genome.fa.s9625.2.7.7.80.10.50.1000.4.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   25   

This is table  4  of  25  ( 2922 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)
943508--943554	16	2.8	16	81	12	51	68	0	17	14	1.22
954084--954117	16	2.1	17	89	10	54	70	5	0	23	1.09
954176--954221	22	2.0	22	83	12	56	52	17	2	28	1.56
957998--958033	14	2.8	12	84	15	54	0	16	8	75	1.04
961033--961066	16	2.1	17	89	10	54	70	5	0	23	1.09
964968--964992	13	1.9	13	100	0	50	0	0	12	88	0.53
964945--964975	11	2.8	11	100	0	62	0	12	9	77	0.99
972990--973024	18	2.0	17	88	5	52	0	20	2	77	0.90
980335--980400	10	6.8	10	83	11	66	0	7	12	80	0.91
980334--980387	28	1.9	28	92	0	90	0	11	11	77	0.99
981763--981833	26	2.7	26	97	0	133	25	19	35	19	1.96
982557--982608	24	2.2	22	83	16	61	30	0	34	34	1.58
982558--982622	11	5.6	12	75	23	59	30	0	35	33	1.58
983698--983732	8	4.5	8	96	3	63	62	0	0	37	0.95
986980--987026	24	2.0	23	84	8	60	31	0	34	34	1.58
995206--995239	11	3.2	10	88	12	50	79	0	20	0	0.73
995206--995239	5	6.4	5	87	12	50	79	0	20	0	0.73
1010449--1010549	45	2.2	44	84	5	130	39	19	15	24	1.91
1013049--1014143	365	3.0	365	97	0	2048	42	11	16	29	1.83
1018787--1018855	18	3.7	19	73	9	70	76	2	17	2	1.03
1018788--1018855	15	4.9	14	71	18	52	76	2	17	2	1.04
1027427--1027495	33	2.1	33	83	5	86	30	34	1	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027851--1027880	12	2.4	12	94	5	51	76	0	23	0	0.78
1031862--1031965	33	3.1	33	82	9	95	30	36	1	30	1.69
1038874--1038945	31	2.4	31	83	2	101	25	25	13	36	1.93
1040745--1040790	23	2.0	23	83	8	58	36	6	8	47	1.60
1042400--1042449	17	3.0	16	82	5	64	72	6	18	4	1.22
1045342--1045387	23	2.0	23	83	8	58	36	6	8	47	1.60
1046892--1046950	31	1.9	31	92	0	100	37	15	20	27	1.92
1046891--1046956	31	2.1	31	85	0	96	34	15	25	24	1.94
1054324--1054362	12	3.6	12	80	19	50	17	43	7	30	1.77
1055260--1055305	24	1.9	24	81	0	56	28	26	15	30	1.96
1060010--1060060	20	2.6	20	96	3	95	19	3	39	37	1.70
1070778--1070837	24	2.6	24	79	12	72	65	10	15	10	1.48
1078967--1079023	16	3.7	15	75	20	55	14	17	0	68	1.21
1082208--1082304	36	2.7	35	80	4	113	29	32	6	30	1.82
1086149--1086191	23	1.9	21	81	13	50	34	13	18	32	1.90
1092738--1092767	5	6.0	5	100	0	60	80	0	20	0	0.72
1097079--1097124	6	8.2	6	76	13	53	2	15	0	82	0.76
1097081--1097127	11	4.3	11	83	0	67	2	12	0	85	0.70
1097061--1097127	33	2.0	33	83	11	84	4	16	1	77	1.00
1097075--1097127	22	2.4	22	87	6	72	1	16	0	81	0.79
1097081--1097132	14	3.7	13	80	14	59	1	13	1	82	0.84
1097293--1097332	19	2.0	20	90	4	64	65	0	15	20	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117553--1117603	19	2.6	20	84	3	68	41	5	15	37	1.72
1121643--1122819	590	2.0	586	96	1	2185	28	25	19	27	1.98
1122865--1122916	21	2.6	21	90	6	81	34	13	5	46	1.67
1123574--1123631	10	5.9	10	74	10	57	82	3	10	3	0.90
1123569--1123631	18	3.3	18	71	20	56	80	4	11	3	0.97
1123580--1123620	14	2.9	14	76	23	50	80	4	9	4	1.00
1131553--1131595	23	1.9	21	81	13	50	32	18	13	34	1.90
1132753--1133124	188	2.0	184	96	3	692	32	18	22	26	1.97
1138012--1138068	24	2.4	23	74	5	69	61	15	15	7	1.54
1143834--1143882	22	2.2	22	96	0	89	32	10	18	38	1.84
1148711--1148759	18	2.8	17	78	6	53	4	14	2	79	0.97
1158842--1158884	23	1.9	21	81	13	50	32	18	11	37	1.87
1161539--1161598	24	2.6	24	82	12	81	65	10	16	8	1.47
1164339--1164368	13	2.4	13	94	5	53	43	0	30	26	1.55
1180419--1180522	33	3.1	33	82	9	95	30	36	1	30	1.69
