genome.fa.s7984.2.7.7.80.10.50.1000.61.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  61  of  65  ( 7696 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)
12032772--12032835	3	22.0	3	78	12	71	28	3	1	67	1.15
12032769--12032833	32	2.0	32	91	5	105	26	4	3	66	1.26
12035909--12035977	32	2.2	30	90	10	104	17	11	8	62	1.53
12038160--12038239	26	3.3	25	70	19	80	25	25	10	40	1.86
12038877--12038914	11	3.4	11	89	7	58	71	10	13	5	1.30
12040092--12040133	4	11.0	4	90	10	70	50	26	0	23	1.50
12040685--12040802	36	3.3	36	82	8	150	34	16	12	36	1.86
12040685--12040819	71	1.9	72	83	4	175	33	19	14	33	1.91
12041192--12041412	28	7.9	28	87	6	272	28	11	15	45	1.80
12041378--12041428	26	2.0	25	88	3	75	27	7	13	50	1.69
12041511--12041579	28	2.5	28	90	4	104	34	7	14	43	1.73
12041524--12041694	67	2.6	65	89	3	270	30	10	12	46	1.75
12041473--12041646	95	1.8	93	85	4	242	32	10	14	42	1.79
12041524--12041755	67	3.6	64	84	5	261	30	10	12	45	1.77
12041795--12042009	120	1.8	120	81	7	276	31	14	12	41	1.83
12042679--12042759	28	2.9	28	83	8	96	24	14	13	46	1.81
12042664--12042739	28	2.6	28	82	14	93	26	15	11	46	1.81
12042788--12043101	40	7.4	40	72	14	195	24	32	19	23	1.97
12042818--12043022	46	4.7	46	74	12	187	23	31	19	25	1.98
12042911--12043101	43	4.5	42	74	12	174	24	34	18	22	1.97
12042825--12043213	129	3.0	129	90	3	584	23	31	19	25	1.98
12043398--12043464	3	23.0	3	79	11	77	28	2	1	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12043395--12043464	35	2.0	35	91	5	115	27	4	2	65	1.25
12049103--12049134	16	2.0	16	100	0	64	37	18	6	37	1.76
12059451--12059492	13	3.1	14	80	13	52	30	7	0	61	1.22
12071170--12071494	111	2.9	111	95	0	587	44	11	7	36	1.68
12071628--12071677	10	5.0	10	88	9	66	42	0	26	32	1.56
12071695--12071742	21	2.3	22	82	10	64	35	0	35	29	1.58
12073653--12073695	21	2.0	21	86	8	61	44	2	0	53	1.13
12074199--12074229	14	2.1	15	94	5	55	70	6	6	16	1.29
12074808--12074848	6	7.0	6	97	2	75	34	51	14	0	1.43
12075086--12075136	24	2.1	24	85	7	68	54	9	1	33	1.44
12076447--12076478	2	16.0	2	93	0	55	50	3	0	46	1.17
12077227--12077661	74	5.9	74	88	1	584	30	18	11	39	1.86
12077243--12077660	36	11.3	36	70	9	268	30	18	11	39	1.86
12077523--12077631	39	2.9	37	69	15	89	31	16	11	41	1.83
12081632--12081691	30	2.0	30	100	0	120	16	23	10	50	1.75
12082792--12082845	20	2.7	19	75	8	63	33	31	18	16	1.93
12082832--12082927	21	4.7	20	72	11	68	35	21	19	22	1.96
12082895--12083090	20	9.6	20	73	6	126	37	24	18	19	1.94
12082956--12083089	21	6.6	20	80	5	144	36	24	19	19	1.95
12082895--12083090	82	2.4	82	79	5	202	37	24	18	19	1.94
12082956--12083087	41	3.2	41	89	3	194	37	24	18	19	1.94
12082956--12083085	61	2.1	62	85	4	174	37	23	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12083651--12083722	20	3.5	20	81	9	76	52	20	12	13	1.73
12083707--12083775	33	2.1	33	91	0	111	49	18	20	11	1.78
12083720--12083784	33	2.0	33	90	0	103	46	21	21	10	1.82
12083782--12083907	19	7.1	19	70	18	101	11	23	19	45	1.83
12083804--12083878	33	2.3	33	95	0	132	12	22	21	44	1.85
12083817--12083899	33	2.5	33	92	2	130	12	24	21	42	1.87
12087332--12087367	14	2.6	14	90	0	54	30	2	22	44	1.67
12087474--12087532	19	3.4	19	71	22	65	45	18	20	15	1.85
12087474--12087553	33	2.4	33	91	0	124	46	21	20	12	1.83
12087565--12087642	33	2.4	33	93	0	129	14	23	16	46	1.83
12087596--12087671	14	4.5	19	72	24	64	15	22	17	44	1.86
12087830--12087923	33	2.8	32	80	3	107	46	21	15	15	1.83
12087893--12087938	19	2.4	19	96	0	83	45	26	15	13	1.82
12087938--12088060	33	3.5	33	79	12	138	15	21	17	44	1.86
12087982--12088072	20	4.9	19	70	16	66	16	23	19	40	1.91
