genome.fa.s9462.2.7.7.80.10.50.1000.49.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  49  of  91  ( 10815 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)
10411955--10412007	21	2.7	18	78	21	61	32	1	0	66	1.03
10414845--10414903	20	2.9	19	80	9	64	20	8	8	62	1.49
10420698--10420782	37	2.3	37	83	4	109	49	14	10	25	1.75
10427254--10427286	10	3.4	10	91	4	50	0	9	15	75	1.03
10428636--10429818	55	21.6	53	76	7	852	31	19	21	27	1.97
10428636--10429815	110	10.8	110	78	6	1002	31	19	21	27	1.97
10428635--10429818	165	7.2	165	76	6	947	31	19	21	27	1.97
10434501--10434622	38	3.2	38	87	4	183	22	21	30	25	1.99
10436114--10436159	20	2.2	21	84	3	58	54	2	0	43	1.12
10437498--10437561	3	21.0	3	90	3	101	31	0	3	65	1.08
10438475--10438516	18	2.1	21	83	12	54	71	0	11	16	1.14
10438654--10438688	16	2.2	16	90	10	54	74	8	5	11	1.22
10440878--10441104	112	2.0	111	87	0	319	29	16	17	37	1.91
10455496--10455570	28	2.9	26	68	27	61	50	5	1	42	1.33
10455457--10455683	106	2.1	107	83	10	297	49	3	3	44	1.35
10455997--10456056	15	3.9	15	72	10	50	66	3	0	30	1.07
10456013--10456068	21	2.5	22	82	5	69	66	3	0	30	1.09
10456593--10456639	16	2.9	16	81	12	69	36	0	0	63	0.94
10456593--10456637	8	5.6	8	79	10	56	33	0	0	66	0.92
10456658--10456713	28	2.0	28	85	0	76	42	17	8	30	1.80
10456858--10456914	31	1.9	31	82	10	75	24	7	26	42	1.80
10459411--10459454	21	2.1	21	82	0	52	36	15	38	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10460551--10460578	8	3.5	8	100	0	56	57	14	0	28	1.38
10466480--10466531	19	2.7	19	96	0	95	17	19	34	28	1.94
10466436--10466611	84	2.1	83	80	8	189	25	18	25	30	1.98
10466497--10466663	65	2.6	64	77	7	176	24	17	24	32	1.97
10477757--10477799	20	2.2	20	95	0	77	41	13	16	27	1.86
10479341--10479425	43	2.0	43	100	0	170	16	16	22	44	1.86
10483024--10483097	23	3.2	23	75	3	60	31	18	16	33	1.93
10483068--10483113	23	2.0	23	86	0	65	21	8	23	45	1.80
10499229--10499281	24	2.3	23	79	20	65	60	15	15	9	1.58
10507684--10507849	88	1.9	85	86	6	235	40	15	14	29	1.87
10511011--10511043	16	2.0	17	88	5	50	18	18	33	30	1.94
10511163--10511200	3	12.7	3	100	0	76	65	0	0	34	0.93
10520902--10521010	7	15.4	7	84	12	107	77	0	11	11	1.01
10521906--10522630	105	6.9	105	87	1	1004	40	16	19	24	1.91
10522465--10522515	17	2.9	18	71	14	52	49	11	17	21	1.79
10522757--10522860	38	2.7	38	81	1	118	38	11	26	23	1.89
10522650--10522945	155	1.9	155	86	2	425	37	15	20	26	1.92
10522907--10523075	91	1.9	91	93	2	295	38	15	22	23	1.92
10535696--10535758	33	1.9	32	81	9	74	28	4	7	58	1.47
10539788--10539835	20	2.5	20	83	10	55	47	2	16	33	1.58
10546231--10546363	45	3.0	45	88	2	196	38	13	12	35	1.83
10546262--10546338	22	3.3	24	64	10	70	35	12	12	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10547261--10547839	289	2.0	290	95	0	1052	42	16	13	27	1.85
10548916--10549066	29	5.2	30	87	6	195	40	23	4	31	1.75
10548916--10549066	59	2.6	58	87	5	207	40	23	4	31	1.75
10552307--10552338	12	2.7	12	90	0	55	25	15	28	31	1.96
10552473--10552526	18	3.1	18	89	5	83	16	22	44	16	1.86
10552471--10552526	17	3.2	17	90	5	85	16	23	42	17	1.88
10552535--10552573	20	2.0	20	89	0	60	41	23	17	17	1.91
10559550--10559670	29	4.2	29	84	6	140	39	23	6	29	1.80
10559565--10559670	29	3.6	30	90	7	157	39	24	6	29	1.80
10559684--10559735	18	3.0	17	80	5	68	15	19	46	19	1.85
10562970--10563069	29	3.4	29	77	10	89	41	19	5	35	1.73
10562989--10563076	29	3.0	30	83	3	99	37	23	4	34	1.76
10572038--10572074	19	2.0	19	89	5	58	51	16	0	32	1.45
10572868--10572965	29	3.4	28	91	2	151	37	3	16	42	1.64
