genome.fa.s7926.2.7.7.80.10.50.1000.6.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   

This is table  6  of  42  ( 5024 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)
1193050--1193089	12	3.3	12	85	0	53	40	7	32	20	1.80
1193067--1193111	3	15.0	3	85	0	63	35	4	31	28	1.77
1193050--1193107	18	3.2	18	85	0	62	37	6	31	24	1.82
1194321--1195091	183	4.2	183	96	1	1386	34	14	16	33	1.90
1194321--1195091	365	2.1	365	95	1	1384	34	14	16	33	1.90
1194964--1195211	120	2.1	120	96	0	451	31	14	16	37	1.88
1194782--1195376	303	2.0	303	96	0	1091	34	14	16	34	1.89
1198480--1198699	87	2.5	87	96	0	395	32	15	10	42	1.79
1198564--1198608	23	2.0	23	86	0	63	37	15	8	37	1.79
1199047--1199091	22	2.1	22	83	4	56	40	11	11	37	1.76
1199109--1199181	23	3.2	23	92	0	119	34	5	21	38	1.77
1199599--1199671	23	3.2	23	84	3	94	36	5	17	39	1.73
1200096--1200160	23	2.8	23	88	0	103	35	6	20	38	1.77
1198747--1200560	489	3.7	489	95	0	3292	41	7	10	40	1.67
1208563--1208602	16	2.6	16	88	4	55	37	12	20	30	1.89
1209044--1209133	30	3.0	30	83	3	119	50	12	20	17	1.78
1209044--1209120	29	2.6	30	87	2	111	48	12	19	19	1.81
1213533--1213584	23	2.2	25	86	13	74	30	7	5	55	1.52
1217905--1217938	15	2.3	15	89	0	50	35	32	17	14	1.91
1218023--1218132	29	3.8	29	95	2	186	17	22	15	44	1.86
1218509--1218663	64	2.4	63	78	10	163	27	19	18	35	1.95
1218699--1218739	21	2.0	21	100	0	82	34	19	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224435--1224463	15	1.9	15	100	0	58	27	31	27	13	1.94
1224548--1224657	29	3.8	29	91	2	177	19	20	15	45	1.85
1225034--1225190	64	2.5	63	78	10	167	27	18	19	35	1.95
1225224--1225250	14	1.9	14	100	0	54	29	22	22	25	1.99
1231151--1231216	31	2.1	31	100	0	132	48	0	16	34	1.47
1250322--1250364	22	2.0	22	85	0	59	41	2	2	53	1.26
1251555--1251621	28	2.4	28	100	0	134	38	0	5	55	1.25
1252619--1252889	43	6.2	43	76	8	237	53	4	17	24	1.62
1252619--1252939	43	7.4	43	75	9	215	53	4	16	25	1.61
1252619--1252939	130	2.5	131	77	9	318	53	4	16	25	1.61
1252619--1252898	87	3.2	86	78	10	248	53	4	17	24	1.62
1252923--1252983	27	2.3	26	73	15	70	65	3	3	27	1.24
1253188--1253309	31	3.9	31	78	4	120	35	4	13	45	1.66
1255235--1255282	24	2.0	23	84	4	60	14	33	22	29	1.94
1256621--1256655	18	1.9	18	100	0	70	22	5	11	60	1.52
1258778--1258810	14	2.3	15	89	5	50	60	6	24	9	1.49
1261279--1261391	40	2.9	39	86	5	156	42	14	7	36	1.73
1261421--1261553	58	2.3	58	90	1	203	41	14	8	36	1.76
1261643--1261827	45	4.0	45	79	5	181	37	14	10	37	1.80
1262018--1262043	12	2.2	12	100	0	52	61	7	0	30	1.24
1265813--1265876	23	2.8	23	87	0	92	28	26	26	18	1.98
1265892--1266104	103	2.1	103	91	0	345	37	22	14	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271188--1271251	23	2.8	23	81	9	85	29	26	25	18	1.98
1271267--1271476	103	2.0	102	93	0	357	37	21	13	27	1.92
1276696--1276774	32	2.5	32	87	4	108	35	13	10	40	1.79
1278694--1278753	21	2.9	21	90	7	95	30	23	28	18	1.98
1278787--1278831	22	2.0	22	91	4	72	28	28	26	15	1.96
1280239--1280306	23	3.0	23	97	0	127	19	32	26	22	1.97
1286127--1286538	206	2.0	203	97	2	781	41	13	20	24	1.88
1286864--1286914	17	2.9	18	78	18	54	31	0	1	66	1.03
1288756--1288826	38	1.9	37	88	5	108	30	30	19	18	1.96
1289461--1289514	19	2.8	19	97	0	99	29	25	14	29	1.95
1306833--1306905	3	24.3	3	94	0	128	64	1	1	32	1.11
1307316--1307360	18	2.6	18	82	6	58	33	8	28	28	1.87
1307903--1307981	37	2.1	38	83	6	99	45	30	8	15	1.76
1316445--1316548	51	2.0	51	96	0	190	25	18	22	33	1.96
1321720--1321754	6	5.8	6	87	12	54	82	2	0	14	0.77
