genome.fa.s4507.2.7.7.80.10.50.1000.6.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: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1776135

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 904 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)
1088601--1088646	7	6.7	7	87	12	69	17	0	0	82	0.67
1088600--1088645	19	2.5	19	83	16	69	17	0	0	82	0.67
1089512--1089561	22	2.3	21	86	10	66	40	2	2	56	1.22
1090272--1090313	17	2.4	18	88	4	59	23	7	7	61	1.47
1094249--1094516	143	1.9	142	88	3	409	35	16	13	34	1.87
1098566--1098616	3	17.0	3	95	0	93	35	0	0	64	0.94
1099118--1099342	117	1.9	119	82	9	289	45	11	15	28	1.79
1101333--1101377	23	2.0	23	95	0	81	62	15	8	13	1.54
1109651--1109698	24	2.0	24	100	0	96	41	4	20	33	1.72
1115257--1115302	19	2.3	20	75	17	51	39	2	0	58	1.10
1123758--1124435	198	3.4	199	85	3	852	40	13	12	32	1.83
1124535--1124594	25	2.3	26	82	5	77	41	10	3	45	1.54
1128578--1128963	193	2.0	193	97	0	736	20	16	29	32	1.95
1129761--1129916	80	2.0	80	94	0	276	46	8	13	31	1.74
1130062--1130579	260	2.0	250	89	6	778	31	16	14	37	1.89
1134737--1135368	200	3.2	200	93	1	1025	31	18	14	36	1.90
1135606--1135655	19	2.6	19	93	0	82	58	10	2	30	1.42
1137520--1137582	21	3.0	21	92	0	99	17	30	11	41	1.84
1140524--1140586	21	3.0	21	90	0	90	41	9	30	19	1.83
1142467--1142515	19	2.6	19	96	0	89	32	2	10	55	1.45
1144196--1144597	183	2.2	182	90	2	617	35	14	15	35	1.87
1144479--1144717	120	2.0	120	94	0	424	32	13	15	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144292--1145188	302	3.0	303	95	0	1616	34	13	15	35	1.88
1144781--1145023	120	2.0	120	94	0	423	33	13	14	38	1.85
1147766--1148015	87	2.9	87	96	0	446	33	14	9	43	1.77
1147850--1147894	23	2.0	23	86	0	63	37	15	8	37	1.79
1147937--1147981	23	2.0	23	86	0	63	37	15	8	37	1.79
1154934--1154999	29	2.3	29	100	0	132	16	6	6	71	1.27
1155680--1155706	2	13.5	2	100	0	54	51	0	0	48	1.00
1155767--1155815	20	2.5	20	83	3	64	36	2	6	55	1.37
1156012--1156104	27	3.4	28	75	8	93	50	10	6	32	1.63
1157025--1157135	31	3.6	31	90	0	177	53	16	9	21	1.70
1157637--1157680	21	2.1	21	83	8	54	52	2	0	45	1.13
1160895--1160952	23	2.5	22	86	8	80	46	22	10	20	1.81
1173320--1173367	14	3.5	14	97	2	89	43	8	6	41	1.60
1176444--1176503	29	2.1	29	96	0	111	35	11	28	25	1.91
1176514--1176543	7	4.3	7	91	0	51	46	0	36	16	1.47
1180668--1180709	21	1.9	23	90	9	70	42	7	16	33	1.75
1184921--1184992	2	36.5	2	97	2	137	48	0	0	51	1.00
1185601--1185634	14	2.4	15	85	14	54	0	64	0	35	0.94
1187547--1187585	20	1.9	21	89	5	62	48	7	0	43	1.31
1187547--1187591	20	2.3	20	80	3	56	51	6	0	42	1.28
1190360--1190452	21	4.6	20	78	4	96	38	18	24	18	1.92
1190360--1190452	20	4.6	20	78	4	96	38	18	24	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190358--1190452	41	2.3	41	98	0	181	38	17	24	18	1.92
1190379--1190513	41	3.3	41	81	6	123	37	20	21	20	1.94
1190441--1190535	20	4.7	20	80	2	91	34	24	17	23	1.96
1190720--1190763	22	2.0	22	95	0	79	20	45	15	18	1.85
1192375--1192419	18	2.5	18	85	0	63	26	42	15	15	1.87
1192892--1192958	20	3.4	20	81	2	73	38	23	22	14	1.92
1192947--1193005	15	3.9	14	77	18	64	49	25	16	8	1.74
1192931--1193022	33	2.8	34	93	5	161	47	22	18	10	1.79
1193039--1193096	14	3.9	14	79	16	71	8	17	25	48	1.75
1193034--1193112	32	2.4	33	95	2	142	10	18	24	46	1.80
1193053--1193170	20	6.4	19	77	11	95	13	19	24	42	1.87
1193034--1193170	39	3.9	37	78	10	105	12	18	24	43	1.85
1195144--1195219	14	4.7	15	74	25	59	44	19	22	13	1.85
1195154--1195219	17	3.9	18	79	20	88	45	18	22	13	1.84
