genome.fa.s9634.2.7.7.80.10.50.1000.7.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  7  of  78  ( 9351 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)
1411810--1411895	20	4.2	20	77	2	82	33	24	18	23	1.97
1412102--1412157	27	2.1	27	82	0	67	48	30	3	17	1.65
1412407--1412487	19	4.5	19	73	16	73	46	24	17	11	1.80
1412497--1412584	33	2.6	33	89	1	131	12	25	23	38	1.90
1412552--1412608	20	2.9	19	78	17	62	14	24	19	42	1.88
1416050--1416081	14	2.3	14	94	0	55	31	0	25	43	1.55
1416264--1416389	33	3.9	32	81	12	159	15	23	20	40	1.90
1416257--1416388	66	2.0	66	91	4	214	16	23	20	39	1.92
1418642--1418666	12	2.1	12	100	0	50	0	28	0	72	0.86
1418998--1419075	20	3.9	20	94	0	129	37	21	23	17	1.94
1421064--1421130	19	3.5	19	83	4	89	37	23	23	14	1.93
1421119--1421176	14	3.9	14	79	16	71	48	25	17	8	1.75
1421103--1421191	32	2.8	32	92	1	142	47	24	17	10	1.79
1421118--1421182	14	4.3	15	74	25	66	49	24	18	7	1.74
1421187--1421278	18	5.6	17	70	23	74	10	20	23	44	1.83
1421192--1421278	31	2.8	32	92	5	151	10	19	24	45	1.81
1421208--1421262	14	3.8	14	76	23	60	7	18	27	47	1.74
1421252--1421316	20	3.4	19	78	4	60	13	23	24	38	1.91
1421748--1421813	17	3.7	18	78	9	57	15	15	43	25	1.85
1421769--1421813	17	2.6	18	85	3	65	13	15	44	26	1.83
1423390--1423432	22	2.0	22	90	4	70	18	16	46	18	1.84
1423616--1423710	20	4.7	20	80	2	91	23	17	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423638--1423771	41	3.3	41	80	5	121	20	20	20	38	1.94
1423718--1423783	20	3.3	20	82	0	96	16	24	18	40	1.90
1423699--1423789	40	2.3	41	94	3	159	18	24	18	38	1.93
1424944--1424997	5	10.8	5	77	15	58	7	37	37	18	1.79
1425278--1425330	22	2.4	22	80	0	61	30	9	22	37	1.86
1431101--1431155	22	2.5	22	78	0	65	30	9	21	38	1.85
1434209--1434283	23	3.3	23	96	3	136	21	22	28	28	1.99
1436047--1436139	48	1.9	48	93	0	159	19	17	39	23	1.92
1438696--1438760	3	21.7	3	77	14	55	40	0	1	58	1.07
1438695--1438760	25	2.5	25	80	11	78	40	0	1	57	1.08
1438761--1438808	3	16.3	3	95	4	89	68	0	0	31	0.90
1440091--1440143	21	2.5	21	75	6	63	22	26	16	33	1.96
1440174--1440246	20	3.7	20	90	0	101	27	27	20	24	1.99
1440433--1440476	22	2.0	22	95	0	79	22	43	13	20	1.87
1440725--1440781	20	2.8	20	83	0	60	17	17	19	45	1.86
1442072--1442118	17	2.7	18	86	3	69	27	42	12	17	1.85
1442692--1442788	19	5.6	19	68	22	88	46	20	18	14	1.84
1442692--1442785	33	2.8	33	91	0	143	46	20	18	14	1.83
1442816--1442860	19	2.4	19	88	0	63	15	17	17	48	1.81
1442846--1442899	20	2.7	19	86	8	72	14	22	25	37	1.93
1444892--1444953	19	3.3	19	97	0	115	48	16	19	16	1.81
1444994--1445069	20	3.8	20	91	0	116	17	22	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444994--1445069	40	1.9	40	94	0	134	17	22	21	39	1.92
1445656--1445772	41	2.9	41	84	3	130	23	18	25	32	1.97
1445615--1445768	20	7.7	20	83	4	148	25	18	25	29	1.98
1445695--1445790	41	2.3	41	83	3	113	21	19	22	35	1.96
1445758--1445809	20	2.5	21	87	3	70	21	23	17	38	1.93
1445799--1445850	21	2.5	21	78	3	70	36	19	23	21	1.95
1446261--1446299	2	19.5	2	100	0	78	51	0	0	48	1.00
1446291--1446340	17	2.8	17	81	6	55	28	8	2	62	1.35
1446350--1446412	27	2.2	29	78	18	71	41	1	1	55	1.19
1446531--1446567	15	2.3	17	81	13	51	35	2	0	62	1.10
1455480--1455710	75	3.1	74	80	10	219	33	18	20	27	1.96
1457696--1457794	45	2.2	45	89	3	146	22	20	21	36	1.95
1457598--1458039	121	3.7	121	91	2	692	25	20	18	35	1.95
1457817--1457915	45	2.2	45	88	0	144	23	21	19	36	1.95
1457938--1458080	45	3.2	45	90	1	216	22	19	19	38	1.93
1457696--1458196	165	3.0	162	71	10	449	25	20	19	34	1.96
