genome.fa.s190.2.7.7.80.10.50.1000.50.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  50  of  62  ( 7381 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)
11687239--11687265	14	1.9	14	100	0	54	29	7	22	40	1.81
11689653--11689728	29	2.6	29	93	0	134	42	14	13	30	1.84
11694383--11694456	29	2.6	29	97	0	139	40	13	14	31	1.85
11697970--11698143	89	2.0	88	94	2	303	37	11	6	44	1.68
11710607--11710706	33	3.0	33	86	0	146	34	22	17	27	1.95
11717015--11717053	20	2.0	20	89	0	60	41	15	20	23	1.90
11717707--11717773	33	2.0	33	97	0	125	29	25	17	26	1.98
11717742--11717862	57	2.2	56	82	4	145	27	23	17	32	1.96
11723443--11723484	22	1.9	22	90	0	66	57	9	19	14	1.64
11724168--11724192	2	12.5	2	100	0	50	52	0	0	48	1.00
11728230--11728267	18	2.2	18	85	4	51	39	18	5	36	1.73
11728578--11728655	3	25.7	3	82	12	97	34	0	0	65	0.93
11728578--11728654	27	2.8	27	92	2	118	33	0	0	66	0.92
11732040--11732064	12	2.1	12	100	0	50	36	16	48	0	1.46
11741521--11741592	12	5.7	12	77	19	67	81	0	18	0	0.68
11741520--11741591	15	5.3	14	77	15	80	83	0	16	0	0.65
11741522--11741591	25	2.7	27	78	14	85	82	0	17	0	0.66
11741519--11741592	26	2.7	27	80	12	89	81	0	18	0	0.70
11743318--11744199	124	7.3	124	81	11	1050	40	14	19	26	1.89
11743445--11743866	112	3.7	113	79	15	522	37	13	20	28	1.90
11743203--11744199	236	4.2	234	90	4	1427	39	14	19	26	1.90
11743794--11744198	120	3.3	121	88	4	580	41	15	18	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11743306--11744199	356	2.5	353	80	11	1030	40	14	18	26	1.89
11744465--11744544	3	26.0	3	85	9	108	35	0	0	65	0.93
11744465--11744544	43	1.9	42	87	7	119	35	0	0	65	0.93
11750005--11750283	135	2.1	136	86	5	386	25	14	18	41	1.88
11755144--11755193	23	2.2	23	81	0	55	42	10	28	20	1.84
11755151--11755194	23	1.9	23	90	0	70	34	9	31	25	1.87
11757138--11757172	2	18.0	2	94	5	63	48	0	0	51	1.00
11757137--11757179	12	3.4	12	87	6	50	51	0	2	46	1.13
11757605--11757651	23	2.0	24	91	4	78	23	21	25	29	1.99
11761058--11761453	58	6.8	58	90	0	612	35	19	10	33	1.86
11761888--11761926	20	2.0	20	90	5	62	20	30	15	33	1.94
11765865--11765896	15	2.1	15	94	0	55	15	50	9	25	1.74
11768013--11768398	58	6.8	58	88	5	574	36	19	10	34	1.86
11768013--11768398	165	2.3	168	89	4	571	36	19	10	34	1.86
11768140--11768344	107	1.9	107	94	0	365	37	20	8	34	1.83
11768822--11768874	19	2.7	19	85	2	70	20	24	16	37	1.93
11773768--11773806	20	2.0	20	84	0	51	33	23	7	35	1.83
11775577--11775652	38	2.0	38	94	0	134	25	30	25	19	1.98
11779470--11779508	20	2.0	20	89	0	60	33	23	10	33	1.88
11782538--11782579	17	2.5	17	80	11	50	35	26	0	38	1.57
11783713--11783751	14	2.8	14	84	0	51	35	28	12	23	1.91
11787974--11788380	59	6.9	59	95	0	670	37	12	21	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11788036--11788134	31	3.3	31	63	23	84	40	11	20	28	1.86
11789705--11789739	10	3.7	10	85	14	56	42	0	0	57	0.99
11789706--11789739	2	17.0	2	87	0	50	44	0	0	55	0.99
11791786--11791831	18	2.6	18	93	3	76	32	8	30	28	1.87
11795533--11795573	20	2.0	21	85	9	57	17	12	26	43	1.84
11795644--11795830	75	2.5	74	85	4	241	24	19	26	29	1.98
11798413--11798471	23	2.7	21	87	7	82	33	15	28	22	1.94
11798413--11798476	21	3.0	21	86	6	83	31	14	29	25	1.94
11802864--11803049	75	2.5	74	76	15	195	25	19	26	27	1.99
11806951--11806990	20	2.0	20	85	0	53	35	22	7	35	1.82
11817637--11817676	18	2.2	18	86	0	53	70	7	5	17	1.30
11822451--11822490	21	1.9	21	94	0	71	32	25	15	27	1.95
11825834--11825858	5	5.0	5	100	0	50	0	40	0	60	0.97
11829353--11829518	85	2.0	85	80	7	194	29	19	19	31	1.97
11829496--11829544	13	3.8	13	86	0	71	30	18	20	30	1.96