1195125--1195219	50	1.9	50	91	0	154	42	21	23	13	1.88
1195245--1195295	20	2.5	20	96	0	93	21	23	21	33	1.97
1195634--1195669	14	2.6	14	90	0	54	30	0	22	47	1.52
1196908--1196961	24	2.2	24	83	0	63	25	16	16	40	1.89
1199407--1199499	32	2.8	33	98	1	179	44	19	23	12	1.85
1199503--1199542	19	2.2	19	90	4	64	15	17	20	47	1.83
1201044--1201110	21	3.2	21	68	4	55	19	20	35	23	1.95
1201044--1201166	42	2.9	41	80	7	113	22	17	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201479--1201524	18	2.6	18	100	0	92	41	0	21	36	1.54
1203165--1203243	39	2.1	38	90	2	122	46	17	22	12	1.82
1203165--1203243	19	4.1	19	90	3	122	46	17	22	12	1.82
1203239--1203302	18	3.4	18	82	8	74	10	18	26	43	1.83
1203250--1203308	20	3.1	18	83	9	73	11	22	22	44	1.85
1203817--1203910	20	4.7	20	80	2	89	23	18	24	34	1.96
1203838--1203971	41	3.3	41	80	4	119	20	21	20	37	1.95
1203899--1203973	21	3.6	21	80	3	98	20	25	17	37	1.94
1207009--1207055	20	2.3	20	85	7	60	29	0	6	63	1.19
1216839--1216891	25	2.1	26	96	3	99	33	0	13	52	1.40
1217355--1217387	2	16.5	2	100	0	66	48	0	0	51	1.00
1218685--1218715	11	2.8	11	90	0	53	0	9	0	90	0.46
1220838--1220882	24	1.9	23	86	4	63	51	2	6	40	1.41
1228581--1228627	18	2.7	18	86	3	60	34	8	27	29	1.87
1230019--1230074	26	2.2	26	83	3	69	58	0	1	39	1.08
1230061--1230155	28	3.6	27	79	11	115	47	3	2	47	1.30
1230398--1230521	39	3.2	39	74	10	119	48	2	13	35	1.56
1235401--1235485	23	3.7	23	85	1	98	55	14	20	10	1.68
1235732--1235770	2	19.5	2	100	0	78	51	0	0	48	1.00
1258550--1258597	16	2.9	17	78	6	62	64	2	2	31	1.16
1268771--1268805	2	17.5	2	100	0	70	48	0	0	51	1.00
1274479--1274604	57	2.2	57	87	2	173	38	17	5	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275937--1276060	62	2.0	62	98	0	239	45	7	9	37	1.65
1276124--1276287	74	2.2	68	75	18	157	25	12	14	48	1.78
1285726--1285913	96	2.0	96	90	0	295	34	26	15	23	1.95
1298419--1298472	19	2.8	19	80	5	65	46	3	0	50	1.19
1298612--1298657	19	2.4	19	85	7	58	45	0	0	54	0.99
1298940--1299016	29	2.6	30	89	2	111	38	12	7	40	1.73
1299719--1299789	35	2.0	35	94	0	124	30	7	23	38	1.82
1299776--1299810	4	8.8	4	87	0	52	25	5	22	45	1.74
1299776--1299810	16	2.2	16	100	0	70	25	5	22	45	1.74
1301534--1301576	17	2.5	17	80	3	50	6	13	11	67	1.41
1301587--1301645	3	20.0	3	89	3	93	66	3	0	30	1.08
1303222--1303294	27	2.7	27	97	2	137	54	2	4	38	1.34
1303327--1303366	20	2.0	20	85	4	55	45	2	10	42	1.51
1311157--1311181	2	12.5	2	100	0	50	52	0	0	48	1.00
1312542--1312625	31	2.8	31	81	3	100	45	11	10	32	1.75
1317060--1317335	135	2.0	135	92	0	462	24	23	17	34	1.96
1318859--1318969	57	1.9	57	88	0	168	35	31	11	21	1.90
1330474--1330538	6	10.8	6	88	0	85	1	26	49	23	1.59
1332574--1332667	31	3.0	31	93	0	161	30	27	7	34	1.84
1334707--1334751	19	2.4	19	100	0	90	44	15	0	40	1.47
1335860--1335917	19	3.1	19	97	0	107	27	13	0	58	1.36
1337190--1337248	21	2.8	21	78	0	73	10	27	40	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347412--1347794	191	2.0	191	97	2	734	36	18	20	25	1.95
1349005--1349060	28	2.0	29	89	3	87	32	17	17	32	1.94
1349057--1349150	37	2.6	37	81	9	97	37	13	20	28	1.91
1351660--1351710	3	17.7	3	84	15	72	29	0	1	68	1.00
1351660--1351701	20	2.1	20	95	0	75	30	0	0	69	0.89
1351658--1351709	23	2.3	23	87	9	79	28	0	1	69	0.99
1357037--1357103	30	2.2	30	94	0	116	28	23	14	32	1.95
1361270--1361311	20	2.2	19	87	8	59	40	7	26	26	1.81
1368534--1368566	16	2.0	17	88	5	50	36	0	0	63	0.95
1370251--1370298	24	2.1	23	88	11	73	54	0	0	45	0.99

Tables:   1   2   3   4   5   6   7   8