1458364--1458413	3	16.7	3	80	15	59	36	0	2	62	1.07
1458439--1458480	22	1.9	22	85	9	59	38	35	9	16	1.81
1459694--1459733	20	2.0	20	85	0	53	25	7	2	65	1.32
1459740--1459798	31	1.9	30	83	16	77	38	1	1	57	1.19
1460051--1460082	2	16.0	2	93	0	55	53	0	0	46	1.00
1461355--1461474	56	2.2	57	87	4	183	29	4	17	49	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476690--1477090	55	7.3	56	85	4	320	32	24	15	27	1.96
1476714--1477100	110	3.5	110	87	4	525	31	24	16	27	1.96
1476730--1477100	165	2.2	165	90	4	572	32	24	16	26	1.96
1478277--1478362	45	1.9	45	85	4	120	15	29	17	38	1.90
1478379--1478430	7	7.4	7	100	0	104	13	13	0	73	1.11
1478379--1478448	21	3.1	21	91	8	104	12	12	0	74	1.08
1478384--1478502	14	7.4	17	80	11	103	10	14	0	74	1.06
1478365--1478481	14	8.8	14	78	16	88	10	13	0	76	1.03
1478384--1478497	21	4.8	24	81	11	101	10	14	0	75	1.05
1488054--1488188	45	3.0	45	92	5	220	37	21	10	30	1.87
1492575--1492612	5	7.6	5	100	0	76	21	21	0	57	1.40
1495259--1495327	34	2.0	35	97	2	131	55	2	17	24	1.56
1502768--1502838	18	3.8	18	76	7	79	33	32	14	19	1.92
1503236--1503361	64	2.0	64	82	4	155	26	21	16	34	1.95
1509433--1509505	18	3.9	18	82	7	101	30	32	19	17	1.95
1511211--1511277	31	2.2	31	86	5	91	40	11	7	40	1.70
1515955--1517263	671	2.0	671	94	0	2282	33	16	17	33	1.92
1519583--1519625	17	2.5	17	92	0	68	13	32	6	46	1.71
1528225--1528269	23	2.0	22	87	8	65	71	0	0	28	0.87
1531933--1531974	2	21.0	2	100	0	84	50	0	0	50	1.00
1540610--1540649	21	1.9	21	89	0	62	12	32	22	32	1.91
1543619--1543647	3	10.0	3	92	7	51	0	0	34	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545016--1545060	20	2.2	20	84	0	54	48	0	4	46	1.22
1546614--1546761	65	2.3	65	80	8	169	31	16	22	30	1.95
1555284--1555419	65	2.1	64	89	4	202	30	18	22	27	1.97
1556646--1556776	68	1.9	69	87	1	192	36	18	15	29	1.91
1557992--1558030	20	1.9	20	84	5	51	64	15	2	17	1.41
1559164--1559193	12	2.5	12	94	0	51	70	0	3	26	1.03
1570938--1570980	21	2.0	21	81	0	50	30	30	25	13	1.94
1570938--1571096	67	2.4	67	87	4	214	28	25	28	17	1.98
1571406--1571477	29	2.5	29	90	0	108	37	9	12	40	1.76
1571771--1571838	22	3.0	22	97	2	127	19	26	27	26	1.99
1577855--1577897	21	2.0	21	81	0	50	30	30	25	13	1.94
1577855--1578027	67	2.6	67	87	4	224	27	27	27	17	1.98
1578318--1578396	27	2.9	27	82	10	108	39	10	12	37	1.77
1578691--1578757	22	3.0	22	100	0	134	19	26	26	26	1.99
1581275--1581307	17	2.0	17	94	5	59	75	0	12	12	1.04
1585559--1585623	33	2.0	33	96	0	121	32	32	3	32	1.73
1589524--1589584	28	2.2	28	100	0	122	40	3	22	32	1.70
1600315--1600359	21	2.1	21	87	0	63	31	28	24	15	1.96
1601969--1602022	22	2.5	22	100	0	108	20	27	24	27	1.99
1608026--1608051	6	4.3	6	100	0	52	15	19	19	46	1.85
1617112--1617140	2	14.5	2	100	0	58	51	0	0	48	1.00
1623546--1623589	2	23.0	2	90	9	74	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)
1623375--1623752	194	2.0	192	98	1	729	42	3	16	37	1.66
1623549--1623603	28	2.0	28	85	7	76	49	1	3	45	1.30
1629542--1629611	31	2.2	31	84	2	86	31	20	25	22	1.98
1631172--1631235	31	2.1	31	90	0	101	35	14	26	23	1.93
1632518--1632576	30	1.9	31	86	3	84	27	27	10	35	1.89
1633328--1633699	183	2.0	181	91	5	608	45	8	3	42	1.51
1634572--1634630	2	29.5	2	92	0	100	45	0	3	50	1.18
1634736--1634826	36	2.5	36	96	0	164	32	5	19	41	1.75
1634901--1634987	21	4.2	20	80	11	77	39	11	1	48	1.47
1634935--1635007	7	10.7	7	74	14	55	36	9	0	53	1.34

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   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78