genome.fa.s7999.2.7.7.80.10.50.1000.46.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  46  of  50  ( 5918 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)
10777395--10777505	37	3.1	35	77	13	127	41	10	17	30	1.83
10778124--10778336	4	52.8	4	86	3	284	30	0	20	48	1.53
10779548--10779629	17	4.9	17	70	22	59	2	17	8	71	1.21
10779537--10779636	47	2.1	50	88	5	152	4	17	8	71	1.26
10781632--10781694	30	2.1	30	85	8	83	53	11	17	17	1.71
10783669--10783779	30	3.6	30	80	8	116	54	9	17	18	1.70
10785438--10785482	3	15.0	3	85	0	63	64	4	0	31	1.13
10788926--10788960	14	2.4	15	90	4	54	65	2	2	28	1.21
10790079--10790157	23	3.4	23	84	5	106	32	22	25	18	1.97
10796164--10796192	5	5.8	5	100	0	58	82	0	0	17	0.66
10802624--10802672	23	2.1	23	85	7	64	57	10	0	32	1.32
10803109--10803661	279	2.0	279	94	0	980	28	26	16	29	1.97
10809041--10809086	24	1.9	24	86	0	65	30	26	23	19	1.98
10813671--10813747	36	2.1	36	100	0	154	63	10	2	23	1.38
10817484--10817527	20	2.2	20	83	4	52	29	4	25	40	1.75
10818403--10818526	61	2.0	61	90	0	194	30	11	21	36	1.89
10823253--10823322	23	3.0	22	84	12	86	28	0	0	71	0.86
10823253--10823320	25	2.8	24	86	8	86	26	0	0	73	0.83
10847215--10847250	15	2.4	15	90	0	63	38	16	16	27	1.90
10847253--10847293	16	2.6	16	88	3	57	31	19	9	39	1.84
10849658--10849703	23	2.0	23	100	0	92	26	47	4	21	1.69
10851638--10851720	20	4.2	20	78	9	89	40	24	15	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10851617--10851720	40	2.6	40	86	6	122	41	23	15	20	1.90
10851654--10851786	20	6.6	20	87	1	117	43	19	17	19	1.88
10851698--10851786	20	4.4	20	90	2	126	41	17	20	20	1.90
10851653--10851786	40	3.3	40	84	5	137	43	19	17	20	1.88
10852129--10852225	20	4.7	20	82	5	95	18	21	17	42	1.89
10852134--10852225	41	2.2	41	80	0	112	19	20	16	43	1.88
10852189--10852246	21	2.8	21	89	2	82	20	18	13	46	1.83
10852483--10852567	29	3.0	29	96	1	154	27	23	16	32	1.96
10853190--10853281	18	5.2	18	81	6	116	51	10	7	30	1.65
10853180--10853272	18	5.4	17	81	6	107	49	10	8	31	1.68
10853178--10853295	35	3.4	35	89	2	175	49	10	9	31	1.68
10861097--10861212	32	3.7	31	76	7	108	18	25	26	30	1.98
10864598--10864644	24	2.0	24	86	0	67	51	0	2	46	1.13
10865369--10865434	23	2.8	23	79	4	69	46	13	21	18	1.83
10866826--10866850	7	3.6	7	100	0	50	44	28	0	28	1.55
10867019--10867105	2	43.5	2	100	0	174	49	0	0	50	1.00
10868082--10868117	14	2.6	13	91	8	54	75	2	5	16	1.12
10868134--10868191	20	2.8	19	78	19	55	75	1	12	10	1.11
10869323--10869395	17	3.9	18	74	22	62	78	1	4	16	0.98
10869323--10869402	5	15.6	5	77	14	51	78	1	3	16	0.95
10869324--10869401	22	3.8	21	75	17	74	78	1	3	16	0.97
10869353--10869403	6	8.8	6	87	8	63	80	0	1	17	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10869409--10869826	37	11.4	36	78	11	365	46	6	2	44	1.40
10869569--10869636	26	2.6	26	86	4	75	45	7	2	44	1.46
10869584--10869636	26	2.0	25	89	7	79	45	7	1	45	1.42
10869595--10869706	43	2.7	42	81	11	135	47	8	0	43	1.39
10869484--10869757	69	3.9	68	81	8	257	45	6	2	45	1.41
10869809--10869837	2	14.5	2	100	0	58	51	0	0	48	1.00
10870160--10870230	2	35.5	2	97	0	133	50	47	0	1	1.09
10870265--10870410	35	4.0	35	81	12	161	46	1	6	45	1.38
10870375--10870433	26	2.3	26	94	5	104	44	0	8	47	1.33
10870340--10870458	61	2.0	60	90	5	186	43	0	8	47	1.39
10871546--10871593	25	2.0	25	87	4	71	50	4	0	45	1.21
10871534--10871812	37	7.4	37	80	14	263	46	6	1	44	1.39
10871534--10871781	35	6.6	37	83	11	260	47	6	1	45	1.37
10871530--10871711	77	2.4	76	88	8	259	45	6	1	46	1.37
10871795--10871851	2	29.0	2	96	3	107	50	0	0	49	1.00
10872578--10872610	7	5.0	7	89	10	52	24	0	0	75	0.80
