genome.fa.s9175.2.7.7.80.10.50.1000.30.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  30  of  51  ( 6037 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)
6119616--6119652	19	1.9	19	100	0	74	16	5	35	43	1.71
6125236--6125333	36	2.8	35	84	3	133	43	25	1	29	1.61
6125357--6125395	19	2.0	21	85	10	55	53	25	2	17	1.56
6126182--6126243	25	2.5	26	86	5	92	24	6	3	66	1.30
6126182--6126239	26	2.3	25	90	3	89	24	6	3	65	1.33
6127889--6127943	19	2.9	19	74	15	60	65	1	9	23	1.31
6128024--6128088	22	3.0	21	72	20	53	70	0	3	26	1.01
6128043--6128097	25	2.3	23	84	9	67	72	0	1	25	0.94
6128029--6128097	25	3.1	22	73	16	63	72	0	2	24	0.98
6128043--6128144	22	4.4	23	74	8	73	66	0	3	28	1.15
6128029--6128118	44	2.0	44	83	8	112	67	0	4	27	1.09
6128344--6128408	23	2.8	24	79	13	64	67	1	1	29	1.09
6128361--6128405	19	2.4	18	81	3	54	66	2	0	31	1.04
6128799--6128896	37	2.6	37	88	0	133	32	13	13	40	1.83
6129650--6130353	106	6.6	106	93	0	1111	22	19	25	33	1.97
6129650--6130911	212	6.0	212	87	3	1822	22	18	24	34	1.96
6129650--6130911	318	4.0	317	88	3	1856	22	18	24	34	1.96
6130262--6130550	91	3.0	91	86	7	362	23	16	24	34	1.95
6130353--6130911	106	5.3	106	89	1	816	23	16	24	35	1.95
6131624--6131686	23	2.8	22	77	13	65	49	6	11	33	1.64
6132508--6132572	9	7.5	8	74	17	51	1	13	3	81	0.88
6132508--6132572	16	4.3	15	74	16	62	1	13	3	81	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6132510--6132553	21	2.2	20	84	12	54	2	13	2	81	0.88
6132508--6132573	17	4.4	16	72	22	54	1	13	4	80	0.94
6136809--6136863	20	2.8	19	75	20	60	67	1	7	23	1.26
6136970--6137018	12	4.1	12	82	15	57	71	0	2	26	0.97
6136955--6137084	22	6.0	22	71	16	69	68	0	3	26	1.12
6137049--6137147	29	3.5	30	72	13	84	64	3	5	27	1.29
6137145--6137169	2	12.5	2	100	0	50	52	0	0	48	1.00
6137279--6137342	22	2.7	23	79	13	60	67	1	1	29	1.09
6137296--6137339	18	2.4	18	84	0	61	65	2	0	31	1.05
6137768--6137825	16	3.0	21	66	23	63	24	15	10	50	1.75
6140321--6140384	21	3.0	21	61	17	51	46	12	23	17	1.81
6140301--6140384	42	2.0	42	97	0	159	47	13	21	17	1.81
6142540--6142710	89	1.9	89	91	0	279	31	16	15	36	1.90
6145207--6145965	123	6.2	123	88	2	1066	40	16	18	25	1.90
6145207--6145965	243	3.1	243	87	2	1058	40	16	18	25	1.90
6146129--6146180	22	2.4	22	96	0	95	23	40	17	19	1.91
6147332--6147377	14	3.3	15	79	11	53	23	6	2	67	1.25
6149611--6149644	15	2.3	15	89	0	50	50	0	2	47	1.16
6150044--6150077	13	2.4	15	90	9	54	20	5	2	70	1.21
6153968--6154007	2	20.0	2	100	0	80	50	0	0	50	1.00
6154011--6154044	3	11.3	3	93	0	59	38	0	29	32	1.58
6162998--6163029	14	2.3	14	100	0	64	40	21	6	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6168656--6168724	22	3.4	21	69	19	65	34	40	21	2	1.68
6168654--6168739	39	2.2	39	93	4	147	32	43	22	2	1.66
6179596--6179753	21	7.8	20	72	7	86	38	25	17	18	1.92
6179720--6179913	20	9.6	20	81	5	221	35	25	19	19	1.95
6179720--6179913	60	3.2	60	83	0	253	35	25	19	19	1.95
6180296--6180366	33	2.2	33	92	0	115	11	22	18	47	1.80
6180446--6180555	21	5.8	20	74	17	108	45	18	24	11	1.83
6180439--6180555	41	3.1	38	81	14	145	46	17	25	11	1.81
6180506--6180562	14	3.7	14	75	20	60	43	22	24	8	1.81
6180498--6180578	33	2.5	33	95	0	144	46	22	22	8	1.78
6180574--6180701	19	7.1	19	70	19	78	10	24	18	46	1.81
6180579--6180701	33	3.5	33	85	10	156	10	23	18	47	1.80
6180596--6180652	14	3.7	14	70	20	51	8	22	22	45	1.80
6180637--6180701	21	3.1	21	82	4	96	10	26	15	47	1.78
6180636--6180699	20	3.2	20	82	4	92	12	25	15	46	1.81
6182400--6182774	185	2.0	185	98	1	725	22	12	19	46	1.83
