	67	44	6	13	35	1.70
1333983--1334029	21	2.2	21	96	0	85	23	12	34	29	1.92
1334706--1334752	22	2.2	22	88	7	71	42	0	2	55	1.12
1338294--1338343	15	3.4	15	76	13	50	70	2	2	26	1.09
1339406--1339508	37	2.8	37	90	0	152	24	21	17	36	1.94
1339594--1339695	40	2.5	41	78	9	109	25	31	17	25	1.97
1339568--1339991	140	3.0	140	84	1	564	28	27	16	26	1.97
1340232--1340281	3	16.3	3	95	4	91	34	0	0	66	0.92
1340815--1340848	15	2.2	15	89	5	50	73	5	8	11	1.24
1341771--1341844	2	37.0	2	100	0	148	50	0	0	50	1.00
1342171--1342214	22	2.0	22	86	4	63	52	4	9	34	1.54
1342678--1342717	8	5.0	8	87	0	62	32	0	17	50	1.47
1342663--1342716	24	2.2	24	83	0	63	27	0	24	48	1.52
1342677--1342717	16	2.6	16	100	0	82	31	0	19	48	1.49
1343345--1343389	10	4.5	10	80	0	54	66	2	0	31	1.04
1343329--1343389	20	3.0	20	75	4	59	68	3	1	26	1.14
1343972--1343996	12	2.1	12	100	0	50	32	8	32	28	1.86
1344247--1344287	13	3.2	13	80	13	57	43	0	0	56	0.99
1344910--1344954	23	1.9	23	81	4	54	60	6	6	26	1.47
1353433--1353497	29	2.2	31	83	5	80	33	3	7	55	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356385--1356453	34	2.0	34	100	0	138	43	11	14	30	1.81
1363585--1363629	16	2.8	16	93	0	72	28	31	0	40	1.57
1364694--1364737	20	2.3	19	84	7	61	27	13	18	40	1.88
1381953--1382440	46	10.7	45	79	9	445	21	22	13	42	1.88
1382087--1382465	26	16.2	25	65	23	177	21	22	14	41	1.89
1381978--1382440	92	5.1	91	86	5	623	21	22	14	41	1.89
1381978--1382440	138	3.4	135	86	4	635	21	22	14	41	1.89
1382356--1382499	72	2.0	72	87	2	209	22	18	15	43	1.87
1384805--1385133	164	2.0	165	99	0	651	25	23	12	37	1.91
1387075--1387124	21	2.4	21	93	0	82	18	28	16	38	1.91

Tables:   1   2   3   4   5   6   7   8