1184348--1184451	33	3.1	33	82	9	95	30	36	1	30	1.69
1186715--1186814	35	2.8	36	87	3	141	31	3	36	30	1.73
1187152--1187189	20	1.9	20	88	0	58	42	7	7	42	1.63
1187153--1187195	19	2.2	20	83	4	52	46	6	9	37	1.63
1187889--1187927	20	1.9	21	84	5	53	48	7	17	25	1.74
1195556--1195598	23	1.9	21	81	13	50	34	13	18	32	1.90
1207110--1207156	21	2.2	21	85	14	62	80	6	12	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207109--1207153	23	1.9	24	90	4	74	80	6	13	0	0.91
1216712--1216768	16	3.7	15	75	20	55	14	17	0	68	1.21
1219996--1220039	22	2.0	23	95	4	81	31	34	4	29	1.78
1228875--1228917	6	7.2	6	80	19	54	2	13	0	83	0.74
1228872--1228918	19	2.5	18	86	10	67	2	14	0	82	0.75
1228861--1228920	30	2.0	30	83	9	77	5	15	1	78	1.00
1229140--1229179	19	2.0	20	90	4	64	65	0	15	20	1.28
1243706--1243745	20	1.9	20	85	10	53	32	7	32	27	1.85
1245080--1245109	13	2.4	13	94	5	53	26	30	0	43	1.55
1249262--1249301	20	1.9	20	85	10	53	32	7	32	27	1.85
1258176--1258218	23	1.9	21	81	13	50	32	18	11	37	1.87
1261300--1261349	19	2.5	21	87	6	68	46	6	12	36	1.66
1263322--1263619	150	2.0	150	97	0	560	34	20	12	32	1.90
1263691--1263744	22	2.3	23	78	12	58	12	18	11	57	1.64
1265390--1265449	30	2.0	31	83	3	77	51	10	10	28	1.67
1269366--1269421	20	2.8	20	100	0	112	41	5	14	39	1.68
1278557--1278595	12	3.6	12	80	19	50	30	7	43	17	1.77
1285256--1285296	16	2.6	16	88	0	55	17	9	2	70	1.25
1285652--1285709	8	6.8	8	74	14	53	79	10	8	1	1.01
1291455--1291480	10	2.6	10	100	0	52	0	26	0	73	0.84
1298044--1298077	15	2.3	15	89	0	50	41	8	5	44	1.60
1298277--1298341	21	3.0	22	80	6	62	0	13	13	72	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298296--1298358	8	8.0	8	76	13	51	0	9	11	79	0.94
1298304--1298332	13	2.2	13	100	0	58	0	13	6	79	0.93
1298295--1298354	22	2.8	20	78	14	66	0	10	10	80	0.92
1310191--1310243	23	2.2	24	90	3	81	9	16	11	62	1.54
1315787--1315822	18	2.1	18	89	5	56	0	19	0	80	0.71
1315789--1315833	23	2.0	23	82	8	56	0	15	4	80	0.87
1317662--1317700	20	2.0	19	85	5	51	46	10	12	30	1.75
1318538--1318581	22	2.0	23	95	4	81	13	15	13	56	1.67
1320513--1320567	25	2.1	25	90	6	83	63	0	21	14	1.30
1320535--1320619	40	2.1	40	93	0	143	57	0	21	21	1.41
1320523--1320603	25	3.2	25	77	18	71	61	0	22	16	1.34
1320526--1320619	15	6.6	15	72	19	67	58	0	22	19	1.39
1322672--1322726	20	2.8	20	86	8	69	74	3	14	7	1.17
1333306--1333356	9	5.8	9	86	6	52	84	9	5	0	0.78
1333316--1333356	11	3.6	11	87	12	57	87	9	2	0	0.62
1333317--1333349	14	2.4	14	94	0	57	90	6	3	0	0.52
1334953--1334988	15	2.4	15	90	0	54	44	0	5	50	1.25
1339229--1339264	15	2.4	15	90	0	54	44	0	5	50	1.25
1340293--1341196	451	2.0	451	99	0	1799	25	25	11	37	1.90
1345965--1346069	47	2.2	47	96	0	192	22	22	0	54	1.45
1351899--1351953	24	2.3	25	81	6	60	32	16	21	29	1.95
1353437--1353505	33	2.1	33	83	5	86	31	1	36	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357369--1357437	33	2.1	33	83	5	86	31	1	36	30	1.67
1364633--1364738	36	3.0	36	88	2	153	32	3	32	32	1.76
1370357--1370461	36	2.9	36	94	1	176	29	4	35	30	1.78
1378308--1378348	21	2.0	21	90	9	66	39	12	4	43	1.63
1381366--1381762	219	1.8	219	96	1	742	45	16	8	29	1.77
1383587--1383645	24	2.5	24	75	5	57	32	22	23	22	1.98
1384783--1384822	17	2.3	18	86	4	55	47	17	22	12	1.81
1384878--1384952	34	2.2	34	95	0	132	36	10	14	38	1.81
1398685--1398724	19	2.0	20	90	4	64	20	15	0	65	1.28
1399007--1399037	16	1.9	16	93	0	53	74	3	16	6	1.16

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   25