genome.fa.s8252.2.7.7.80.10.50.1000.6.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: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2928487

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1474 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)
1139799--1139848	19	2.6	19	93	0	82	30	2	10	58	1.42
1140191--1140959	199	3.9	199	93	2	1314	42	15	14	27	1.86
1140911--1141004	45	2.1	45	87	0	134	35	18	15	30	1.92
1141646--1141702	15	3.6	16	74	13	55	22	45	1	29	1.63
1143716--1143760	19	2.4	19	88	0	63	42	8	17	31	1.80
1144098--1146266	200	10.8	200	93	0	3635	43	14	14	27	1.85
1149286--1149330	23	2.0	23	95	0	81	37	20	8	33	1.83
1149225--1149391	87	1.9	87	97	0	316	31	14	11	41	1.83
1149309--1149428	64	1.9	64	98	0	231	30	13	14	42	1.83
1149932--1149959	3	9.3	3	100	0	56	32	0	0	67	0.91
1150644--1150687	23	1.9	23	100	0	88	43	4	29	22	1.73
1153346--1153375	12	2.5	12	94	0	51	60	10	30	0	1.30
1154260--1154359	40	2.5	40	90	0	146	36	21	10	33	1.86
1159235--1159264	15	2.0	15	93	0	51	50	20	10	20	1.76
1160016--1160066	17	3.0	16	76	21	50	43	0	1	54	1.11
1160006--1160075	19	3.7	19	84	5	81	45	0	1	52	1.09
1160123--1160163	21	2.0	21	90	0	64	36	12	7	43	1.70
1161685--1161746	22	2.9	22	79	13	76	43	4	3	48	1.40
1164902--1164926	13	1.9	13	100	0	50	44	0	0	56	0.99
1166815--1167051	49	4.8	49	85	1	314	42	13	18	25	1.87
1170998--1171059	3	20.0	3	74	12	54	40	0	1	58	1.08
1170992--1171027	18	2.0	18	94	0	63	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)
1177793--1177830	18	2.1	19	85	5	51	84	2	10	2	0.83
1182782--1182834	20	2.5	21	87	6	81	33	11	13	41	1.80
1183346--1183834	76	6.5	76	97	0	892	21	21	21	35	1.96
1183346--1183834	151	3.2	151	96	0	890	21	21	21	35	1.96
1183962--1184024	3	21.0	3	78	12	58	39	0	1	58	1.07
1183956--1183991	18	2.0	18	94	0	63	41	0	0	58	0.98
1183963--1184024	15	3.7	16	80	16	72	40	0	1	58	1.08
1190928--1191123	49	4.0	49	91	2	331	38	16	20	24	1.93
1190928--1191123	97	2.0	99	92	2	333	38	16	20	24	1.93
1200973--1201053	39	2.0	40	84	11	105	14	14	4	65	1.43
1206337--1206394	10	5.6	10	84	8	71	68	3	5	22	1.24
1206337--1206394	21	2.8	20	82	7	71	68	3	5	22	1.24
1206796--1206862	27	2.4	28	80	14	75	43	2	0	53	1.16
1206928--1206987	10	5.8	10	76	7	66	21	1	3	73	1.07
1206928--1206987	21	2.9	21	82	7	68	21	1	3	73	1.07
1209933--1210087	83	1.8	85	81	8	192	29	20	14	36	1.91
1209891--1210106	85	2.6	81	75	10	195	30	21	14	33	1.93
1216374--1216472	45	2.2	45	82	13	116	53	15	2	29	1.53
1219340--1219370	13	2.4	13	94	0	53	38	0	3	58	1.15
1220913--1220940	2	14.0	2	100	0	56	50	0	0	50	1.00
1221119--1221146	2	14.0	2	100	0	56	50	0	0	50	1.00
1226937--1226982	16	2.9	16	90	0	74	50	15	6	28	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228413--1228537	45	2.8	45	85	8	173	31	20	8	40	1.83
1228619--1228699	40	2.0	40	80	4	92	25	24	22	27	2.00
1235505--1235579	21	3.5	20	66	24	53	34	22	6	36	1.81
1235486--1235642	45	3.5	45	93	2	255	31	23	8	36	1.86
1235724--1235804	40	2.0	40	80	4	92	25	23	23	27	2.00
1236741--1236776	14	2.6	14	95	0	63	30	16	11	41	1.83
1238990--1239305	99	3.1	99	86	6	404	33	18	11	36	1.86
1239556--1240784	139	8.9	139	82	1	1400	32	27	16	23	1.96
1239556--1240782	545	2.2	549	86	2	1696	33	26	16	23	1.96
1241722--1241763	21	2.0	22	90	4	68	69	4	21	4	1.26
1243344--1243377	18	1.9	18	88	5	52	38	11	5	44	1.65
1265320--1265397	31	2.6	29	84	9	102	35	10	14	39	1.80
1265488--1265532	23	2.0	23	90	0	72	40	8	15	35	1.79
1267691--1267732	21	2.0	21	100	0	84	47	9	4	38	1.57
