genome.fa.s8187.2.7.7.80.10.50.1000.5.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: VEPZ01008187.1 Hibiscus syriacus cultivar Beakdansim tig00110794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1300289

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 587 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)
1149676--1149763	29	2.8	30	77	11	81	17	7	0	75	1.04
1152686--1152752	23	3.0	22	75	12	64	71	10	13	4	1.27
1152686--1152773	44	2.0	45	86	8	126	71	10	13	4	1.28
1152704--1152781	21	3.6	21	76	13	70	73	8	14	3	1.22
1153376--1153452	22	3.5	22	90	0	127	37	25	14	22	1.92
1153861--1153897	18	2.0	19	94	5	67	18	5	32	43	1.73
1154191--1155762	106	14.9	106	90	1	2334	34	24	17	23	1.96
1156489--1156593	37	2.8	37	80	0	129	40	14	13	31	1.84
1157132--1157164	2	17.0	2	87	6	50	45	0	0	54	0.99
1157006--1157163	65	2.4	65	76	9	149	34	4	4	56	1.39
1157427--1157452	2	13.0	2	100	0	52	50	0	0	50	1.00
1157456--1157539	4	20.2	4	73	13	55	17	7	0	75	1.03
1157463--1157541	29	2.7	30	82	3	99	16	6	0	77	0.97
1159318--1159357	2	20.0	2	100	0	80	50	0	0	50	1.00
1172428--1172490	29	2.2	29	85	0	81	44	19	17	19	1.87
1181197--1181312	35	3.2	36	86	6	164	33	5	18	43	1.72
1185801--1185861	21	3.2	21	61	29	55	31	6	21	40	1.78
1185799--1185912	35	3.2	36	88	6	169	32	5	20	42	1.74
1196702--1196758	25	2.3	25	84	0	78	28	10	22	38	1.87
1197345--1197383	20	1.9	21	89	5	62	38	2	5	53	1.37
1197996--1198032	19	1.9	19	100	0	74	75	0	0	24	0.80
1198787--1198826	3	13.3	3	100	0	80	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199999--1200054	24	2.3	24	96	0	103	21	10	17	50	1.77
1206081--1206121	22	1.9	22	85	5	57	53	0	4	41	1.22
1222863--1222905	16	2.8	16	89	3	61	55	4	4	34	1.41
1229044--1229155	35	3.2	35	98	0	215	16	37	25	20	1.93
1229103--1229195	45	2.1	45	97	0	177	15	36	26	21	1.93
1229138--1229165	10	2.8	10	100	0	56	7	42	28	21	1.79
1235119--1235171	21	2.5	21	93	0	88	28	28	22	20	1.99
1235368--1235422	13	4.2	13	75	13	58	49	12	3	34	1.59
1235408--1235507	34	3.0	33	91	4	157	46	15	7	32	1.72
1235502--1235541	21	1.9	21	94	0	71	47	7	15	30	1.72
1245477--1245572	20	4.7	21	71	5	79	41	15	22	19	1.89
1245480--1245572	41	2.3	41	98	0	177	40	16	23	19	1.90
1245561--1245655	20	4.7	20	80	2	91	34	24	17	23	1.96
1245558--1245635	41	1.9	41	86	0	111	39	21	16	21	1.92
1245843--1245886	22	2.0	22	95	0	79	20	45	15	18	1.85
1246150--1246187	20	1.9	20	88	0	58	13	15	21	50	1.78
1247509--1247553	18	2.5	18	88	0	72	26	44	15	13	1.83
1248026--1248081	20	2.8	20	83	2	69	37	23	23	16	1.93
1248065--1248155	32	2.8	33	91	3	148	47	20	18	13	1.82
1248081--1248138	14	3.9	14	77	16	53	48	22	17	12	1.80
1248172--1248229	14	3.9	14	79	16	71	8	17	25	48	1.75
1248167--1248245	32	2.4	33	95	2	142	10	18	24	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248186--1248303	20	6.4	19	77	11	95	13	20	24	41	1.88
1250855--1250908	24	2.2	24	86	0	72	24	16	18	40	1.90
1251083--1251107	12	2.1	12	100	0	50	72	0	28	0	0.86
1253400--1253526	33	3.8	33	87	4	193	42	20	22	14	1.88
1253401--1253533	66	2.0	66	95	0	239	41	20	22	15	1.90
1253380--1253530	19	8.7	19	68	21	89	41	21	22	14	1.89
1253526--1253568	20	2.2	20	87	4	61	16	18	23	41	1.89
