genome.fa.s9603.2.7.7.80.10.50.1000.6.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: VEPZ01009603.1 Hibiscus syriacus cultivar Beakdansim tig00116983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1462390

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 823 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)
1103666--1103787	64	1.9	64	83	6	158	24	18	22	33	1.97
1109717--1109787	18	3.9	18	90	0	97	32	32	16	18	1.94
1110350--1110513	64	2.6	65	83	5	174	26	20	20	31	1.98
1111774--1111822	23	2.2	23	85	7	66	77	4	6	12	1.09
1113375--1113400	2	13.0	2	100	0	52	50	0	0	50	1.00
1115409--1115453	18	2.4	18	88	3	63	48	8	13	28	1.72
1115477--1115547	29	2.4	30	76	4	83	32	18	8	40	1.80
1115521--1115727	103	2.0	103	100	0	414	30	17	10	41	1.83
1122669--1122774	36	2.9	37	90	2	162	42	11	9	36	1.73
1123473--1123513	3	13.7	3	94	0	73	31	0	2	65	1.05
1123472--1123527	9	5.6	10	82	17	64	28	1	1	67	1.10
1125319--1125363	22	2.0	22	100	0	90	33	17	17	31	1.94
1126507--1126549	12	3.6	12	81	6	52	81	4	11	2	0.93
1126502--1126560	20	3.0	20	74	13	52	77	6	11	3	1.07
1127651--1127714	32	2.0	32	87	0	92	31	12	20	35	1.90
1128238--1128532	110	2.7	110	94	0	509	35	23	16	25	1.95
1129670--1129775	37	2.9	37	95	0	185	38	13	12	35	1.82
1130154--1130204	18	2.8	18	77	22	61	21	1	1	74	1.02
1130232--1130286	24	2.6	21	76	20	60	20	9	0	70	1.13
1130226--1130322	42	2.3	42	80	10	108	23	10	1	64	1.30
1130365--1130424	2	31.5	2	83	9	81	43	0	0	56	0.99
1130353--1130424	29	2.5	29	78	10	85	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130502--1130617	42	2.8	41	78	13	112	18	5	0	75	1.05
1130470--1130572	13	7.9	12	70	17	55	20	3	0	74	1.03
1130485--1130626	21	7.0	20	72	16	89	19	4	0	74	1.04
1130587--1130689	15	6.9	15	70	20	56	22	3	1	71	1.12
1130440--1130629	19	9.6	19	69	18	79	20	5	1	73	1.10
1130451--1130663	6	29.3	7	68	25	56	22	5	1	70	1.16
1130592--1130651	19	3.3	18	75	11	59	25	1	3	70	1.12
1130452--1130663	10	21.8	10	69	23	68	22	5	1	70	1.16
1130650--1130702	17	2.9	17	80	8	61	18	9	0	71	1.12
1130650--1130707	16	3.1	18	76	19	57	18	8	0	72	1.10
1139497--1139530	16	2.1	16	94	0	59	20	8	0	70	1.13
1149531--1149581	24	2.1	24	88	0	75	39	13	15	31	1.87
1159416--1159449	12	2.8	12	95	0	59	8	61	8	20	1.52
1160852--1160903	19	2.7	20	93	3	88	26	23	21	28	1.99
1163435--1163553	63	1.9	63	84	3	159	42	6	9	42	1.63
1165918--1166401	241	2.0	242	98	1	945	32	10	16	40	1.83
1168811--1168958	75	2.0	74	93	6	255	29	28	14	28	1.95
1174589--1174630	16	2.9	14	85	7	57	16	50	0	33	1.46
1184457--1184524	3	22.0	3	82	8	75	36	1	1	60	1.15
1185431--1185486	8	7.1	8	73	18	55	25	3	0	71	1.02
1185421--1185484	17	3.8	17	73	19	53	28	4	0	67	1.11
1185497--1185522	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185746--1185803	29	2.0	28	81	15	66	51	1	1	44	1.21
1195716--1195770	22	2.5	22	93	0	101	34	10	14	40	1.81
1196647--1197361	73	9.8	73	93	1	1213	30	17	13	39	1.88
1196647--1197361	218	3.3	218	93	1	1229	30	17	13	39	1.88
1196643--1197361	291	2.5	291	96	0	1298	30	17	13	38	1.88
1197758--1197823	3	22.0	3	79	11	73	36	1	1	60	1.15
1199144--1199178	17	2.0	17	88	5	52	28	5	0	65	1.15
1199436--1199493	29	2.0	28	81	15	66	51	1	1	44	1.21
1202007--1202065	25	2.4	25	97	0	109	57	3	5	33	1.37
1202264--1202311	25	1.9	25	91	0	78	56	4	4	35	1.38
1202318--1202414	38	2.6	38	89	0	158	30	10	16	42	1.82
1202318--1202431	38	3.0	38	84	5	149	30	8	19	41	1.82
1204737--1204863	27	4.7	27	87	0	164	40	2	14	42	1.58
1204889--1204954	27	2.4	27	92	0	114	40	3	16	39	1.64
