genome.fa.s9624.2.7.7.80.10.50.1000.33.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  33  of  38  ( 4514 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)
6670374--6670571	99	2.0	99	100	0	396	28	13	21	37	1.91
6674107--6674175	29	2.5	26	78	17	75	27	5	11	55	1.58
6676827--6676869	18	2.5	17	81	7	50	51	4	0	44	1.22
6676932--6676973	20	2.0	20	86	4	57	26	0	4	69	1.08
6677415--6677442	12	2.3	12	100	0	56	60	0	0	39	0.97
6679109--6679166	29	2.0	29	86	3	80	70	6	5	17	1.28
6679152--6679176	12	2.1	12	100	0	50	84	0	0	16	0.63
6679334--6679754	209	2.0	210	99	0	835	24	16	19	39	1.91
6685252--6685289	18	2.1	18	100	0	76	31	5	26	36	1.79
6685255--6685297	18	2.3	18	92	4	68	37	6	23	32	1.82
6695920--6695948	14	2.1	14	100	0	58	48	17	20	13	1.81
6698168--6698268	51	2.0	51	98	0	193	34	10	21	32	1.88
6700016--6700059	14	2.9	15	93	6	72	47	13	22	15	1.81
6703004--6703191	47	4.0	47	86	3	272	37	17	19	25	1.94
6707369--6707398	2	15.0	2	100	0	60	50	0	0	50	1.00
6707911--6707950	19	2.1	19	100	0	80	37	5	5	52	1.45
6707962--6708044	6	13.8	6	97	0	121	39	50	9	0	1.35
6712494--6712993	4	124.8	4	97	0	937	49	24	0	25	1.53
6715630--6715664	2	17.5	2	100	0	70	51	0	0	48	1.00
6716060--6716106	18	2.6	19	83	6	62	55	4	27	12	1.56
6717257--6718197	187	5.1	187	84	5	1178	41	9	17	32	1.81
6721752--6721824	6	12.0	6	79	2	74	30	2	5	61	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6721733--6721824	43	2.1	43	97	0	175	28	4	8	58	1.47
6726290--6726562	64	4.2	64	89	2	377	37	20	12	29	1.90
6726759--6726934	65	2.8	65	84	4	236	38	20	14	26	1.91
6726925--6726952	12	2.3	12	100	0	56	50	25	7	17	1.72
6729717--6729754	2	19.0	2	100	0	76	50	0	0	50	1.00
6730204--6730718	101	5.1	101	78	5	447	37	14	13	34	1.85
6730203--6730868	101	6.6	99	74	7	421	36	13	13	36	1.85
6732701--6732826	60	2.1	61	83	4	157	30	11	20	37	1.88
6740105--6740237	42	3.2	41	81	10	128	36	20	20	23	1.95
6740242--6740326	43	2.0	43	88	0	125	38	18	18	23	1.93
6744685--6744964	41	6.9	41	75	11	247	33	19	20	26	1.96
6745306--6745348	21	2.1	20	82	4	50	44	9	11	34	1.73
6747304--6747341	19	2.0	19	100	0	76	36	21	10	31	1.87
6747387--6747472	2	43.0	2	100	0	172	50	0	0	50	1.00
6749161--6749232	26	2.8	25	79	6	72	47	13	2	36	1.58
6749187--6749232	13	3.5	13	78	18	51	50	10	0	39	1.38
6749276--6749381	50	2.1	50	87	0	149	50	17	3	28	1.64
6751272--6751328	10	5.6	10	76	17	55	12	15	0	71	1.13
6751288--6751328	20	2.0	22	90	9	68	12	17	0	70	1.16
6758737--6758770	12	2.8	12	90	4	50	38	11	2	47	1.55
6761035--6761067	2	16.5	2	100	0	66	51	0	0	48	1.00
6762881--6762927	22	2.2	22	85	11	62	25	10	4	59	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6769584--6769614	15	2.0	16	93	6	55	35	6	12	45	1.68
6769512--6769758	127	1.9	129	86	5	349	34	14	19	31	1.92
6769710--6769742	17	2.0	17	88	5	50	33	6	6	54	1.50
6776234--6776268	18	1.9	18	88	0	52	22	22	28	25	1.99
6778500--6778533	17	2.0	17	94	0	59	44	5	0	50	1.26
6779417--6779579	23	7.0	23	71	18	90	15	3	5	76	1.10
6779425--6779592	31	5.8	28	68	23	89	14	3	4	76	1.08
6779422--6779586	38	4.4	37	70	25	114	15	3	4	76	1.07
6779477--6779586	47	2.4	47	83	6	136	16	2	4	76	1.07
6779426--6779579	5	29.8	5	74	18	88	14	3	5	76	1.09
6779425--6779586	6	26.7	6	68	21	56	14	3	4	77	1.07
6791022--6791048	2	13.5	2	100	0	54	48	0	0	51	1.00
6791049--6791221	5	35.0	5	67	19	51	13	6	7	72	1.25
6791108--6791174	18	3.6	18	78	6	80	14	5	5	73	1.23
6791096--6791170	14	5.1	14	73	20	55	13	6	6	73	1.24