10872578--10872610	13	2.5	14	85	14	52	24	0	0	75	0.80
10873399--10873447	22	2.2	23	85	10	66	53	0	12	34	1.39
10873286--10873655	188	2.0	188	90	1	580	41	12	12	32	1.81
10873587--10873628	22	1.9	23	85	9	61	59	0	7	33	1.25
10874664--10874703	19	2.1	19	85	0	53	47	5	7	40	1.54
10876469--10876532	29	2.4	28	75	12	71	71	10	10	6	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10890036--10890616	163	3.6	163	89	4	861	29	14	27	28	1.95
10890036--10890616	55	10.7	55	90	3	874	29	14	27	28	1.95
10890036--10890616	218	2.7	218	96	0	1038	29	14	27	28	1.95
10899516--10899560	21	2.1	22	84	12	67	33	13	22	31	1.92
10901404--10901481	21	3.6	21	79	6	93	33	26	20	19	1.96
10901397--10901484	44	2.0	44	90	0	140	32	25	20	21	1.97
10905508--10905546	20	2.0	20	89	0	60	20	15	33	30	1.94
10912776--10912827	20	2.7	19	87	3	68	23	19	28	28	1.98
10912776--10912829	19	2.8	20	85	2	74	24	18	27	29	1.98
10912795--10912835	19	2.2	19	86	0	55	26	14	26	31	1.95
10913927--10913966	21	1.9	21	100	0	80	32	15	20	32	1.93
10923380--10923419	21	1.9	21	94	0	71	35	15	17	32	1.91
10925016--10925056	19	2.2	19	95	0	73	9	36	19	34	1.85
10926753--10926840	46	1.9	46	90	4	142	23	15	12	47	1.80
10936999--10937043	16	2.8	17	86	10	67	48	24	15	11	1.77
10937577--10937678	2	51.5	2	94	1	179	48	0	1	50	1.12
10937689--10937766	41	1.9	41	84	5	104	47	5	3	43	1.43
10937730--10937812	43	1.9	44	82	7	107	50	0	2	46	1.14
10943351--10943407	23	2.5	23	94	0	105	14	24	10	50	1.73
10943750--10943789	18	2.2	19	90	4	64	40	0	0	60	0.97
10949864--10949892	11	2.6	11	100	0	58	41	10	17	31	1.83
10951128--10951192	29	2.2	29	83	5	78	50	15	20	13	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10984854--10984911	14	4.1	14	84	6	64	27	32	20	18	1.97
10984876--10984914	13	2.9	13	92	3	60	28	28	20	23	1.99
10988236--10988448	114	1.9	115	80	4	254	38	6	11	44	1.65
10988474--10988610	57	2.4	58	83	4	179	37	9	13	40	1.77
10991835--10991919	10	8.9	9	77	11	80	16	24	30	28	1.96
10991846--10991917	10	7.5	10	80	9	87	16	23	31	27	1.96
10991848--10991919	19	3.8	19	92	5	119	16	26	31	25	1.96
10991830--10991919	38	2.3	39	86	5	121	18	25	28	26	1.98
10991913--10991953	17	2.4	17	95	0	73	17	41	24	17	1.89
10999538--10999604	3	22.3	3	100	0	134	67	0	0	32	0.91
11010077--11010123	22	2.1	23	84	11	62	59	2	0	38	1.09
11015974--11016036	31	2.0	31	100	0	126	26	31	9	31	1.88
11020350--11020402	3	17.0	3	84	7	70	37	0	0	62	0.96
11021613--11021672	15	4.1	15	78	16	56	25	3	1	70	1.12
11021730--11021762	15	2.3	15	89	5	50	42	0	0	57	0.98
11022576--11022639	30	2.3	26	76	12	67	28	6	1	64	1.27
11024225--11024278	14	3.8	14	82	4	63	24	14	9	51	1.71
11027494--11027525	16	1.9	17	93	6	57	81	0	18	0	0.70
11029783--11030123	114	3.0	114	93	0	583	33	15	20	31	1.93
11032216--11032416	54	3.8	52	83	7	230	38	14	22	24	1.92
11032788--11032842	22	2.5	22	90	0	92	34	12	14	38	1.84
11033243--11037540	113	38.0	113	96	0	7801	39	15	16	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11037329--11037682	120	2.9	119	86	4	474	40	15	18	25	1.90
11037892--11037947	3	18.0	3	85	7	67	39	0	0	60	0.97
11039158--11039217	15	4.1	15	78	16	56	25	3	1	70	1.12
11039275--11039307	15	2.3	15	89	5	50	42	0	0	57	0.98
11039383--11039631	138	1.8	138	85	5	360	37	8	8	45	1.65
11040388--11040432	22	2.0	22	87	12	65	44	17	8	28	1.79
11041201--11041271	2	35.5	2	100	0	142	49	0	0	50	1.00
11045706--11045813	45	2.4	45	79	13	123	45	17	7	29	1.76
11047348--11047419	36	2.0	35	89	2	108	36	16	9	37	1.82
11052640--11052797	21	7.8	20	70	7	77	37	25	17	18	1.93

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