genome.fa.s8164.2.7.7.80.10.50.1000.7.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: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577652

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

This is table  7  of  11  ( 1239 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)
1353325--1353674	5	67.8	5	65	22	63	73	3	6	16	1.19
1353330--1353486	9	17.1	9	68	19	67	75	3	7	14	1.15
1353384--1353525	18	8.0	18	70	23	81	74	4	6	14	1.17
1353363--1353489	44	3.0	41	75	15	116	74	3	7	14	1.17
1353615--1353660	8	5.8	8	82	10	58	82	0	6	10	0.83
1353602--1353674	9	7.9	9	77	8	58	79	1	5	13	0.97
1355358--1355454	46	2.1	46	84	0	122	20	23	21	34	1.97
1355357--1355459	23	4.5	23	82	0	107	20	22	23	33	1.97
1355578--1355708	6	21.8	6	92	0	163	33	7	25	32	1.84
1356381--1357558	233	5.1	233	87	3	1534	33	15	17	34	1.91
1357172--1357267	42	2.3	41	82	7	122	25	17	22	34	1.96
1356382--1357558	460	2.5	465	87	4	1604	32	15	17	34	1.91
1357795--1358726	133	7.0	134	82	2	1045	32	23	15	28	1.95
1358875--1358993	3	40.3	3	96	3	224	34	0	0	65	0.93
1362037--1362100	19	3.2	19	72	23	67	56	1	7	34	1.38
1362009--1362101	42	2.2	41	96	3	177	58	2	6	33	1.36
1362018--1362086	23	3.2	23	73	23	85	55	2	5	36	1.39
1368316--1368366	20	2.5	21	80	3	59	27	33	13	25	1.94
1379542--1379575	15	2.1	17	89	10	54	17	5	0	76	0.98
1381045--1381094	21	2.4	21	89	0	73	42	20	22	16	1.89
1386622--1386757	24	5.7	24	87	5	154	24	13	19	42	1.87
1386622--1386757	48	2.8	48	83	8	170	24	13	19	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386622--1386763	72	2.0	72	84	8	191	25	13	19	41	1.88
1391468--1391609	24	5.9	24	89	3	180	26	14	19	40	1.89
1391487--1391569	12	6.9	12	71	19	66	26	13	21	38	1.90
1391468--1391609	72	2.0	72	86	8	200	26	14	19	40	1.89
1393359--1393476	24	4.9	24	87	4	166	25	15	19	39	1.90
1393374--1393412	12	3.2	12	79	13	53	28	12	23	35	1.91
1398540--1398578	20	2.0	20	100	0	78	28	15	5	51	1.64
1401933--1401980	19	2.5	20	89	3	71	50	6	12	31	1.65
1403497--1403536	20	2.0	21	95	5	73	32	22	20	25	1.98
1408594--1408624	12	2.5	13	89	10	55	16	48	22	12	1.80
1408611--1408645	8	4.5	8	85	7	54	14	34	25	25	1.94
1408615--1408643	15	1.9	15	100	0	58	13	27	27	31	1.94
1411139--1411253	24	4.8	24	85	5	135	24	18	17	40	1.91
1411210--1411259	23	2.2	23	92	0	82	20	20	18	42	1.90
1411220--1411265	23	2.2	20	85	14	58	19	17	17	45	1.85
1413346--1413383	13	2.9	13	92	0	67	18	47	13	21	1.82
1413376--1413422	10	5.5	8	82	14	51	14	34	27	23	1.94
1415920--1416030	24	4.7	24	85	5	136	23	18	18	39	1.92
1424055--1424101	21	2.2	21	100	0	94	34	8	25	31	1.86
1434416--1434483	21	3.2	21	93	0	118	29	13	25	32	1.93
1436108--1436225	39	3.0	39	75	9	114	48	3	15	33	1.61
1436241--1436271	3	10.3	3	100	0	62	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)
1441166--1441241	12	6.8	12	71	26	60	42	0	0	57	0.98
1441164--1441241	18	4.3	18	84	9	106	41	0	0	58	0.98
1441164--1441229	3	22.0	3	87	0	96	39	0	0	60	0.97
1441640--1441704	21	2.9	23	77	13	64	73	7	16	1	1.13
1441655--1441704	19	2.5	19	87	9	64	80	4	14	2	0.95
1441655--1441704	21	2.3	22	86	3	66	80	4	14	2	0.95
1442717--1442766	20	2.5	19	84	9	64	34	0	0	66	0.92
1442813--1442861	22	2.2	22	85	0	62	51	2	0	46	1.12
1443351--1443430	28	3.2	26	76	15	73	30	5	1	63	1.23
1443351--1443416	28	2.5	27	83	9	75	31	4	1	62	1.25
1445007--1445065	12	5.2	12	80	12	79	22	15	10	52	1.72
1445020--1445061	21	2.0	21	90	0	66	19	14	9	57	1.64
1449425--1449482	30	1.9	30	100	0	116	22	31	17	29	1.96
1451488--1451529	20	2.2	19	86	4	57	64	0	0	35	0.94
