genome.fa.s8716.2.7.7.80.10.50.1000.5.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  5  of  24  ( 2813 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)
1121797--1121886	44	2.0	44	100	0	180	15	11	15	57	1.64
1123656--1123697	21	2.0	21	90	0	66	38	9	14	38	1.78
1128121--1128163	21	2.0	21	86	0	59	46	9	16	27	1.77
1128151--1128187	14	2.5	15	86	8	58	35	8	18	37	1.81
1128385--1128456	24	3.1	25	69	13	64	47	0	0	52	1.00
1128516--1128561	21	2.2	20	80	3	56	45	2	2	50	1.26
1128525--1128569	21	2.1	21	83	0	54	51	2	2	44	1.26
1128526--1128633	52	2.1	50	80	10	121	51	1	0	45	1.18
1128565--1128616	23	2.3	22	80	6	59	46	1	0	51	1.12
1128617--1128704	46	1.9	45	81	9	106	51	1	1	46	1.15
1128665--1128706	18	2.2	20	79	12	52	45	0	0	54	0.99
1128671--1128707	18	2.0	19	89	5	58	51	0	0	48	1.00
1128643--1128708	27	2.4	27	82	12	73	46	0	1	51	1.10
1128904--1129020	42	2.8	42	93	0	189	46	17	18	17	1.85
1135390--1135486	49	2.0	46	90	5	149	24	18	18	38	1.93
1136543--1136580	19	2.0	19	89	0	58	26	26	15	31	1.96
1136634--1136700	21	3.2	21	64	19	59	16	20	25	37	1.93
1136589--1136705	41	2.9	41	91	5	191	17	18	24	39	1.92
1136778--1136810	6	5.7	6	89	3	50	30	48	18	3	1.63
1137635--1137809	20	8.6	20	68	19	112	40	23	22	13	1.89
1137655--1137766	21	5.4	21	64	19	74	38	25	20	16	1.92
1137632--1137786	41	3.8	41	94	0	274	40	23	21	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137635--1137809	82	2.1	81	86	5	228	40	23	22	13	1.89
1146011--1146048	20	2.0	19	90	10	60	47	10	23	18	1.79
1155553--1155600	23	2.1	23	88	0	69	35	12	18	33	1.89
1156027--1156089	23	2.7	23	92	0	99	38	20	4	36	1.74
1155667--1156721	429	2.5	429	97	0	1986	38	11	7	41	1.71
1156456--1156518	23	2.7	23	92	0	99	38	20	4	36	1.74
1156930--1157015	39	2.2	39	91	0	136	18	12	18	50	1.78
1157274--1157310	18	2.1	18	89	0	56	51	10	5	32	1.60
1157559--1157609	25	2.0	25	92	0	84	39	19	7	33	1.81
1157878--1157929	23	2.3	22	90	6	77	44	19	1	34	1.62
1157888--1157950	23	2.7	23	90	0	90	38	19	6	36	1.77
1159268--1159310	20	2.3	18	85	14	61	20	16	11	51	1.75
1159273--1159319	20	2.4	19	82	10	67	19	17	10	53	1.72
1159440--1159485	20	2.3	20	89	10	76	17	17	10	54	1.70
1159551--1159999	229	2.0	228	95	0	808	39	7	8	44	1.62
1166362--1166394	6	5.7	6	89	3	50	33	27	0	39	1.57
1175862--1175910	21	2.2	22	82	10	64	28	22	8	40	1.82
1185475--1185499	2	12.5	2	100	0	50	52	0	0	48	1.00
1187800--1187849	25	2.0	25	100	0	100	40	20	16	24	1.91
1190325--1190403	33	2.4	32	77	6	86	27	8	25	37	1.86
1190409--1190481	33	2.2	34	95	2	130	10	6	36	45	1.66
1190993--1191037	18	2.7	16	79	6	54	31	28	4	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192821--1192894	9	8.8	9	73	19	61	43	0	0	56	0.99
1192822--1192898	24	3.1	24	83	10	93	40	0	0	59	0.97
1192833--1192897	34	1.9	33	90	3	103	40	0	0	60	0.97
1194560--1194613	23	2.5	22	76	8	65	40	3	1	53	1.29
1195826--1195907	27	3.0	27	72	13	78	34	4	3	57	1.38
1195826--1195929	54	1.9	54	84	3	138	36	3	4	54	1.40
1197358--1197389	2	16.0	2	100	0	64	50	0	0	50	1.00
1200873--1200901	14	2.0	15	93	6	51	48	0	0	51	1.00
1200873--1200902	15	2.0	15	93	0	51	50	0	0	50	1.00
1232278--1232343	31	2.1	31	94	0	114	36	13	25	24	1.92
1236036--1236077	14	3.0	14	100	0	84	7	28	42	21	1.79
1236016--1236049	10	3.4	10	84	15	52	8	29	38	23	1.85
1241945--1241976	10	3.2	10	90	0	55	78	0	0	21	0.76
1241942--1241980	13	3.0	13	85	11	53	76	0	0	23	0.78
1243033--1243068	2	18.0	2	100	0	72	50	0	0	50	1.00
