genome.fa.s9643.2.7.7.80.10.50.1000.34.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  34  of  41  ( 4862 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)
7282018--7282058	3	13.7	3	94	0	73	34	0	0	65	0.93
7282852--7282919	2	34.5	2	94	2	120	48	0	1	50	1.10
7290179--7290299	60	2.0	60	82	6	147	38	11	12	38	1.79
7290672--7290709	17	2.2	18	85	4	51	42	13	2	42	1.57
7291952--7291976	2	12.5	2	100	0	50	52	0	0	48	1.00
7296356--7296398	20	2.2	20	87	8	61	69	0	0	30	0.88
7296621--7296893	84	3.2	84	82	1	312	22	19	26	31	1.98
7297041--7298739	106	16.0	106	93	0	2769	23	17	25	33	1.96
7301622--7301654	17	1.9	17	93	0	57	72	9	12	6	1.26
7302735--7302778	19	2.2	21	84	8	56	70	2	6	20	1.21
7304182--7304224	20	2.2	20	87	8	61	69	0	0	30	0.88
7304602--7304630	13	2.1	14	93	6	51	55	0	0	44	0.99
7304693--7304768	21	3.6	21	70	18	59	72	1	3	22	1.09
7306221--7306274	22	2.5	22	76	11	58	74	0	5	20	1.02
7310489--7310523	3	11.3	3	93	6	61	68	0	0	31	0.90
7310492--7310523	16	2.0	16	100	0	64	68	0	0	31	0.90
7310581--7310805	36	6.1	36	75	14	192	42	8	5	43	1.58
7310675--7310699	11	2.3	11	100	0	50	44	8	8	40	1.63
7310711--7310735	12	2.1	12	100	0	50	44	8	8	40	1.63
7310581--7310805	74	3.1	71	82	8	222	42	8	5	43	1.58
7310872--7310910	18	2.2	18	85	0	51	51	2	10	35	1.50
7311537--7312375	169	5.1	163	86	4	823	24	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7311537--7312397	245	3.5	243	84	5	962	24	20	24	29	1.99
7315725--7315770	19	2.4	19	96	0	83	65	10	13	10	1.48
7316381--7316434	17	3.1	18	75	5	56	77	5	9	7	1.11
7316390--7316433	11	3.8	11	82	17	54	86	2	4	6	0.77
7318756--7318980	36	6.1	36	75	14	201	43	8	5	42	1.58
7318850--7318874	11	2.3	11	100	0	50	44	8	8	40	1.63
7318886--7318910	12	2.1	12	100	0	50	44	8	8	40	1.63
7322109--7322173	30	2.2	30	97	0	121	40	0	0	60	0.97
7322124--7322191	30	2.3	30	82	10	77	39	1	2	55	1.24
7322190--7322219	15	1.9	16	93	6	53	53	0	3	43	1.17
7322642--7322713	12	5.5	13	71	23	53	45	0	0	54	0.99
7322672--7322743	27	2.6	27	80	10	67	51	0	4	44	1.20
7327581--7327661	21	3.9	21	85	3	119	19	38	28	13	1.90
7327583--7327661	41	1.9	41	97	0	149	18	39	27	13	1.89
7328012--7328081	34	2.1	32	89	5	104	31	15	31	21	1.95
7328958--7329007	20	2.5	20	90	0	73	50	6	8	36	1.57
7330792--7330861	34	2.1	32	86	5	95	31	14	31	22	1.94
7334452--7334504	26	2.0	26	100	0	106	33	11	11	43	1.76
7335215--7335247	16	2.1	16	88	11	50	63	3	0	33	1.10
7335539--7335856	103	3.1	102	95	1	582	37	24	12	25	1.91
7336335--7336372	20	1.9	20	88	0	58	10	31	34	23	1.89
7346860--7346897	2	19.0	2	94	0	67	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7347427--7347462	19	1.9	18	88	5	54	19	0	11	69	1.18
7353568--7353648	32	2.6	31	78	5	92	41	12	9	35	1.76
7353556--7353634	30	2.6	30	82	7	90	43	10	7	39	1.67
7356351--7356413	28	2.2	28	100	0	126	44	14	11	30	1.79
7357145--7357184	20	2.0	20	85	9	55	25	10	10	55	1.64
7360446--7360471	11	2.4	11	100	0	52	34	7	38	19	1.80
7363393--7363532	60	2.3	60	91	2	219	37	13	12	36	1.82
7367522--7367550	14	2.0	15	93	6	51	13	51	13	20	1.75
7373446--7373484	20	2.0	20	85	10	53	25	17	15	41	1.89
7382186--7382249	32	2.0	32	96	0	119	25	14	21	39	1.91
7383606--7383694	44	2.0	44	100	0	178	24	24	8	41	1.84
7387323--7387500	89	2.0	88	96	1	329	47	19	7	25	1.76
7389738--7389773	13	2.8	13	86	0	54	38	0	5	55	1.23
7391805--7391838	15	2.3	15	90	10	52	58	14	8	17	1.61
7391805--7391839	16	2.3	15	85	5	52	60	14	8	17	1.58
7395537--7395672	39	3.5	39	98	0	263	33	12	25	27	1.92