1451396--1451633	120	2.0	120	82	4	288	46	7	7	38	1.62
1451722--1451751	3	10.0	3	92	0	51	63	0	3	33	1.11
1453106--1453158	3	19.0	3	81	14	60	66	1	0	32	1.03
1453106--1453161	19	3.0	18	79	7	67	66	1	0	32	1.03
1453084--1453162	22	3.8	21	77	14	74	62	1	0	36	1.04
1453106--1453169	22	2.9	22	77	13	69	67	3	0	29	1.06
1453657--1453709	3	19.0	3	81	14	60	66	1	0	32	1.03
1453633--1453712	19	4.1	19	79	6	72	61	1	0	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453634--1453713	22	3.8	21	76	14	76	62	1	0	36	1.03
1453657--1453720	22	2.9	22	77	13	69	67	3	0	29	1.06
1453067--1454167	553	2.0	550	95	1	1988	35	14	13	36	1.86
1454045--1454487	225	2.0	225	90	1	710	27	19	14	37	1.91
1454045--1454494	113	4.0	113	89	2	665	28	19	14	37	1.91
1456024--1456057	16	2.1	16	89	10	52	8	14	0	76	1.01
1456011--1456069	21	2.8	21	87	7	75	6	16	0	76	1.00
1463382--1463413	11	2.9	11	100	0	64	43	18	18	18	1.88
1466718--1466771	28	2.0	27	85	3	72	61	1	5	31	1.30
1467360--1467401	20	2.2	19	86	4	57	64	2	0	33	1.07
1467269--1467505	120	2.0	120	82	4	295	46	8	7	37	1.64
1467594--1467623	3	10.0	3	92	0	51	63	0	3	33	1.11
1468975--1469036	3	22.0	3	78	18	62	67	1	0	30	1.00
1468953--1469040	22	4.0	22	79	5	81	63	1	0	35	1.02
1468976--1469036	19	3.3	18	81	6	77	68	1	0	29	0.99
1469752--1469816	22	3.0	22	90	4	96	36	6	13	43	1.70
1470487--1471806	455	2.9	454	96	0	2399	23	19	22	34	1.96
1470487--1471806	76	17.4	76	95	0	2385	23	19	22	34	1.96
1471957--1472020	12	5.9	11	75	20	64	43	0	0	56	0.99
1471955--1472003	18	2.7	18	93	6	82	40	0	0	59	0.98
1471955--1472020	21	3.1	21	87	12	100	42	0	0	57	0.98
1471955--1472008	3	18.0	3	84	0	72	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1473003--1473067	29	2.3	28	84	7	78	30	1	7	60	1.34
1473295--1473342	20	2.3	20	85	3	60	31	0	2	66	1.03
1473196--1473433	121	2.0	116	81	5	271	35	7	8	47	1.64
1473398--1473452	27	2.0	29	82	7	69	47	1	0	50	1.11
1476413--1476457	17	2.8	16	86	10	56	55	0	2	42	1.12
1478230--1478269	20	2.0	21	90	5	64	35	22	20	22	1.96
1481694--1481733	20	2.0	21	95	5	73	32	22	20	25	1.98
1493464--1493490	10	2.7	10	100	0	54	18	33	0	48	1.49
1494751--1494800	23	2.2	23	82	7	57	26	18	14	42	1.87
1505013--1505070	17	3.4	17	81	9	73	13	24	36	25	1.92
1510455--1510498	23	1.9	23	95	0	79	54	15	15	13	1.71
1515221--1515298	32	2.4	33	76	23	85	46	3	3	46	1.39
1517002--1517035	17	2.0	17	94	0	59	44	23	8	23	1.81
1518239--1518269	16	1.9	16	93	0	53	32	16	6	45	1.72
1518516--1518549	15	2.1	17	89	10	54	11	23	0	64	1.26
1518918--1519040	56	2.2	56	92	0	201	15	19	20	44	1.86
1525689--1525713	2	12.5	2	100	0	50	52	0	48	0	1.00
1528899--1528936	20	1.9	20	88	0	58	21	26	10	42	1.85
1540597--1540655	30	2.0	30	86	3	84	30	27	13	28	1.94
1540599--1540662	30	2.2	29	82	2	74	32	31	9	26	1.88
1544363--1545105	200	3.7	200	87	1	988	27	19	19	33	1.96
1545165--1545536	86	4.3	86	89	0	555	20	21	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548303--1548335	16	2.1	17	88	11	52	24	36	6	33	1.80
1549462--1549523	16	3.9	16	75	10	65	75	3	8	12	1.14
1549564--1549617	8	5.7	10	79	18	62	75	0	3	20	0.95
1549564--1549617	5	11.4	5	77	18	62	75	0	3	20	0.95
1549582--1549617	13	2.8	13	100	0	72	77	0	0	22	0.76
1549574--1549643	18	3.6	19	81	16	74	72	0	2	24	0.98
1551802--1552143	173	2.0	173	97	0	639	39	16	10	33	1.83
1555155--1555191	16	2.3	16	95	0	65	29	13	29	27	1.94
1555429--1555597	62	2.7	62	90	1	257	28	6	22	42	1.78
1563853--1563937	20	4.0	20	76	19	73	20	23	12	43	1.86

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