1269532--1269596	13	4.6	14	74	25	66	27	7	1	63	1.31
1269531--1269595	15	4.5	15	71	21	66	27	7	1	63	1.31
1269678--1269739	2	32.5	2	90	9	103	48	0	0	51	1.00
1269682--1269773	22	4.5	21	79	17	56	41	0	1	57	1.06
1269894--1269920	4	6.8	4	100	0	54	22	0	0	77	0.76
1272137--1272191	25	2.1	27	83	6	69	50	0	1	47	1.11
1275312--1275349	20	1.9	20	88	0	58	39	15	21	23	1.92
1276816--1276962	77	1.9	78	83	8	192	38	10	6	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279634--1279670	19	1.9	19	88	0	56	64	0	2	32	1.07
1292266--1292302	19	1.9	19	88	0	56	62	2	2	32	1.23
1294184--1294228	17	2.7	17	86	3	56	33	17	17	31	1.94
1295458--1295554	43	2.2	41	81	13	113	31	19	24	23	1.98
1295476--1295766	85	3.4	84	79	6	257	33	18	21	26	1.96
1295476--1295767	127	2.3	128	80	1	327	33	18	21	26	1.96
1295476--1295782	42	7.2	42	84	2	328	33	19	21	26	1.97
1299081--1299122	13	3.2	13	96	0	75	57	7	11	23	1.59
1300465--1300975	41	12.4	41	79	7	460	34	18	17	29	1.94
1300466--1300935	40	11.4	40	78	9	394	34	18	16	29	1.94
1309923--1310069	20	7.2	20	83	5	161	34	20	12	31	1.91
1309923--1310069	61	2.4	61	86	3	199	34	20	12	31	1.91
1311133--1311185	18	2.7	20	81	16	65	35	22	11	30	1.89
1314313--1314491	85	2.1	85	84	6	229	30	20	17	31	1.95
1320370--1320530	64	2.5	62	79	12	157	22	20	21	34	1.96
1325307--1325348	21	2.1	20	86	8	59	40	26	2	30	1.69
1331666--1331797	20	6.6	20	86	5	160	30	21	14	33	1.93
1331673--1331781	41	2.7	41	91	1	175	30	23	13	32	1.94
1335501--1335542	21	2.0	22	85	4	59	42	7	14	35	1.73
1335759--1335808	26	1.9	26	91	0	82	22	14	30	34	1.93
1342147--1342681	275	1.9	275	97	0	1007	39	8	8	43	1.66
1346779--1346866	33	2.6	34	84	13	103	64	12	3	19	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349075--1349142	28	2.5	29	79	11	81	63	1	0	35	1.04
1349098--1349151	21	2.6	21	80	16	60	62	5	0	31	1.18
1349065--1349141	16	4.4	17	68	16	50	64	1	0	33	1.01
1350525--1350564	17	2.3	18	86	4	55	17	25	15	42	1.88
1352738--1352867	56	2.3	55	76	7	129	36	6	13	43	1.70
1355113--1355153	20	2.0	20	100	0	82	48	24	0	26	1.51
1358737--1358951	37	5.6	37	69	17	107	43	5	9	41	1.59
1358809--1359028	37	6.1	35	79	14	225	45	3	8	43	1.51
1358900--1358994	12	8.0	12	67	15	54	42	2	10	45	1.50
1359084--1359115	2	16.0	2	100	0	64	50	0	0	50	1.00
1366527--1366605	28	2.8	27	69	14	70	20	7	1	70	1.18
1372489--1372735	85	2.9	85	87	0	341	36	20	16	26	1.93
1379106--1379209	51	2.0	51	84	5	136	31	18	5	44	1.73
1381876--1382037	12	13.0	12	64	21	66	43	2	7	46	1.45
1381858--1381997	75	1.9	71	88	5	208	46	3	5	44	1.44
1381857--1381996	37	3.8	37	83	6	167	47	2	5	44	1.41
1381959--1382024	25	2.6	25	85	2	96	45	3	7	43	1.47
1381926--1382055	62	2.2	59	87	6	181	43	1	8	46	1.43
1381884--1382069	100	1.9	97	85	8	259	44	2	7	45	1.46
1381984--1382095	35	3.1	36	79	15	108	42	3	9	43	1.55
1382215--1382259	17	2.6	17	89	0	72	15	2	0	82	0.77
1382394--1382438	12	3.8	12	88	5	56	42	4	11	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382025--1382670	347	1.9	337	90	5	1019	32	11	11	43	1.77
1383019--1383060	21	2.0	21	85	0	57	38	26	23	11	1.90
1384133--1384181	19	2.7	17	84	9	53	26	20	28	24	1.99
1384127--1384312	65	2.9	64	79	8	209	26	18	23	30	1.98
1384127--1384362	65	3.7	65	78	9	202	26	19	23	30	1.98
1390846--1390885	21	1.9	21	89	0	62	30	7	7	55	1.56
1394333--1394400	34	2.0	35	97	2	129	26	22	13	38	1.91
1396400--1396447	20	2.4	20	89	0	78	50	22	16	10	1.76
1397980--1398075	41	2.3	41	87	1	129	30	37	16	15	1.90
1398189--1398241	21	2.5	21	78	0	61	18	11	35	33	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13