12091503--12091648	20	7.6	20	77	9	151	19	19	19	41	1.91
12091482--12091569	40	2.2	40	81	4	97	22	18	19	39	1.92
12091546--12091684	74	1.9	75	86	4	201	20	20	22	37	1.94
12091563--12091665	54	1.9	54	83	0	134	19	20	22	37	1.94
12091563--12091684	20	6.3	20	76	12	103	19	20	22	36	1.95
12091693--12091745	20	2.7	20	88	5	72	15	18	22	43	1.87
12091733--12091848	21	5.6	21	71	10	87	22	19	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12091713--12091806	42	2.3	42	80	9	113	23	21	21	34	1.97
12091795--12091848	20	2.7	19	75	8	63	16	18	31	33	1.93
12097823--12097894	24	3.0	24	85	0	99	50	18	12	19	1.78
12097825--12097894	12	5.8	12	71	6	52	50	18	12	18	1.78
12101060--12101100	20	2.0	20	100	0	82	48	4	26	19	1.69
12101060--12101109	20	2.5	20	90	6	66	44	6	30	20	1.75
12101261--12101292	3	10.7	3	100	0	64	65	0	0	34	0.93
12116807--12116850	18	2.5	17	79	13	54	38	2	18	40	1.63
12123904--12123947	2	22.0	2	100	0	88	50	0	0	50	1.00
12124276--12124310	16	2.2	16	90	10	54	48	28	11	11	1.74
12124374--12124415	3	13.7	3	95	5	75	30	2	0	66	1.04
12124759--12124917	46	3.5	46	88	2	223	44	25	10	18	1.82
12126090--12126140	17	3.1	17	75	11	52	19	9	15	54	1.68
12126077--12126161	33	2.6	33	83	5	102	16	11	20	51	1.75
12126665--12126738	35	2.1	35	84	0	94	47	6	12	33	1.67
12127777--12127810	15	2.3	15	94	0	59	47	0	2	50	1.16
12128348--12128414	29	2.4	25	79	18	71	40	1	0	58	1.07
12131709--12131765	23	2.5	23	91	0	96	61	17	8	12	1.55
12131937--12131983	24	2.0	24	82	0	58	57	19	8	14	1.63
12133042--12133095	19	2.9	18	77	5	54	42	3	1	51	1.30
12133116--12133150	12	3.0	12	87	4	54	40	0	0	60	0.97
12133133--12133179	23	2.0	23	88	12	69	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12133145--12133201	20	2.8	20	76	7	62	47	3	0	49	1.18
12138579--12138603	13	1.9	13	100	0	50	64	8	0	28	1.22
12138988--12139032	7	6.4	7	97	0	63	44	6	48	0	1.29
12138988--12139032	14	3.2	14	93	0	72	44	6	48	0	1.29
12141520--12141592	30	2.5	28	78	8	76	58	19	5	16	1.56
12142485--12142520	15	2.3	16	90	4	56	47	0	2	50	1.15
12143084--12143197	60	1.9	59	80	5	131	39	16	12	31	1.86
12143589--12143701	60	1.9	60	81	7	140	34	20	15	29	1.94
12144232--12144267	3	11.7	3	94	5	63	36	0	0	63	0.94
12144695--12144726	5	6.4	5	100	0	64	0	18	0	81	0.70
12145545--12145619	40	1.9	38	83	5	96	45	12	13	29	1.79
12146569--12146743	87	2.0	87	100	0	350	35	20	14	29	1.92
12147776--12147819	23	2.0	22	86	4	61	27	0	6	65	1.17
12149870--12149920	16	3.3	16	78	10	70	58	3	21	15	1.53
12149885--12149932	14	3.3	14	75	11	51	60	2	20	16	1.46
12149870--12149932	30	2.1	30	96	0	117	58	3	20	17	1.52
12150361--12150475	51	2.3	51	86	3	151	49	5	4	40	1.45
12151095--12151186	31	3.0	30	78	9	89	38	0	3	58	1.14
12151898--12151984	31	2.8	30	81	10	95	54	3	1	41	1.25
12152323--12152357	2	17.5	2	100	0	70	48	0	0	51	1.00
12158968--12159001	18	1.9	18	88	5	52	26	32	26	14	1.95
12172846--12172886	18	2.3	18	83	12	57	58	7	4	29	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12187487--12187539	22	2.4	22	87	0	79	18	16	26	37	1.93
12187623--12187698	20	3.8	20	91	0	116	48	18	19	13	1.80
12194402--12194475	30	2.5	29	77	14	87	45	5	8	40	1.56
12194745--12194792	19	2.6	18	78	15	53	56	0	2	41	1.11
12195643--12195695	23	2.3	23	86	0	79	7	22	15	54	1.65
12195654--12195708	23	2.4	23	81	0	65	10	21	16	50	1.75
12196530--12196601	21	3.5	21	92	1	101	38	16	22	22	1.93
12196544--12196601	21	2.8	21	100	0	116	39	15	22	22	1.91
12198846--12198900	20	2.8	20	81	8	76	32	23	20	23	1.98
12198892--12198967	33	2.3	34	90	2	118	44	18	22	14	1.86

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   63   64   
          65