genome.fa.s9634.2.7.7.80.10.50.1000.64.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  64  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)
12879672--12879731	17	3.2	17	70	20	57	30	5	1	63	1.25
12879764--12879801	18	2.1	18	85	9	51	18	5	0	76	0.97
12879909--12879945	19	2.0	18	89	5	56	13	13	0	72	1.11
12879988--12880038	19	2.6	19	84	3	57	11	1	7	78	1.04
12883077--12883189	47	2.4	48	93	3	192	34	14	7	44	1.72
12892343--12892448	51	2.1	51	92	0	176	21	18	26	33	1.97
12893952--12894049	20	4.6	21	73	12	92	32	20	23	23	1.98
12893973--12894073	44	2.3	45	89	1	159	32	21	22	22	1.98
12896786--12896949	90	1.8	89	96	1	301	44	6	11	37	1.66
12899384--12899423	21	1.9	21	85	10	55	35	10	2	52	1.48
12905396--12905425	13	2.2	14	94	5	53	40	16	13	30	1.87
12918923--12918975	25	2.1	26	82	10	65	56	0	0	43	0.99
12919453--12919506	23	2.3	23	100	0	108	40	11	9	38	1.73
12921791--12921852	28	2.2	28	97	0	115	20	30	25	22	1.98
12930310--12930500	21	8.3	21	68	19	80	49	0	7	42	1.36
12930308--12930416	23	4.6	23	72	20	98	49	0	7	42	1.37
12930306--12930418	25	4.6	25	71	20	103	49	0	7	42	1.36
12930305--12930393	29	3.2	29	83	10	98	49	1	6	42	1.36
12930305--12930436	50	2.6	50	80	8	149	49	0	7	42	1.36
12930389--12930453	15	4.3	16	69	20	50	47	0	10	41	1.38
12930445--12930506	22	2.8	24	83	14	80	56	0	3	40	1.15
12930445--12930506	23	2.8	24	80	14	78	56	0	3	40	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12930446--12930500	21	2.6	21	94	2	92	54	0	3	41	1.18
12930540--12930570	3	10.7	3	93	6	55	32	0	0	67	0.91
12930633--12930677	18	2.5	18	92	0	72	31	17	22	28	1.97
12931232--12931275	13	3.3	13	79	17	54	72	22	4	0	1.02
12931232--12931276	14	3.3	14	78	6	56	73	22	4	0	1.01
12944635--12945041	181	2.2	180	85	1	535	31	18	17	31	1.94
12944888--12945175	134	2.1	134	87	1	398	33	18	17	30	1.94
12944717--12945323	315	1.9	315	86	1	858	33	18	17	30	1.94
12945590--12945672	38	2.1	39	80	10	98	49	3	9	37	1.53
12945654--12945693	17	2.3	18	91	4	64	52	0	5	42	1.23
12945733--12945770	3	12.7	3	100	0	76	34	0	0	65	0.93
12946374--12946428	19	2.9	19	74	10	51	65	23	7	3	1.34
12946411--12946453	13	3.3	12	78	15	50	72	25	0	2	0.97
12947827--12947871	15	2.8	16	83	16	58	35	4	0	60	1.17
12948350--12948418	35	2.0	35	83	8	88	55	5	15	23	1.62
12949254--12949343	28	3.2	27	73	6	81	48	2	3	45	1.31
12949331--12949400	29	2.4	29	83	6	81	41	8	5	44	1.59
12949524--12949579	3	18.7	3	92	0	94	35	1	0	62	1.06
12949578--12949607	14	2.1	15	93	6	53	60	0	0	40	0.97
12950961--12951007	14	3.5	13	80	13	51	40	2	2	55	1.24
12951664--12951714	18	2.9	17	72	18	50	25	0	1	72	0.95
12962337--12962382	17	2.8	16	80	6	56	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12962335--12962380	15	2.9	15	82	17	58	80	0	19	0	0.71
12963340--12963728	83	4.7	83	94	1	656	27	13	21	37	1.91
12963340--12963725	165	2.3	165	92	1	648	27	13	21	37	1.91
12964446--12965333	112	7.8	112	93	2	1269	36	12	20	30	1.90
12964465--12965419	229	4.2	222	86	6	1041	37	13	20	29	1.90
12965555--12965604	3	16.7	3	91	0	82	36	2	0	62	1.07
12965603--12965632	14	2.1	15	93	6	53	60	0	0	40	0.97
12966948--12966994	14	3.5	13	80	13	51	40	2	2	55	1.24
12967538--12967608	2	35.0	2	97	2	133	49	0	1	49	1.09
12968701--12968810	50	2.2	50	81	13	131	28	5	1	64	1.26
12968730--12968802	16	4.4	17	68	16	53	26	4	2	67	1.22
12968833--12968891	27	2.3	26	85	5	75	25	1	1	71	1.05
12969096--12969135	2	20.0	2	100	0	80	50	0	0	50	1.00
12969169--12969210	22	1.9	23	85	9	61	14	4	4	76	1.12
12969169--12969216	23	2.1	23	81	14	55	14	4	6	75	1.16
12971114--12971153	17	2.3	18	86	4	55	37	0	0	62	0.95