6182400--6182774	93	4.1	93	98	1	727	22	12	19	46	1.83
6182822--6182950	19	7.3	19	75	17	125	45	28	17	8	1.77
6182858--6182950	33	2.8	32	91	4	150	46	27	18	7	1.76
6182822--6182950	52	2.5	52	74	14	140	45	28	17	8	1.77
6182946--6183118	19	9.6	19	78	12	168	10	19	23	46	1.81
6182968--6183024	14	3.7	14	77	20	60	10	21	22	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6182946--6183118	33	4.8	38	82	5	168	10	19	23	46	1.81
6184904--6184939	14	2.6	14	95	0	63	33	0	22	44	1.53
6185064--6185182	33	3.4	33	82	15	166	44	17	24	13	1.85
6185046--6185163	19	6.4	19	87	10	174	45	16	22	14	1.84
6185046--6185182	73	1.9	72	96	3	258	44	17	24	13	1.85
6185172--6185355	19	10.7	19	70	22	156	15	21	17	45	1.85
6185196--6185250	14	3.6	14	73	21	56	10	23	20	45	1.82
6185178--6185269	33	2.8	33	98	0	175	14	21	18	45	1.84
6185210--6185327	52	2.2	52	96	1	164	14	22	16	46	1.83
6185262--6185369	33	3.2	33	84	7	164	13	21	18	46	1.84
6187653--6187677	12	2.1	12	100	0	50	0	28	0	72	0.86
6187852--6187898	24	2.0	24	87	8	69	38	21	14	25	1.92
6188581--6188790	20	10.5	20	87	2	233	19	17	25	37	1.93
6188777--6188859	21	4.0	21	75	6	78	25	15	24	34	1.95
6188757--6188855	42	2.4	43	77	11	100	21	17	23	38	1.93
6191000--6191073	37	1.9	38	86	5	105	18	12	21	47	1.81
6192778--6192994	122	1.8	122	83	10	297	41	4	5	48	1.44
6193049--6193079	15	2.1	15	93	0	53	45	0	0	54	0.99
6195969--6196061	5	18.8	5	67	14	50	24	5	1	68	1.17
6196014--6196061	20	2.4	20	89	6	71	25	2	0	72	0.95
6196030--6196065	14	2.6	15	87	12	51	27	0	0	72	0.85
6200609--6200642	17	2.0	17	88	0	50	23	0	2	73	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6212388--6212568	95	1.9	96	87	3	267	34	16	22	27	1.95
6212548--6212625	22	3.5	22	100	0	156	32	8	28	30	1.88
6213057--6213287	45	5.1	45	88	3	322	38	9	21	29	1.86
6213292--6213406	45	2.5	45	90	4	169	39	9	20	31	1.84
6213186--6213385	106	1.9	106	93	0	346	39	10	20	30	1.86
6215499--6215544	19	2.5	18	79	6	56	30	4	0	65	1.12
6215548--6215579	17	1.9	17	93	6	57	21	0	6	71	1.07
6216821--6216861	21	2.0	20	95	4	73	26	4	0	68	1.10
6216822--6216867	21	2.2	21	88	0	65	28	4	0	67	1.10
6219956--6220000	14	3.1	14	84	6	63	17	11	13	57	1.64
6223721--6223829	54	2.0	54	96	0	200	33	5	43	18	1.73
6230866--6230953	32	2.7	32	86	6	115	21	14	13	50	1.78
6231734--6231844	39	2.8	39	80	12	129	44	0	17	38	1.49
6233126--6233155	14	2.1	14	93	0	51	63	0	6	30	1.20
6244565--6244600	17	2.1	17	89	0	54	16	11	11	61	1.57
6245933--6245976	20	2.2	20	87	0	61	31	20	22	25	1.98
6247769--6248102	145	2.3	145	90	0	508	31	14	27	26	1.95
6247981--6248145	85	1.9	85	88	0	249	32	15	27	24	1.95
6248119--6248240	42	2.9	41	76	12	115	30	22	21	25	1.99
6248276--6248388	39	2.9	39	78	0	109	36	15	21	26	1.94
6248354--6248921	36	16.1	36	77	9	514	39	12	19	27	1.88
6248471--6248535	21	3.4	21	70	24	70	40	7	24	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6248644--6248684	21	2.0	21	90	4	66	39	17	24	19	1.92
6248598--6248921	175	1.9	173	85	2	452	39	13	19	27	1.89
6248860--6249043	36	4.9	35	70	12	109	39	10	18	31	1.85
6250492--6250536	2	23.0	2	81	4	56	48	6	0	44	1.29
6258557--6258610	21	2.6	21	96	0	99	37	37	9	16	1.81
6267067--6267095	3	9.7	3	100	0	58	31	0	0	68	0.89
6269893--6269945	17	3.1	17	78	5	54	15	13	0	71	1.14
6274588--6274842	73	3.5	73	92	0	411	32	16	11	39	1.85
6274588--6274844	37	7.0	37	65	11	136	32	16	11	39	1.84
6274846--6275136	120	2.4	121	86	5	390	39	15	17	26	1.90

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