genome.fa.s9634.2.7.7.80.10.50.1000.76.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  76  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)
16250752--16250802	19	2.6	20	87	3	68	45	5	15	33	1.71
16256687--16256732	5	9.2	5	100	0	92	80	0	19	0	0.71
16256987--16257028	22	1.9	22	85	9	59	69	4	9	16	1.33
16257575--16257626	21	2.6	21	90	6	81	34	13	5	46	1.67
16261779--16261822	19	2.2	21	76	19	58	9	15	15	59	1.61
16264388--16264454	26	2.6	26	82	0	98	17	29	20	31	1.96
16286702--16286752	19	2.6	20	87	3	68	45	5	15	33	1.71
16296525--16296564	5	8.2	5	88	5	64	77	2	20	0	0.88
16306608--16306692	11	7.2	12	74	20	65	29	2	37	30	1.70
16306598--16306692	35	2.7	35	95	3	165	28	3	37	30	1.73
16310577--16310621	22	2.0	23	91	4	74	26	4	37	31	1.76
16310589--16310660	36	2.0	38	89	10	116	29	5	34	30	1.80
16312518--16312560	19	2.1	21	87	8	63	67	0	11	20	1.22
16312974--16313025	21	2.6	21	84	6	72	46	5	13	34	1.67
16321054--16321105	24	2.2	24	82	0	59	30	19	21	28	1.97
16322525--16323160	318	2.0	317	95	0	1137	35	11	25	27	1.90
16327431--16327514	35	2.4	36	82	4	100	30	2	36	29	1.70
16336917--16336959	15	2.9	15	86	3	52	67	0	20	11	1.22
16337154--16337189	13	2.8	13	91	0	54	36	0	38	25	1.56
16339041--16339092	21	2.6	21	88	11	74	48	7	11	32	1.68
16342426--16342499	35	2.2	33	86	13	105	5	14	4	75	1.13
16342421--16342502	17	4.7	17	70	15	60	4	15	4	74	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16343201--16343251	19	2.5	21	90	6	79	47	7	13	31	1.72
16348330--16348386	26	2.1	27	84	9	73	66	8	19	5	1.38
16352276--16352416	36	3.9	36	93	0	221	29	4	34	31	1.77
16352333--16352399	13	5.5	12	75	21	52	26	4	37	31	1.77
16352757--16352807	19	2.6	20	87	3	68	45	5	17	31	1.72
16356214--16356264	19	2.6	20	90	3	77	43	5	15	35	1.71
16358084--16358135	21	2.6	21	90	6	81	32	13	7	46	1.72
16358547--16358588	19	2.2	19	91	8	68	26	14	0	59	1.35
16366240--16366309	20	3.6	19	82	5	86	35	11	5	47	1.64
16366254--16366309	20	2.8	20	91	0	94	39	10	5	44	1.62
16367043--16367112	20	3.6	19	82	5	86	35	11	5	47	1.64
16367057--16367112	20	2.8	20	91	0	94	39	10	5	44	1.62
16365931--16367538	803	2.0	803	100	0	3216	29	24	13	32	1.94
16371432--16371514	35	2.3	36	79	4	96	30	36	2	31	1.71
16375783--16376418	318	2.0	317	95	0	1155	27	25	11	35	1.90
16376514--16376590	40	1.9	39	82	12	95	58	12	19	9	1.61
16377838--16377889	24	2.2	24	82	0	59	28	21	19	30	1.97
16378709--16378760	24	2.2	24	82	0	59	28	21	19	30	1.97
16377107--16378848	871	2.0	872	99	0	3468	34	16	21	27	1.95
16387358--16387404	25	2.0	24	84	16	62	0	17	8	74	1.05
16391343--16391389	25	2.0	24	84	16	62	0	17	8	74	1.05
16396659--16396709	21	2.5	21	87	6	70	35	11	5	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16397126--16397168	19	2.1	21	87	8	63	20	11	0	67	1.22
16399040--16399124	11	7.2	11	72	22	66	31	36	3	28	1.74
16399037--16399133	36	2.7	36	95	1	169	29	37	5	27	1.79
16399591--16399637	14	3.1	15	75	12	51	72	6	19	2	1.17
16403014--16403110	36	2.7	36	95	1	169	29	37	5	27	1.79
16403017--16403101	11	7.2	11	72	22	66	31	36	3	28	1.74
16404966--16405008	19	2.1	21	87	8	63	67	0	11	20	1.22
16405425--16405476	21	2.6	21	84	6	72	46	5	13	34	1.67
16408421--16408506	13	7.2	12	72	22	58	29	3	37	30	1.74
16408405--16408507	36	2.9	36	94	1	172	28	4	36	30	1.78
16412397--16412482	13	7.2	12	72	22	58	29	3	37	30	1.74
16412387--16412483	36	2.7	36	95	1	169	27	5	37	29	1.79
16415484--16415555	34	2.2	32	85	11	94	6	16	2	73	1.17
16425197--16425249	21	2.6	21	93	3	90	35	13	5	45	1.67
16432048--16432181	36	3.7	36	89	0	205	28	37	5	29	1.79