6796259--6796352	30	3.1	31	80	7	102	62	6	12	18	1.50
6796272--6796352	31	2.7	29	79	11	90	62	6	13	17	1.50
6796700--6796750	21	2.4	21	96	0	93	56	7	21	13	1.62
6797407--6797449	18	2.4	18	96	0	77	58	0	4	37	1.19
6797748--6797850	40	2.5	40	77	13	102	18	18	36	26	1.94
6797736--6798126	131	3.0	131	81	3	457	25	16	30	26	1.97
6798225--6798282	28	2.1	27	84	9	73	41	10	13	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6798203--6798380	64	2.8	64	76	13	179	42	12	15	29	1.84
6799607--6799724	11	10.8	11	69	17	70	2	13	5	77	1.05
6799609--6799698	24	3.3	28	81	15	100	2	14	6	76	1.08
6799624--6799731	24	4.5	23	66	21	60	2	14	5	76	1.08
6799647--6799693	13	3.8	12	78	16	51	4	12	4	78	1.04
6803402--6803487	30	2.8	31	82	6	88	58	8	16	17	1.62
6803402--6803487	31	2.8	30	82	3	100	58	8	16	17	1.62
6804343--6804390	13	3.7	13	88	0	69	35	18	12	33	1.89
6804341--6804390	26	1.9	26	91	0	82	38	18	12	32	1.87
6804367--6804526	85	1.9	85	84	10	220	34	20	16	29	1.94
6809876--6809904	15	1.9	15	100	0	58	58	0	0	41	0.98
6810188--6810578	131	3.0	130	82	2	480	25	15	30	28	1.96
6810586--6810670	32	2.7	31	78	12	93	36	15	16	31	1.90
6814091--6814134	21	2.0	23	86	8	65	47	9	11	31	1.71
6818729--6818771	21	2.0	22	81	9	52	46	4	30	18	1.69
6819265--6819380	44	2.6	44	95	0	205	37	12	17	32	1.88
6820502--6820584	16	4.6	17	73	19	62	3	10	9	75	1.15
6820518--6820583	21	3.0	21	79	14	71	3	12	9	75	1.14
6820537--6820603	15	4.3	14	71	22	53	2	13	10	73	1.21
6822407--6822468	32	1.9	32	86	0	88	58	11	12	17	1.63
6824282--6824391	31	3.5	31	78	8	107	55	8	15	20	1.66
6825953--6825989	3	13.0	3	83	11	51	64	2	0	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6828738--6828807	3	23.3	3	88	0	86	30	34	4	31	1.77
6828809--6828853	21	2.1	21	100	0	90	33	4	22	40	1.74
6829732--6829776	2	23.0	2	95	4	83	51	0	0	48	1.00
6830736--6830798	30	2.1	30	81	0	72	63	6	0	30	1.19
6830984--6831023	17	2.4	17	91	0	62	17	5	32	45	1.70
6833493--6833687	75	2.6	75	81	6	225	49	14	6	29	1.68
6833607--6833635	12	2.5	12	94	5	51	62	6	0	31	1.22
6835675--6836137	45	10.3	45	92	0	764	21	23	11	43	1.85
6836501--6836700	95	2.1	95	82	1	240	26	23	12	38	1.90
6842474--6842891	45	9.3	45	89	1	613	21	22	11	44	1.83
6848271--6848320	23	2.2	23	85	0	64	62	4	20	14	1.47
6849869--6849900	16	2.0	16	93	0	55	78	0	0	21	0.76
6851539--6851569	13	2.4	13	94	0	53	54	9	29	6	1.57
6853144--6853221	6	12.3	6	71	15	59	75	5	3	15	1.12
6853169--6853217	19	2.5	19	84	12	64	73	4	6	16	1.19
6853169--6853219	21	2.6	19	87	9	68	72	3	5	17	1.20
6854675--6854721	21	2.2	21	88	0	67	19	21	21	38	1.94
6855512--6855790	139	2.0	139	100	0	558	30	15	22	32	1.94
6856378--6856417	21	1.9	21	85	10	55	77	0	7	15	0.98
6857197--6857251	24	2.2	24	81	9	58	61	9	3	25	1.42
6858495--6858535	3	13.3	3	94	5	73	65	0	0	34	0.93
6858718--6859075	132	2.7	132	78	5	335	24	15	30	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6859115--6859232	29	3.8	28	68	23	76	40	13	18	27	1.88
6859209--6859324	30	3.4	35	72	16	109	41	14	18	25	1.88
6859085--6859326	65	3.7	65	89	2	351	42	13	18	25	1.87
6859085--6859326	132	1.8	130	87	3	360	42	13	18	25	1.87
6859306--6859337	16	2.0	16	93	0	55	40	12	15	31	1.85
6860942--6861002	26	2.4	26	86	13	83	1	13	8	77	1.07
6864454--6864495	21	2.0	21	100	0	84	52	14	4	28	1.62
6864881--6864913	16	2.1	16	88	5	50	27	9	15	48	1.74
6887370--6887555	74	2.5	75	83	5	234	27	26	19	26	1.99
6893275--6893352	21	3.7	19	79	14	75	25	26	15	32	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