genome.fa.s8488.2.7.7.80.10.50.1000.42.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  42  of  54  ( 6450 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)
10062976--10063005	15	1.9	16	93	6	53	66	6	3	23	1.30
10068336--10068367	17	1.9	16	93	6	55	28	21	6	43	1.77
10070526--10070692	85	2.0	85	93	0	289	45	17	9	26	1.80
10075119--10075174	11	4.9	11	78	6	58	66	0	23	10	1.23
10075119--10075176	23	2.5	23	91	0	98	65	0	24	10	1.23
10075878--10075930	10	5.7	9	79	16	54	39	0	3	56	1.17
10075881--10075940	20	3.2	20	76	21	67	36	0	3	60	1.14
10079827--10079870	22	2.0	22	100	0	88	31	4	36	27	1.77
10079828--10079877	22	2.3	22	92	0	82	34	4	36	26	1.75
10082258--10082299	19	2.1	21	86	8	61	19	21	14	45	1.85
10087931--10087992	25	2.6	23	75	12	63	35	20	1	41	1.62
10094723--10094751	2	14.5	2	100	0	58	51	0	0	48	1.00
10106865--10106923	18	3.3	18	78	2	75	22	6	13	57	1.59
10110895--10110944	19	2.5	20	80	3	66	52	2	16	30	1.55
10112421--10112468	20	2.4	20	100	0	96	31	22	18	27	1.97
10119396--10119578	91	2.0	89	94	2	321	36	15	12	36	1.84
10121494--10121538	21	2.1	21	83	0	54	40	6	13	40	1.71
10121909--10121948	20	2.0	20	90	5	62	50	30	0	20	1.49
10121909--10121955	20	2.3	21	85	3	60	48	34	0	17	1.47
10122855--10122915	29	2.1	29	90	0	95	42	11	9	36	1.74
10123741--10123814	35	2.1	35	92	0	121	43	25	0	31	1.55
10124884--10124953	35	2.0	35	94	0	122	31	0	24	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10128507--10128731	110	2.0	110	100	0	450	28	20	19	31	1.97
10128739--10128848	54	2.0	54	100	0	220	21	19	23	35	1.96
10129800--10129841	2	21.0	2	100	0	84	50	0	0	50	1.00
10134796--10134833	6	6.0	6	88	11	58	34	0	2	63	1.09
10134795--10134836	7	6.3	7	88	5	52	33	0	2	64	1.07
10159528--10159560	7	4.7	7	100	0	66	24	0	0	75	0.80
10159528--10159572	21	2.1	21	87	0	63	22	2	2	73	1.05
10174433--10174605	66	2.7	66	88	3	235	38	15	17	27	1.91
10175196--10175272	22	3.5	22	94	0	136	11	25	32	29	1.91
10182141--10182215	22	3.5	22	92	1	125	14	24	30	30	1.95
10182200--10182252	18	2.9	18	100	0	106	16	22	33	26	1.96
10184285--10184432	75	2.0	74	89	1	224	37	23	16	21	1.93
10184281--10184436	37	4.2	37	90	1	222	37	24	16	21	1.93
10184526--10184550	13	1.9	13	100	0	50	32	24	20	24	1.98
10184396--10184595	93	2.2	92	80	4	249	31	20	20	29	1.97
10184538--10184668	42	3.1	41	79	7	140	26	21	22	29	1.99
10185187--10185975	53	14.9	53	88	0	1128	30	20	26	21	1.98
10197143--10197227	21	4.0	21	73	0	71	35	14	15	35	1.87
10200681--10200762	42	2.0	42	90	0	128	37	15	17	29	1.91
10201767--10201914	74	2.0	74	98	0	287	30	6	18	43	1.76
10202340--10202443	45	2.3	45	85	3	129	35	20	20	24	1.96
10202451--10202531	24	3.5	24	88	6	116	34	18	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10202832--10202874	19	2.3	19	95	0	77	25	0	27	46	1.53
10206602--10206639	20	1.9	20	94	0	67	36	21	18	23	1.95
10211192--10211247	24	2.4	24	82	11	64	12	10	5	71	1.29
10218279--10218329	13	3.8	13	71	19	50	58	15	3	21	1.53
10218329--10218361	2	16.5	2	100	0	66	51	0	0	48	1.00
10226236--10226291	20	2.7	22	78	15	66	39	14	14	32	1.86
10230674--10230716	17	2.4	18	88	3	61	58	0	0	41	0.98
10230761--10230805	20	2.4	19	81	7	56	44	2	4	48	1.35
10232024--10232068	22	2.0	22	83	8	56	55	11	2	31	1.47
10232956--10232991	17	2.1	17	100	0	72	27	50	0	22	1.50
10233866--10234014	29	5.2	29	74	9	119	46	19	2	32	1.61
10234023--10234057	18	1.9	18	94	0	61	17	22	42	17	1.88
10240372--10240685	160	2.0	152	87	7	450	20	15	17	46	1.84
10240678--10240711	3	11.3	3	100	0	68	0	0	67	32	0.91
10248966--10249152	93	2.0	94	98	1	367	35	16	24	23	1.94
10252160--10252197	19	2.0	19	94	0	67	39	0	13	47	1.42