1206806--1207220	111	3.7	111	94	0	715	33	14	18	33	1.92
1214325--1214389	23	2.8	23	81	4	78	29	23	27	20	1.98
1214632--1214680	13	3.5	13	75	20	53	24	28	10	36	1.88
1214638--1214690	16	3.4	16	75	19	67	26	26	13	33	1.93
1214633--1214702	30	2.3	30	95	0	122	28	27	11	32	1.91
1214646--1214699	17	3.4	17	73	19	62	29	24	12	33	1.92
1216147--1216221	39	1.9	39	100	0	150	33	20	12	34	1.89
1216371--1217067	348	2.0	348	97	1	1319	29	19	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219363--1219392	15	2.0	15	100	0	60	86	0	6	6	0.70
1229454--1229483	15	2.0	15	93	0	51	70	6	3	20	1.25
1231618--1231824	64	3.3	63	77	11	201	28	26	16	27	1.97
1233639--1233973	170	2.0	167	95	4	615	31	22	5	40	1.78
1234303--1234343	11	3.5	12	80	12	50	12	26	0	60	1.31
1236280--1236331	21	2.4	21	80	6	59	32	23	5	38	1.78
1236319--1236367	13	3.5	13	75	20	53	24	28	10	36	1.88
1236325--1236377	16	3.4	16	75	19	67	26	26	13	33	1.93
1236320--1236389	30	2.3	30	95	0	122	28	27	11	32	1.91
1236333--1236386	17	3.4	17	73	19	62	29	24	12	33	1.92
1238931--1238956	2	13.0	2	100	0	52	50	0	0	50	1.00
1242334--1242521	100	1.9	100	81	8	231	54	11	3	30	1.52
1243305--1243343	21	1.9	20	89	5	60	25	0	5	69	1.09
1243752--1244080	163	2.0	165	98	1	635	43	17	5	33	1.72
1244981--1245063	41	2.0	42	95	2	150	31	10	4	53	1.57
1250640--1250674	18	1.9	18	88	0	52	0	25	2	71	1.00
1252558--1252586	2	14.5	2	100	0	58	48	0	0	51	1.00
1252807--1252837	2	15.5	2	100	0	62	48	0	0	51	1.00
1253699--1253796	3	32.7	3	100	0	196	33	0	0	66	0.92
1254940--1254966	14	1.9	14	100	0	54	7	7	29	55	1.55
1254947--1255002	24	2.3	24	87	0	76	10	14	21	53	1.70
1254947--1255015	24	2.9	24	84	4	68	13	13	18	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255753--1255819	16	4.3	16	92	3	111	11	10	17	59	1.60
1255881--1255913	16	2.1	16	100	0	66	6	12	24	57	1.57
1256758--1256791	16	2.1	16	94	0	59	11	23	5	58	1.55
1264704--1264749	20	2.4	21	79	17	55	32	15	21	30	1.94
1266534--1266607	30	2.5	30	84	0	94	28	12	21	37	1.89
1266539--1266607	15	4.6	15	71	7	59	27	11	21	39	1.88
1266715--1266776	23	2.7	23	84	2	88	19	29	20	30	1.97
1266715--1266783	24	2.9	24	75	10	70	21	27	21	28	1.99
1266782--1266830	24	2.1	23	84	3	62	20	22	22	34	1.97
1272866--1272910	20	2.2	20	84	11	56	35	11	22	31	1.89
1273400--1273476	15	5.1	15	80	0	91	24	9	25	40	1.85
1273581--1273689	23	4.7	23	73	14	80	19	22	22	35	1.96
1278648--1278686	16	2.4	16	83	8	53	79	0	2	17	0.84
1279145--1279256	60	1.9	58	85	10	156	60	1	3	33	1.24
1279224--1279259	18	2.1	18	89	5	56	66	2	5	25	1.27
1280262--1280892	105	6.0	105	90	2	932	21	17	26	34	1.96
1281092--1281167	36	2.1	36	90	0	116	40	15	21	22	1.90
1281284--1281362	39	2.0	39	82	0	95	35	16	18	29	1.93
1281070--1281358	101	2.8	103	90	5	464	36	13	20	29	1.91
1281364--1281535	70	2.4	71	83	7	195	40	13	18	28	1.88
1281405--1281515	35	3.2	34	70	10	89	43	13	17	26	1.86
1282652--1283182	181	2.9	182	92	3	878	30	20	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283253--1283653	198	2.0	199	99	0	786	28	23	13	34	1.92
1285204--1285265	18	3.3	18	75	20	72	19	24	29	27	1.98
1290075--1290144	18	3.7	18	76	14	77	18	24	32	24	1.97
1294062--1294099	2	19.0	2	94	0	67	52	0	0	47	1.00
1294291--1294336	12	3.6	13	80	11	51	71	0	4	23	1.03
1294464--1294566	44	2.3	44	83	8	120	58	0	3	36	1.23
1294574--1294615	17	2.5	17	84	3	59	66	2	4	26	1.23
1294968--1295072	37	2.8	37	86	0	138	29	13	15	41	1.85
1303346--1303399	23	2.3	23	87	0	72	35	25	20	18	1.95
1305095--1305141	21	2.2	21	96	0	85	19	29	21	29	1.97

Tables:   1   2   3   4   5   6   7