11830311--11830351	21	2.0	21	90	0	64	34	29	12	24	1.91
11834528--11834560	16	2.1	16	94	0	57	51	27	0	21	1.48
11836509--11836561	23	2.4	22	84	6	79	32	20	33	13	1.91
11840371--11840413	21	2.0	22	86	4	61	34	6	4	53	1.49
11845978--11846179	36	5.8	33	77	12	144	40	22	4	32	1.74
11845978--11846179	69	2.9	69	83	3	208	40	22	4	32	1.74
11846009--11846186	36	5.0	36	83	4	200	40	23	5	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11851693--11851914	75	3.0	75	91	1	338	20	30	15	32	1.94
11852768--11852797	9	3.3	9	100	0	60	50	0	0	50	1.00
11854019--11854045	10	2.7	10	100	0	54	37	22	22	18	1.95
11854476--11854661	42	4.4	42	83	4	232	33	17	19	28	1.95
11854476--11854661	86	2.2	84	90	2	284	33	17	19	28	1.95
11855058--11855126	21	3.3	21	82	8	79	1	39	17	42	1.58
11864001--11864054	27	2.0	27	88	0	81	25	16	12	44	1.84
11864585--11864632	23	2.1	23	100	0	96	41	22	8	27	1.82
11866142--11866590	229	2.0	227	94	0	790	45	8	7	39	1.61
11866656--11866702	20	2.4	19	89	10	76	55	10	17	17	1.69
11866821--11866867	20	2.4	19	79	10	58	55	8	17	19	1.67
11869171--11869236	33	2.0	33	87	0	96	28	1	45	24	1.62
11871035--11871078	19	2.4	19	92	3	72	31	2	9	56	1.43
11871161--11872579	199	7.1	199	98	0	2637	37	14	15	32	1.88
11874042--11874109	21	3.4	18	69	21	55	36	8	35	19	1.83
11874042--11874139	6	16.3	6	80	0	70	36	7	34	21	1.81
11874057--11874143	3	29.0	3	77	0	84	35	5	34	24	1.79
11874045--11874135	42	2.2	42	91	0	146	35	7	35	21	1.83
11874042--11874139	18	5.4	18	78	0	88	36	7	34	21	1.81
11875511--11876366	184	4.7	184	97	0	1606	34	15	15	34	1.89
11878925--11878987	23	2.7	23	90	0	90	36	6	19	38	1.77
11878925--11878997	23	3.2	23	86	3	85	35	5	19	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11879356--11879418	23	2.7	23	90	0	90	36	6	19	38	1.77
11879356--11879428	23	3.2	23	86	3	85	35	5	19	39	1.75
11879786--11879848	23	2.7	23	90	0	90	36	6	19	38	1.77
11879786--11879858	23	3.2	23	86	3	85	35	5	19	39	1.75
11878826--11880277	430	3.4	431	99	0	2883	40	8	13	38	1.74
11880215--11880279	23	2.8	23	90	0	94	35	7	18	38	1.80
11880483--11880519	18	2.1	18	89	0	56	32	5	10	51	1.60
11881607--11881647	21	2.0	21	85	9	57	36	19	7	36	1.80
11883561--11883604	22	2.0	22	86	0	61	22	0	13	63	1.29
11884390--11884474	41	2.1	41	93	0	143	47	9	9	34	1.68
11887206--11887301	47	2.0	47	95	0	174	35	6	13	44	1.69
11894543--11894602	30	2.0	30	100	0	120	33	16	13	36	1.88
11895879--11895970	29	3.1	29	77	10	96	44	6	4	44	1.49
11895879--11895965	31	2.9	30	77	11	97	44	6	4	43	1.51
11902826--11902864	20	1.9	21	89	5	62	38	17	20	23	1.93
11903737--11903785	22	2.1	24	82	14	59	22	8	36	32	1.84
11904453--11904525	21	3.4	21	68	20	69	21	10	27	39	1.87
11904454--11904584	44	3.0	44	89	1	190	22	16	25	35	1.95
11904472--11904589	21	5.3	22	66	13	71	23	17	23	34	1.96
11917962--11918009	18	2.7	17	84	15	53	70	2	18	8	1.22
11917998--11918066	24	2.8	23	74	10	57	73	1	20	4	1.07
11917943--11918079	19	7.3	19	68	20	67	70	0	21	6	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11919226--11919906	55	12.6	55	89	4	753	27	16	25	29	1.97
11920259--11920295	18	2.1	18	89	0	56	64	5	24	5	1.36
11927920--11927962	23	1.9	21	81	13	50	34	13	18	32	1.90
11929207--11929235	15	2.0	15	93	6	51	0	20	3	75	0.94
11929230--11929287	28	2.1	27	83	3	71	8	15	15	60	1.58
11931605--11931676	20	3.6	19	72	22	58	29	15	29	26	1.96
11931529--11931735	95	2.2	97	82	11	252	32	15	23	28	1.95
11931549--11931770	95	2.3	95	81	8	238	31	16	22	29	1.96
11932109--11932377	55	4.9	55	86	1	362	27	19	22	30	1.98
11938618--11938672	22	2.7	20	81	10	65	27	16	30	25	1.96

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