10252160--10252209	19	2.7	18	87	3	64	36	0	18	46	1.49
10252691--10252775	43	2.0	43	97	0	161	35	12	9	42	1.76
10254585--10254684	37	2.7	37	89	1	157	26	12	17	45	1.83
10257790--10257822	16	2.1	16	94	0	57	39	6	15	39	1.72
10265516--10265929	206	2.0	208	99	0	814	36	15	19	28	1.92
10266105--10266145	19	2.2	19	95	0	73	31	19	31	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10269239--10269299	30	2.0	30	93	0	104	27	6	34	31	1.83
10270451--10270522	21	3.6	21	94	5	123	29	11	27	31	1.91
10285153--10285198	23	2.0	23	83	4	58	60	2	0	36	1.09
10285181--10285224	19	2.2	20	84	4	54	63	13	2	20	1.40
10287897--10287946	25	2.0	25	100	0	100	28	12	24	36	1.91
10290322--10290373	23	2.3	23	100	0	104	26	26	21	25	1.99
10293167--10293238	3	23.3	3	88	5	108	36	2	0	61	1.11
10293173--10293236	22	2.9	22	100	0	128	35	3	0	60	1.12
10294858--10294899	19	2.3	19	88	8	61	42	4	0	52	1.22
10295485--10295561	28	2.7	28	70	8	66	31	6	2	59	1.36
10300108--10300143	8	4.4	8	96	3	63	75	0	25	0	0.81
10303768--10303844	22	3.5	22	82	3	93	35	14	14	36	1.86
10304507--10304719	76	2.8	78	88	2	304	25	19	19	35	1.95
10304660--10305394	45	16.3	45	90	0	1148	22	21	19	36	1.95
10305629--10305690	3	20.0	3	86	6	88	35	1	0	62	1.05
10307199--10307234	7	5.0	7	96	3	63	16	0	0	83	0.65
10307350--10307392	19	2.3	19	88	4	61	44	4	0	51	1.22
10310196--10310228	15	2.2	15	100	0	66	21	21	18	39	1.93
10312223--10312263	3	13.7	3	94	0	73	29	0	0	70	0.87
10312686--10312900	105	2.0	105	87	0	304	43	13	22	20	1.86
10315439--10315477	19	2.2	17	86	13	53	17	10	5	66	1.39
10320821--10320872	19	2.7	19	96	0	95	28	32	21	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10320755--10320917	84	2.0	83	84	6	213	31	24	19	24	1.98
10326155--10326190	15	2.4	15	90	9	56	69	0	8	22	1.15
10333642--10333684	20	2.2	20	86	0	59	34	16	13	34	1.88
10342231--10342268	16	2.4	16	100	0	76	28	10	28	31	1.90
10342802--10342906	21	5.1	21	70	4	97	18	18	25	38	1.93
10342806--10342906	41	2.5	39	98	0	139	18	18	24	37	1.94
10342831--10342903	20	3.6	20	75	3	83	15	20	24	39	1.91
10342949--10342999	22	2.3	22	93	0	84	13	17	29	39	1.88
10342895--10343037	77	1.9	76	94	1	250	21	16	23	38	1.93
10343117--10343168	6	8.7	6	95	0	95	32	50	15	1	1.55
10343658--10343772	6	20.2	6	80	14	129	1	19	43	35	1.61
10343651--10343747	34	2.8	34	86	7	117	1	21	41	36	1.60
10343690--10343772	17	4.8	17	91	7	132	1	16	46	34	1.55
10343658--10343772	23	5.0	23	86	8	148	1	19	43	35	1.61
10343871--10343964	22	4.4	22	76	8	104	39	24	17	19	1.92
10343912--10344176	41	6.5	41	92	1	408	36	23	20	19	1.95
10345979--10346117	21	6.8	20	70	8	73	35	25	17	20	1.95
10346085--10346278	40	4.8	39	83	3	199	36	26	18	18	1.94
10346085--10346277	60	3.2	60	82	3	235	36	26	18	18	1.94
10346085--10346275	20	9.5	20	86	2	96	36	26	18	18	1.94
10346655--10346725	33	2.2	33	92	0	115	12	23	15	47	1.80
10346805--10346912	21	5.7	20	74	15	95	45	19	24	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10346805--10346881	21	3.8	20	82	5	100	45	16	24	12	1.83
10346804--10346881	41	1.9	41	97	0	147	44	16	25	12	1.83
10346817--10346923	19	5.7	19	71	16	80	46	20	22	10	1.80
10346919--10347046	19	7.1	19	70	19	78	10	24	18	46	1.81
10346924--10347046	33	3.5	33	85	10	156	10	23	18	47	1.80
10346941--10346997	14	3.7	14	70	20	51	8	22	22	45	1.80
10346982--10347046	21	3.1	21	82	4	96	10	26	15	47	1.78
10346981--10347044	20	3.2	20	82	4	92	12	25	15	46	1.81
10348740--10349208	93	5.1	93	99	0	922	21	12	19	46	1.83
10349253--10349380	19	7.3	19	74	19	116	47	27	15	9	1.76

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