genome.fa.s9634.2.7.7.80.10.50.1000.31.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  31  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)
6408306--6408397	33	2.8	33	91	0	148	11	16	20	51	1.76
6408382--6408436	20	2.8	19	83	8	65	16	23	23	36	1.94
6408971--6409018	18	2.7	18	93	0	87	14	12	45	27	1.81
6410313--6410371	20	3.0	20	87	0	73	42	22	18	16	1.89
6410648--6410691	22	2.0	22	100	0	88	18	13	45	22	1.84
6410856--6410923	20	3.4	20	95	0	127	25	19	30	25	1.98
6410933--6410985	21	2.5	22	78	6	65	35	18	24	20	1.95
6415932--6416094	64	2.5	64	83	9	181	33	19	22	24	1.97
6416713--6416771	2	29.5	2	100	0	118	50	0	0	49	1.00
6417478--6417598	22	5.5	22	94	0	206	14	23	32	29	1.94
6421231--6421393	64	2.5	64	82	7	170	31	20	22	25	1.98
6422735--6422811	22	3.5	22	96	0	136	14	25	31	28	1.95
6422897--6422934	17	2.2	17	86	9	51	34	31	5	28	1.80
6423551--6423639	37	2.4	37	94	0	151	44	15	8	30	1.77
6424013--6424145	63	2.1	63	95	0	239	23	17	3	56	1.55
6424242--6424395	39	3.9	39	76	16	108	28	2	2	66	1.18
6424460--6424532	26	2.8	27	79	10	80	20	8	1	69	1.21
6428221--6428388	72	2.3	74	85	7	225	29	16	13	40	1.87
6428223--6428348	36	3.5	36	78	3	146	28	14	14	42	1.84
6428246--6428421	72	2.4	71	82	10	189	30	15	13	40	1.86
6428448--6428653	36	5.9	36	73	13	196	26	19	13	40	1.88
6428448--6428899	138	3.2	137	87	5	613	25	19	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6428668--6428899	73	3.2	73	90	3	353	23	20	15	40	1.90
6428668--6428899	37	6.4	36	86	5	326	23	20	15	40	1.90
6428848--6428996	67	2.2	67	82	4	176	30	19	12	36	1.89
6428996--6429193	83	2.4	84	86	1	265	32	23	19	25	1.97
6429668--6429745	37	2.1	37	95	0	138	42	11	14	32	1.81
6429726--6429770	19	2.4	19	96	0	81	44	11	11	33	1.75
6430294--6430353	25	2.5	24	78	5	59	23	6	5	65	1.37
6430375--6430479	39	2.7	37	75	15	106	27	2	1	67	1.15
6430378--6430506	38	3.6	36	75	15	106	25	3	1	69	1.11
6430440--6430531	19	5.0	18	74	14	64	20	5	1	72	1.10
6430387--6430480	13	7.2	13	64	21	54	27	2	1	69	1.07
6430415--6430506	35	2.6	35	81	6	105	25	3	1	70	1.09
6430438--6430514	10	7.3	10	73	17	59	20	3	1	74	1.06
6430438--6430512	34	2.3	33	80	10	93	20	4	1	74	1.05
6439507--6439562	3	18.0	3	89	7	85	32	1	0	66	1.03
6443620--6443647	2	14.0	2	100	0	56	50	0	0	50	1.00
6445902--6445933	14	2.2	15	94	5	57	78	3	0	18	0.89
6445900--6445935	15	2.4	16	86	13	58	75	2	0	22	0.94
6449280--6449344	32	2.0	32	85	14	89	47	13	6	32	1.68
6449027--6449535	199	2.6	195	85	4	673	45	10	6	37	1.64
6449395--6449542	33	4.6	31	70	11	75	47	10	6	35	1.63
6452885--6453072	94	2.0	94	88	4	281	27	28	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6462557--6462604	20	2.6	18	83	9	60	66	0	31	2	1.03
6462561--6462604	16	2.6	16	86	13	54	68	0	29	2	1.02
6465805--6465891	20	4.7	19	72	23	78	37	2	5	54	1.37
6465791--6465898	54	1.9	56	94	5	193	37	1	6	54	1.37
6465804--6465925	20	6.2	20	67	25	57	34	1	7	56	1.37
6467396--6467459	33	1.9	33	81	6	76	56	4	4	34	1.41
6467566--6467622	3	19.0	3	100	0	114	33	0	0	66	0.92
6468557--6468581	8	3.1	8	100	0	50	52	12	0	36	1.39
6469299--6469331	16	2.1	16	88	11	50	0	30	0	69	0.88
6469285--6469355	20	3.5	19	81	11	79	4	29	0	66	1.11
6469299--6469369	27	2.6	28	78	17	85	2	32	0	64	1.08
6475464--6475491	5	5.6	5	100	0	56	39	0	42	17	1.50
6479941--6479995	28	2.0	28	85	7	76	30	1	49	18	1.58
6483187--6483535	131	2.7	130	82	3	423	25	17	31	25	1.97
6483569--6483691	36	3.6	34	68	20	87	39	14	21	23	1.91