1321720--1321753	17	1.9	18	94	5	61	82	2	0	14	0.79
1324796--1324846	14	3.6	14	78	7	50	45	1	0	52	1.12
1325632--1325765	9	14.2	9	74	16	62	71	2	2	23	1.11
1325623--1325725	17	5.9	17	72	22	81	70	1	2	24	1.11
1325656--1325731	3	25.7	3	77	15	70	71	2	1	25	1.07
1325799--1325873	16	4.4	16	74	21	55	77	0	5	17	0.95
1329816--1329857	2	21.0	2	100	0	84	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)
1330632--1330680	18	2.7	18	81	9	55	12	26	30	30	1.92
1337566--1337591	13	2.0	13	100	0	52	7	46	7	38	1.61
1339612--1340377	164	4.6	163	81	3	773	25	20	23	30	1.98
1339612--1340420	84	9.8	83	78	4	776	25	20	23	30	1.98
1339619--1340420	249	3.2	247	83	4	952	25	20	23	30	1.98
1345657--1345736	8	9.5	8	78	11	72	72	2	2	22	1.09
1345640--1345689	23	2.3	24	80	19	65	68	2	4	26	1.18
1345645--1345733	25	3.9	22	77	17	74	70	3	2	23	1.13
1345664--1345725	28	2.2	28	83	11	74	72	3	1	22	1.08
1345673--1345741	36	1.9	36	85	5	95	72	4	1	21	1.10
1345687--1345745	20	3.1	19	72	18	52	74	5	0	20	1.00
1345657--1345770	48	2.3	50	80	15	132	72	3	2	21	1.11
1351551--1351611	8	7.6	8	75	17	56	73	3	1	21	1.06
1351554--1351611	17	3.6	17	72	13	59	74	3	1	20	1.06
1351564--1351627	20	2.9	23	80	20	82	73	6	0	20	1.04
1351652--1351719	26	2.6	25	78	17	68	75	2	5	16	1.13
1351702--1351749	16	3.1	16	74	14	55	79	0	4	16	0.89
1354622--1354659	19	2.0	20	89	5	60	36	5	18	39	1.73
1356022--1356075	22	2.3	24	84	9	67	62	9	0	27	1.25
1356027--1356079	24	2.2	25	83	10	65	62	9	0	28	1.26
1359768--1359824	20	2.9	20	89	2	89	22	29	19	28	1.98
1365741--1365779	19	2.0	20	85	14	55	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366222--1366319	38	2.6	38	88	7	164	44	13	13	28	1.81
1366222--1366332	37	2.9	37	89	6	152	44	14	12	28	1.82
1368326--1368357	16	2.0	16	93	0	55	28	25	6	40	1.79
1370679--1370725	22	2.1	23	92	7	80	40	12	0	46	1.42
1370888--1370970	20	4.2	20	95	0	139	38	20	24	16	1.93
1371448--1371493	20	2.3	20	96	0	83	17	0	28	54	1.43
1371601--1371665	20	3.2	20	88	0	103	18	20	20	41	1.91
1387675--1387764	28	3.2	28	72	19	80	31	7	11	50	1.66
1387901--1387952	26	2.0	27	84	3	70	44	5	7	42	1.57
1395344--1395409	29	2.2	28	80	19	73	43	1	3	51	1.26
1399543--1399619	21	3.8	21	89	3	122	29	24	24	20	1.99
1401788--1401924	54	2.5	54	93	0	238	37	19	13	29	1.90
1417726--1417750	3	8.3	3	100	0	50	32	0	0	68	0.90
1418618--1418689	30	2.3	31	90	4	110	52	11	15	20	1.72
1421725--1422230	209	2.4	209	94	2	867	22	18	25	32	1.97
1421725--1422230	106	4.8	106	93	2	837	22	18	25	32	1.97
1429366--1429406	20	2.0	22	85	9	59	12	24	2	60	1.43
1432160--1432679	260	2.0	258	95	4	942	38	19	18	24	1.93
1433131--1433196	26	2.5	26	80	2	78	63	1	10	24	1.35
1433928--1433966	20	2.0	20	89	0	60	12	38	35	12	1.82
1441982--1442093	59	1.9	59	90	1	181	29	6	8	55	1.55
1444530--1444668	55	2.5	55	82	5	174	30	4	42	23	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445117--1445164	23	2.1	23	84	0	60	45	6	14	33	1.70
1445263--1445312	23	2.2	23	88	0	73	40	12	16	32	1.84
1445263--1445319	23	2.5	23	82	0	60	43	10	14	31	1.79
1445418--1445467	23	2.2	23	81	0	55	40	6	18	36	1.75
1445104--1445612	156	3.2	156	90	3	754	42	11	12	33	1.78
1445681--1445918	73	3.2	73	89	4	363	41	12	12	34	1.80
1445681--1445928	75	3.4	73	84	5	329	40	13	12	33	1.82
1446009--1446475	226	2.1	225	86	1	648	44	11	12	32	1.77
1446009--1446475	112	4.1	112	87	1	637	44	11	12	32	1.77
1448530--1448570	16	2.5	17	80	7	50	26	9	12	51	1.70

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42