7396105--7396190	16	5.4	16	84	1	102	20	23	12	43	1.86
7396304--7396337	18	1.9	18	88	5	52	26	32	26	14	1.95
7396563--7396667	37	2.8	37	80	0	120	40	15	11	32	1.83
7398683--7398811	64	2.0	65	87	4	190	27	25	26	20	1.99
7399188--7399246	30	2.0	30	90	6	93	38	3	23	33	1.72
7399460--7399526	22	3.0	22	95	0	125	19	25	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7405548--7405590	21	2.0	21	86	0	59	30	27	25	16	1.97
7405570--7405721	66	2.2	69	88	3	220	26	26	27	18	1.98
7406088--7406146	30	2.0	30	90	6	93	38	3	23	33	1.72
7406360--7406426	22	3.0	22	100	0	134	19	26	26	26	1.99
7407791--7407828	19	2.0	20	89	5	60	7	23	0	68	1.16
7411243--7411306	25	2.7	23	73	17	60	76	6	15	1	1.06
7412873--7414148	106	12.0	106	92	0	1987	33	24	18	22	1.97
7414901--7415002	37	2.8	37	86	0	132	41	12	14	31	1.84
7415917--7415999	24	3.5	24	68	15	64	20	8	4	66	1.37
7417516--7417598	42	2.0	42	85	4	114	27	59	6	7	1.48
7417593--7417630	18	2.1	18	85	9	51	21	57	10	10	1.61
7417634--7417668	18	1.9	18	88	0	52	25	54	5	14	1.62
7417656--7417697	12	3.5	12	83	6	50	30	59	9	0	1.29
7418278--7418344	3	22.7	3	96	3	127	32	0	0	67	0.91
7418705--7418901	107	1.9	104	83	11	262	28	21	12	37	1.89
7427726--7428136	4	102.8	4	98	0	786	25	0	25	48	1.56
7436252--7436291	20	2.0	20	90	0	62	20	35	25	20	1.96
7442075--7442133	21	2.8	21	70	12	57	20	20	30	28	1.97
7448469--7448503	18	1.9	18	100	0	70	17	28	20	34	1.95
7451895--7451972	23	3.3	23	73	8	77	33	21	19	25	1.97
7451979--7452196	103	2.1	103	97	0	409	36	23	13	26	1.92
7452986--7453143	64	2.5	64	76	8	151	27	21	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7460011--7460056	10	4.5	10	86	10	58	60	17	2	19	1.46
7460011--7460069	21	2.8	20	80	7	73	59	20	1	18	1.47
7461724--7461779	10	5.4	11	83	10	73	58	21	1	17	1.47
7461721--7461779	21	2.8	20	85	7	82	59	22	1	16	1.46
7465784--7465815	17	1.9	16	93	6	55	40	3	0	56	1.15
7468775--7468817	15	2.7	16	80	19	54	62	2	0	34	1.08
7472731--7472833	45	2.3	45	86	5	138	34	19	19	26	1.95
7472860--7472897	20	1.9	20	100	0	76	34	21	21	23	1.97
7473143--7473201	30	2.0	30	90	3	93	33	6	15	44	1.73
7475389--7475473	23	3.7	23	90	0	116	20	22	24	32	1.97
7475390--7475483	46	2.0	46	85	0	125	19	21	24	35	1.96
7478829--7478930	45	2.3	44	84	1	132	33	18	20	27	1.96
7478938--7479015	20	3.7	20	89	6	102	33	20	20	25	1.97
7481573--7481633	23	2.7	23	89	0	95	19	24	24	31	1.98
7490082--7490120	18	2.2	18	100	0	78	15	10	15	58	1.62
7505428--7505476	23	2.1	22	82	14	55	34	0	2	63	1.06
7507786--7508174	185	2.1	184	90	2	613	42	2	8	46	1.48
7511665--7511725	30	2.0	30	100	0	122	26	22	19	31	1.98
7513209--7513253	21	2.1	21	87	0	63	31	28	24	15	1.96
7514118--7514240	31	4.0	31	91	2	194	21	20	21	36	1.95
7517199--7517243	21	2.1	21	87	0	63	31	28	24	15	1.96
7518110--7518232	31	4.0	31	91	2	194	21	20	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7532178--7532217	21	1.9	21	85	10	55	60	5	2	32	1.32
7532739--7532798	22	2.8	22	87	2	77	46	1	3	48	1.28
7532759--7532812	22	2.5	22	87	0	72	48	5	1	44	1.37
7533993--7534073	31	2.6	31	82	7	94	38	7	8	45	1.63
7536191--7536272	2	41.0	2	100	0	164	50	0	0	50	1.00
7536678--7536710	16	2.2	15	89	10	50	33	24	12	30	1.91
7536875--7536947	26	2.8	26	93	0	119	34	16	4	45	1.66
7536875--7536957	26	3.2	26	87	3	96	38	15	3	42	1.65
7537026--7537114	44	2.0	44	86	0	124	46	5	8	39	1.59
7540859--7540956	48	2.0	48	92	0	160	26	18	26	28	1.98

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