16436440--16436580	36	3.9	36	88	0	201	27	36	4	30	1.78
16436994--16437058	33	2.0	32	82	8	78	33	1	32	32	1.67
16444586--16444637	21	2.6	21	84	6	72	48	3	13	34	1.61
16445140--16445207	35	1.9	36	93	3	120	29	2	36	30	1.72
16448375--16448417	20	2.0	23	86	13	65	65	0	9	25	1.22
16448375--16448429	20	2.6	22	80	13	62	65	0	9	25	1.22
16452027--16452091	19	3.2	19	75	23	60	6	18	1	73	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16452015--16452086	34	2.2	31	85	11	92	8	16	2	72	1.21
16452801--16452852	19	2.6	21	90	6	81	46	5	13	34	1.67
16461430--16461481	22	2.3	23	90	3	79	30	1	34	32	1.69
16461450--16461557	36	3.0	36	98	0	207	28	4	36	30	1.78
16461448--16461556	11	9.2	12	69	25	56	29	3	36	30	1.75
16472799--16472866	35	1.9	36	90	3	111	30	2	35	30	1.73
16474310--16474353	18	2.4	18	88	0	61	15	6	36	40	1.74
16476721--16476760	19	2.0	20	90	4	64	20	15	0	65	1.28
16481543--16481651	35	3.1	35	85	2	148	27	35	2	33	1.71
16482046--16482090	23	1.9	24	81	4	56	80	4	15	0	0.87
16482051--16482092	16	2.6	16	77	11	50	80	2	16	0	0.81
16487437--16487541	36	2.9	36	92	1	167	28	4	36	30	1.78
16487601--16487646	23	2.0	23	100	0	92	30	8	26	34	1.86
16487902--16487952	19	2.6	20	87	3	68	45	5	15	33	1.71
16491642--16491769	36	3.6	36	95	1	222	27	5	35	31	1.80
16491642--16491784	72	2.0	71	89	4	216	27	5	32	33	1.80
16495383--16495483	35	2.9	35	81	1	130	27	32	3	35	1.76
16497452--16497504	2	27.5	2	77	7	56	50	0	0	49	1.00
16497457--16497566	51	2.1	52	85	9	154	49	0	0	50	1.00
16497565--16497608	12	3.6	12	93	3	70	11	22	45	20	1.83
16497636--16497698	29	2.2	29	91	0	99	20	38	9	31	1.85
16497636--16497710	29	2.6	29	86	0	87	21	34	9	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16497987--16498029	19	2.2	20	87	4	61	32	11	6	48	1.66
16498817--16498855	11	3.2	12	82	10	53	79	2	17	0	0.84
16498817--16498855	6	6.5	6	82	11	53	79	2	17	0	0.84
16503393--16503431	20	2.0	20	85	10	53	30	10	33	25	1.89
16504846--16504889	6	7.2	6	82	12	54	79	2	18	0	0.83
16505178--16505226	17	2.9	17	93	0	80	34	32	4	28	1.76
16509871--16509929	10	5.8	10	84	4	64	86	6	6	0	0.71
16509871--16509927	14	3.9	14	75	11	53	85	7	7	0	0.73
16509874--16509930	21	2.5	21	86	13	69	85	7	7	0	0.73
16509871--16509937	34	2.0	34	88	5	100	83	8	7	0	0.81
16519588--16519673	11	7.3	11	72	22	68	31	36	3	29	1.74
16519585--16519689	36	2.9	36	94	1	176	30	35	4	29	1.78
16520130--16520176	14	3.1	15	75	12	51	72	6	19	2	1.17
16523768--16523833	13	5.5	11	74	22	62	33	34	3	28	1.73
16523746--16523850	36	2.9	36	94	1	176	30	35	4	29	1.78
16524293--16524337	14	2.9	15	87	12	65	77	2	20	0	0.87
16526630--16526677	15	3.1	15	88	11	62	6	12	0	81	0.87
16533357--16533407	20	2.6	20	93	3	86	47	5	13	33	1.67
16540457--16540541	11	7.2	11	72	22	66	31	36	3	28	1.74
16540454--16540556	36	2.9	36	95	1	181	30	35	4	29	1.78
16544495--16544579	11	7.2	11	72	22	66	31	36	3	28	1.74
16544492--16544596	36	2.9	36	95	1	185	30	36	4	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16553985--16554028	17	2.6	17	85	10	63	0	18	4	77	0.94
16555639--16555686	23	2.0	24	88	8	71	47	6	6	39	1.54
16556176--16556244	34	2.1	33	83	8	86	31	1	36	30	1.67
16560529--16560597	34	2.1	33	83	8	86	33	1	36	28	1.67
16563497--16563539	23	1.9	21	81	13	50	34	13	18	32	1.90
16564748--16564776	15	2.0	15	93	6	51	0	20	3	75	0.94
16564771--16564825	24	2.3	23	78	3	56	9	10	16	63	1.51
16568302--16568341	21	1.9	21	84	0	53	35	22	7	35	1.82
16568723--16568789	34	2.0	34	90	0	107	28	29	10	31	1.90
16581452--16581487	17	2.1	17	100	0	72	22	27	16	33	1.95

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