6483540--6483761	66	3.4	65	86	5	295	41	13	21	22	1.88
6483904--6484029	36	3.5	37	91	3	193	39	11	19	30	1.86
6484342--6484381	16	2.5	16	87	0	53	22	0	25	52	1.47
6485409--6485463	4	13.8	4	92	0	83	49	5	0	45	1.25
6488001--6488038	18	2.1	18	95	0	67	55	10	13	21	1.67
6490737--6490766	9	3.3	9	90	0	51	0	10	3	86	0.67
6490737--6490775	18	2.2	18	86	9	53	2	10	5	82	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6491349--6491386	18	2.1	18	90	0	58	63	2	2	31	1.22
6492553--6492761	84	2.5	83	82	4	228	33	20	16	29	1.95
6492724--6492825	49	2.1	49	83	0	123	41	15	9	33	1.80
6493957--6494020	31	2.0	34	87	9	98	62	0	0	37	0.95
6493962--6494029	27	2.4	29	74	16	72	64	0	0	35	0.94
6494731--6494830	33	3.0	33	95	0	173	22	25	27	26	2.00
6500873--6500953	28	2.6	32	79	18	107	12	8	34	44	1.73
6505285--6505318	13	2.6	13	95	0	59	32	55	2	8	1.45
6515180--6515216	18	2.1	18	100	0	74	32	5	21	40	1.76
6517153--6517178	2	13.0	2	100	0	52	50	0	0	50	1.00
6517168--6517239	37	1.9	37	86	5	101	31	12	5	50	1.63
6518945--6519032	37	2.4	37	82	1	97	44	6	1	47	1.37
6518985--6519323	37	9.3	36	82	9	318	43	9	2	44	1.47
6518948--6519358	147	2.8	147	82	9	455	44	9	1	44	1.48
6519002--6519360	37	9.7	37	81	8	293	44	9	1	43	1.48
6519288--6519368	41	2.0	39	83	9	101	44	9	2	43	1.50
6524012--6524046	18	1.9	18	88	0	52	25	31	20	22	1.98
6533827--6533994	92	1.8	92	89	1	266	36	14	23	25	1.93
6534054--6534341	105	2.7	107	85	4	382	37	14	22	25	1.92
6534571--6534607	9	4.2	9	86	13	51	40	0	0	59	0.97
6534576--6534623	14	3.4	14	86	11	62	35	0	0	64	0.94
6534576--6534623	3	16.7	3	83	16	66	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6534576--6534623	20	2.4	20	89	6	71	35	0	0	64	0.94
6534584--6534635	23	2.3	23	75	0	59	42	0	0	57	0.98
6536487--6536528	17	2.4	19	80	15	54	28	4	7	59	1.44
6541705--6541729	8	3.1	8	100	0	50	48	40	0	12	1.40
6542392--6542463	20	3.5	20	79	3	90	40	18	23	18	1.91
6542407--6542482	21	3.7	20	78	5	89	39	18	25	17	1.91
6542387--6542482	41	2.3	41	96	0	174	39	16	23	19	1.92
6542409--6542543	41	3.3	41	81	6	123	37	20	21	20	1.94
6542471--6542565	20	4.7	20	80	2	91	34	24	17	23	1.96
6543060--6543097	20	1.9	20	88	0	58	13	15	21	50	1.78
6544417--6544461	18	2.5	18	85	0	63	26	42	15	15	1.87
6544934--6544989	20	2.8	20	83	2	69	37	23	23	16	1.93
6544989--6545046	14	3.9	14	75	16	53	48	22	17	12	1.80
6544973--6545063	32	2.8	33	91	3	148	47	20	18	13	1.82
6547101--6547172	14	4.5	15	75	21	58	47	19	20	12	1.82
6547111--6547158	18	2.6	19	93	6	89	47	16	20	14	1.82
6547203--6547250	20	2.4	20	96	0	87	20	25	20	33	1.97
6548879--6548937	24	2.5	24	80	0	64	27	16	18	37	1.93
6551423--6551520	19	5.7	19	67	22	81	44	19	23	12	1.84
6551427--6551516	33	2.7	33	96	0	162	45	18	23	12	1.83
6551516--6551558	20	2.2	20	87	4	61	16	18	23	41	1.89
6551544--6551577	14	2.4	14	85	0	50	8	23	20	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6551699--6551735	14	2.6	14	91	0	65	45	24	0	29	1.53
6553089--6553155	21	3.2	21	68	4	55	19	20	35	23	1.95
6553089--6553211	42	2.9	41	80	7	113	22	17	36	22	1.95
6555202--6555386	19	10.1	19	75	14	165	42	22	22	12	1.87
6555202--6555386	33	5.1	38	81	10	165	42	22	22	12	1.87
6555382--6555426	19	2.4	19	92	0	72	8	15	26	48	1.74
6555980--6556073	20	4.7	20	77	2	80	23	17	24	35	1.95
6556062--6556157	41	2.3	41	98	0	147	18	23	17	39	1.92
6556062--6556154	20	4.6	20	78	4	96	18	24	18	38	1.92
6559551--6559577	2	13.5	2	100	0	54	51	0	0	48	1.00

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