1253554--1253587	14	2.4	14	85	0	50	8	23	20	47	1.78
1253688--1253724	14	2.6	14	91	0	65	45	24	0	29	1.53
1255082--1255148	21	3.2	21	68	4	55	19	20	35	23	1.95
1257230--1257328	33	3.0	33	89	1	144	39	26	23	11	1.88
1257205--1257370	20	9.1	19	74	16	136	43	22	22	12	1.86
1257366--1257432	19	3.5	19	85	2	89	10	16	25	47	1.78
1257996--1258124	20	6.3	19	71	12	80	19	19	17	43	1.88
1257950--1258043	20	4.7	20	77	2	80	23	17	24	35	1.95
1257971--1258105	41	3.3	40	79	6	119	20	19	20	40	1.91
1258032--1258124	20	4.6	20	78	4	96	18	21	17	43	1.89
1258032--1258124	41	2.3	41	92	3	152	18	21	17	43	1.89
1273073--1273107	18	1.9	18	88	0	52	11	22	51	14	1.74
1273070--1273117	24	2.0	24	87	0	69	12	22	50	14	1.77
1278729--1278778	20	2.5	20	81	12	75	52	10	16	22	1.73
1281258--1281323	33	2.0	33	87	0	96	28	1	45	24	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283115--1283177	19	3.4	19	95	2	110	31	3	9	55	1.48
1283260--1284482	200	6.1	200	97	0	2170	37	14	15	32	1.88
1285944--1286005	18	3.4	18	88	0	88	38	6	33	20	1.79
1285944--1286005	6	10.3	6	83	0	61	38	6	33	20	1.79
1285959--1286009	3	17.0	3	83	0	66	37	3	33	25	1.74
1285947--1286009	12	5.2	12	90	0	81	36	6	33	23	1.80
1287367--1288037	184	3.7	184	98	0	1290	35	14	15	34	1.89
1290588--1290650	23	2.7	23	90	0	90	36	6	19	38	1.77
1290588--1290660	23	3.2	23	86	3	85	35	5	19	39	1.75
1291013--1291074	22	2.8	22	90	2	88	37	6	19	37	1.78
1291013--1291084	23	3.2	22	88	4	90	36	5	19	38	1.75
1291087--1291125	20	2.0	20	89	0	60	25	15	10	48	1.76
1291440--1291499	23	2.6	23	89	0	84	36	6	18	38	1.77
1290490--1294293	423	9.0	429	95	4	6892	39	8	13	39	1.75
1292286--1292342	23	2.5	23	88	0	78	36	7	17	38	1.77
1292776--1292812	19	1.9	19	88	0	56	27	16	10	45	1.80
1292913--1292977	28	2.2	29	81	10	71	50	6	0	43	1.27
1293119--1293181	23	2.7	23	90	0	90	36	6	19	38	1.77
1293119--1293191	23	3.2	23	86	3	85	35	5	19	39	1.75
1293194--1293232	20	2.0	20	89	0	60	25	15	10	48	1.76
1293539--1293600	23	2.7	23	87	2	81	35	6	19	38	1.77
1293539--1293615	23	3.5	22	84	7	77	35	5	19	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290490--1294293	843	4.5	855	95	4	6926	39	8	13	39	1.75
1293962--1294024	23	2.7	23	90	0	90	36	6	19	38	1.77
1293962--1294034	23	3.2	23	86	3	85	35	5	19	39	1.75
1294037--1294075	20	2.0	20	89	0	60	25	15	10	48	1.76
1294718--1294765	23	2.1	23	88	0	69	35	12	18	33	1.89
1295135--1295188	23	2.5	20	75	18	54	42	18	1	37	1.61
1295150--1295212	23	2.7	23	90	0	90	38	19	6	36	1.77
1295982--1296027	19	2.3	20	88	7	67	41	21	2	34	1.66
1296395--1296448	23	2.5	20	75	18	54	42	18	1	37	1.61
1296410--1296472	23	2.7	23	90	0	90	38	19	6	36	1.77
1296814--1296867	23	2.5	20	75	18	54	42	18	1	37	1.61
1296829--1296891	23	2.7	23	90	0	90	38	19	6	36	1.77
1297242--1297293	23	2.3	22	87	9	77	44	17	1	36	1.60
1297252--1297314	23	2.7	23	90	0	90	38	19	6	36	1.77
1297673--1297733	21	2.7	23	80	10	72	37	19	6	36	1.78
1298079--1298132	23	2.5	20	75	18	54	42	18	1	37	1.61
1298094--1298156	23	2.7	23	90	0	90	38	19	6	36	1.77
1294876--1298676	423	9.0	430	95	4	6921	38	13	8	39	1.75
1298519--1298577	19	2.8	21	75	15	59	38	16	6	37	1.76

Tables:   1   2   3   4   5

The End!