1243228--1243269	18	2.3	18	80	8	50	61	2	0	35	1.09
1245556--1245607	16	3.2	16	77	2	59	42	0	0	57	0.98
1245729--1245790	16	3.8	16	78	2	61	38	0	1	59	1.07
1248952--1248988	3	12.3	3	100	0	74	67	0	0	32	0.91
1250497--1250552	27	2.1	27	82	0	67	60	1	7	30	1.33
1262225--1262257	7	4.7	7	100	0	66	45	39	0	15	1.46
1262218--1262257	14	2.9	14	92	0	53	47	35	0	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262218--1262257	21	1.9	21	89	0	62	47	35	0	17	1.48
1266306--1266375	31	2.3	31	82	0	77	41	14	7	37	1.73
1275993--1276148	77	2.0	78	89	2	242	39	5	15	39	1.71
1277296--1277347	21	2.5	21	93	0	86	25	11	17	46	1.81
1277376--1277530	83	1.9	83	90	0	247	32	13	18	35	1.90
1278651--1278688	13	2.9	13	85	11	51	76	0	5	18	0.97
1278849--1279265	205	2.0	207	94	1	730	57	4	7	30	1.48
1279112--1279149	8	5.0	8	87	9	53	52	7	0	39	1.31
1279752--1280412	105	6.3	105	97	0	1196	33	25	18	23	1.97
1281625--1282035	202	2.0	199	91	5	666	29	7	4	57	1.48
1282188--1282229	13	3.2	13	83	6	57	19	4	0	76	0.96
1284092--1284129	13	2.9	13	85	11	51	76	0	5	18	0.97
1284260--1284312	18	2.8	19	78	13	65	71	0	3	24	1.02
1284290--1284691	198	2.0	200	90	5	645	56	4	8	30	1.50
1285901--1286560	105	6.3	105	97	0	1187	23	18	25	33	1.97
1285901--1286560	314	2.1	315	95	0	1187	23	18	25	33	1.97
1287353--1287394	15	2.8	15	100	0	84	9	11	0	78	0.96
1298120--1298183	18	3.6	18	77	10	69	73	0	3	23	0.97
1298150--1298554	200	2.0	201	90	5	651	57	4	7	30	1.48
1303120--1303156	17	2.2	17	90	0	56	37	2	13	45	1.58
1310918--1310958	18	2.3	18	91	4	66	63	2	4	29	1.28
1311006--1311039	10	3.4	10	83	0	50	41	2	26	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312671--1312698	2	14.0	2	100	0	56	50	0	0	50	1.00
1315502--1315526	12	2.1	12	100	0	50	52	0	0	48	1.00
1323213--1323248	18	2.0	18	100	0	72	22	5	22	50	1.70
1323530--1323568	19	2.1	19	100	0	78	51	10	10	28	1.68
1326769--1326806	18	2.1	19	90	5	60	44	2	23	28	1.67
1327677--1327735	2	29.5	2	100	0	118	49	0	0	50	1.00
1333706--1333842	64	2.2	64	91	1	222	40	9	14	35	1.79
1334123--1334160	16	2.3	16	90	4	58	39	5	10	44	1.61
1335051--1335092	17	2.5	17	92	3	68	57	0	0	42	0.99
1335063--1335107	23	2.0	23	86	0	63	57	0	0	42	0.98
1341286--1341332	16	2.9	16	87	3	58	40	4	0	55	1.19
1341251--1341538	18	16.7	18	65	19	53	39	2	0	57	1.15
1341438--1341528	30	3.0	29	83	15	96	38	1	0	60	1.04
1341238--1341704	158	2.9	158	92	3	776	39	2	0	56	1.18
1341613--1341693	3	27.3	3	74	18	55	37	0	0	62	0.95
1341608--1341691	9	9.7	9	76	19	65	36	0	0	63	0.95
1341608--1341710	24	4.4	25	72	22	64	36	0	0	62	1.02
1345110--1345221	53	2.0	54	89	8	172	33	17	13	34	1.89
1348218--1348269	22	2.4	22	96	0	95	30	9	17	42	1.81
1352047--1352078	16	1.9	17	93	6	57	28	18	0	53	1.45
1356966--1357007	23	1.9	21	90	9	66	40	2	0	57	1.12
1362087--1362121	18	1.9	18	88	0	52	28	17	0	54	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363218--1363255	7	5.1	7	87	12	58	26	26	34	13	1.93
1363218--1363289	8	9.4	8	76	18	73	22	25	37	15	1.93
1363218--1363255	15	2.5	15	100	0	76	26	26	34	13	1.93
1363245--1363307	13	4.5	13	78	18	72	17	22	44	15	1.86
1363256--1363290	18	1.9	18	94	0	61	17	22	42	17	1.88
1363230--1363325	31	3.2	30	85	7	124	18	21	43	15	1.87
1363284--1363327	18	2.4	18	100	0	88	13	18	52	15	1.75
1367078--1367112	18	1.9	18	88	0	52	28	17	0	54	1.43
1368209--1368246	7	5.1	7	87	12	58	26	26	34	13	1.93
1368209--1368280	8	9.4	8	76	18	73	22	25	37	15	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24