12971425--12971474	24	2.0	25	85	11	68	42	0	2	56	1.11
12977017--12977347	74	4.5	74	91	0	529	37	13	15	33	1.87
12977378--12977474	29	3.3	29	95	4	178	40	6	20	32	1.77
12982166--12982225	31	1.9	31	100	0	120	33	10	30	26	1.89
12984856--12984914	31	1.9	31	92	0	100	32	10	28	28	1.90
12985488--12985568	29	2.8	30	90	5	130	40	3	19	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12986899--12986979	42	1.9	43	87	2	119	32	17	19	30	1.95
12986961--12987048	41	2.1	41	85	0	113	36	15	20	27	1.93
12987347--12987449	43	2.5	41	82	7	127	32	15	14	37	1.88
12987347--12987468	41	2.9	41	78	9	122	32	14	13	38	1.86
12992349--12992392	21	2.1	21	86	0	61	25	0	27	47	1.52
12993505--12993544	21	1.9	21	90	10	64	32	0	35	32	1.58
12995349--12995398	18	2.7	18	96	3	91	64	8	0	28	1.22
12999517--13000071	55	10.1	55	83	2	648	29	19	21	29	1.97
12999532--13000069	111	4.9	111	87	2	665	29	19	21	29	1.97
12999532--13000071	166	3.3	166	85	2	701	29	19	21	29	1.97
13001398--13001427	6	5.0	6	100	0	60	16	0	0	83	0.65
13010861--13010891	16	1.9	16	93	0	53	83	3	3	9	0.86
13014298--13014404	43	2.5	43	83	6	119	29	22	17	29	1.97
13017736--13017778	18	2.4	18	100	0	86	72	0	6	20	1.08
13019502--13019536	12	2.8	12	91	8	52	54	5	17	22	1.64
13026825--13026869	21	2.2	20	81	18	56	51	0	6	42	1.28
13028516--13028547	16	2.0	16	93	0	55	59	6	6	28	1.46
13030980--13031113	66	2.0	68	91	2	218	29	26	26	17	1.97
13034180--13034226	18	2.6	18	74	12	51	6	36	34	23	1.80
13036817--13037185	130	2.8	130	86	1	497	40	16	10	31	1.83
13039209--13039271	3	21.0	3	83	6	74	60	0	0	39	0.97
13039209--13039271	12	5.2	12	88	5	92	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13039634--13040237	134	4.5	134	87	2	797	29	14	24	32	1.94
13040504--13040545	17	2.5	17	100	0	84	21	23	11	42	1.86
13041254--13041368	58	2.0	56	96	3	212	20	21	8	48	1.76
13041501--13041554	17	3.1	18	77	20	69	5	14	0	79	0.90
13041488--13041589	47	2.2	46	83	10	120	7	15	0	75	1.08
13041488--13041563	15	4.9	15	81	12	66	6	14	1	77	1.03
13041536--13041603	35	1.9	35	85	5	93	8	16	0	75	1.05
13041524--13041595	24	3.3	21	74	14	74	8	15	0	76	1.01
13044544--13044585	18	2.4	18	84	11	52	33	16	9	40	1.81
13044592--13044644	17	3.1	17	86	0	79	41	13	5	39	1.68
13047640--13047678	19	2.1	19	95	0	69	20	38	15	25	1.92
13047626--13047784	65	2.5	65	86	3	205	30	25	16	27	1.97
13049860--13049899	20	2.0	21	85	14	57	37	15	5	42	1.68
13049859--13049903	20	2.2	20	80	11	56	40	13	4	42	1.64
13054792--13054835	21	2.1	21	82	0	52	9	34	15	40	1.79
13055863--13055901	19	2.1	19	95	0	69	20	38	15	25	1.92
13055849--13056007	65	2.5	65	86	3	205	30	25	16	27	1.97
13057222--13057263	18	2.4	18	84	11	52	33	16	9	40	1.81
13057270--13057305	17	2.1	17	94	0	63	38	11	5	44	1.63
13063714--13063893	65	2.8	64	82	7	213	29	24	18	27	1.98
13063664--13063873	65	3.2	66	80	8	211	30	24	18	26	1.98
13063845--13063893	19	2.6	19	84	9	57	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13069946--13069978	15	2.2	15	94	0	57	30	6	12	51	1.63
13070295--13070406	6	18.7	6	81	3	109	30	9	7	52	1.61
13070295--13070406	36	3.1	36	90	0	170	30	9	7	52	1.61
13074892--13075497	227	2.7	225	88	3	867	35	16	13	34	1.88
13075321--13075661	172	2.0	171	86	2	479	35	15	13	35	1.87
13076350--13076413	30	2.1	30	91	0	101	42	14	20	23	1.88
13077665--13077704	21	1.9	21	84	0	53	50	0	0	50	1.00
13077823--13077890	30	2.2	32	81	7	77	54	2	0	42	1.15
13089400--13089558	82	1.9	82	87	0	228	44	5	12	37	1.64
13091057--13092180	564	2.0	564	92	1	1876	38	17	12	31	1.87

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