10572868--10572965	28	3.4	28	94	2	160	37	3	16	42	1.64
10577096--10577152	29	2.0	29	85	0	78	31	3	19	45	1.67
10577155--10577278	28	4.4	28	90	3	196	37	3	15	43	1.63
10581368--10581425	29	2.0	29	93	0	98	27	3	20	48	1.66
10581376--10581501	29	4.4	28	82	7	103	34	3	16	45	1.66
10581428--10581504	28	2.7	28	91	2	118	36	2	16	44	1.62
10590427--10590483	29	2.0	29	89	0	87	29	3	21	45	1.68
10590486--10590618	29	4.7	28	87	7	171	38	2	18	41	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10590486--10590618	55	2.3	58	88	5	200	38	2	18	41	1.63
10600530--10600568	19	2.0	20	85	14	55	23	15	28	33	1.95
10603417--10603474	30	1.9	30	82	6	73	46	6	27	18	1.75
10607320--10607461	58	2.4	58	82	2	160	48	24	4	21	1.70
10607817--10607875	27	2.2	27	93	0	100	49	3	18	28	1.64
10626127--10626185	29	2.0	29	93	6	102	49	11	15	23	1.77
10646083--10646151	24	2.9	24	82	8	95	55	17	10	17	1.69
10646088--10646146	12	5.0	11	76	13	55	57	18	8	15	1.63
10646083--10646189	24	4.4	25	73	15	82	52	15	12	19	1.74
10648682--10649005	55	5.9	55	85	4	447	28	16	16	38	1.90
10648670--10649003	165	2.0	165	89	2	510	28	16	16	38	1.91
10649084--10649123	21	1.9	21	90	10	64	20	27	5	47	1.70
10657482--10657526	23	2.0	23	82	8	56	53	2	4	40	1.33
10662326--10662368	7	6.6	7	82	12	56	0	13	0	86	0.58
10662327--10662368	6	6.8	6	89	10	59	0	14	0	85	0.59
10662327--10662368	13	3.3	13	90	3	68	0	14	0	85	0.59
10662564--10662599	15	2.4	15	95	0	63	61	0	27	11	1.30
10665935--10665973	15	2.5	15	84	15	53	71	0	10	17	1.12
10666170--10666205	12	2.9	12	88	8	54	0	11	8	80	0.90
10666608--10666635	14	2.0	14	100	0	56	35	0	42	21	1.53
10668522--10668650	59	2.2	59	87	0	177	29	24	17	27	1.98
10672689--10672731	6	7.2	6	84	10	61	0	16	2	81	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10672691--10672732	13	3.4	13	90	6	61	0	14	2	83	0.75
10674368--10674433	10	6.4	10	72	6	60	3	13	3	80	0.95
10674352--10674427	31	2.4	32	82	6	93	3	14	5	76	1.11
10674732--10674772	22	1.9	21	90	5	64	19	2	36	41	1.65
10679804--10679839	15	2.4	15	95	0	63	22	25	0	52	1.47
10683961--10684027	30	2.2	30	89	5	100	20	28	14	35	1.93
10685840--10685933	30	3.1	29	83	3	107	38	12	24	24	1.90
10694103--10694167	5	13.0	5	77	6	69	83	0	15	1	0.73
10694102--10694166	10	6.2	10	87	8	94	84	0	13	1	0.69
10694105--10694167	21	3.0	21	88	6	92	82	0	15	1	0.74
10694102--10694166	31	2.1	31	88	5	96	84	0	13	1	0.69
10694725--10694764	14	2.9	14	88	3	55	35	2	35	27	1.71
10695096--10695138	19	2.2	20	87	4	61	48	6	9	34	1.62
10701065--10701117	23	2.2	24	90	3	81	9	15	11	64	1.50
10705380--10705434	16	3.4	16	76	18	60	67	0	20	12	1.23
10705362--10705413	27	2.0	26	81	11	61	65	0	19	15	1.27
10706449--10706486	20	1.9	20	88	0	58	42	7	7	42	1.63
10706450--10706492	19	2.2	20	83	4	52	46	6	9	37	1.63
10707647--10707682	17	2.0	18	89	10	56	11	27	0	61	1.30
10710472--10710526	23	2.3	25	84	6	78	61	12	16	9	1.55
10714876--10714929	22	2.5	22	81	0	63	31	16	24	27	1.96
10722906--10722987	36	2.3	36	93	0	137	19	20	35	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10722923--10723017	36	2.9	31	86	9	111	18	17	35	27	1.94
10726606--10726711	37	2.9	37	91	2	162	32	33	4	29	1.78
10732298--10732402	37	2.9	36	88	2	149	33	36	2	27	1.72
10736380--10736437	13	4.7	13	72	12	50	31	37	0	31	1.58
10736380--10736485	35	3.0	35	85	1	140	28	35	2	33	1.72
10737107--10737165	16	3.7	16	76	10	59	11	20	0	67	1.21
10742023--10742048	13	2.0	13	100	0	52	23	38	0	38	1.55
10742017--10742126	35	3.2	35	80	3	125	28	34	3	33	1.75
10743614--10743648	15	2.3	15	85	0	52	20	2	31	45	1.65
10749454--10749482	15	1.9	15	100	0	58	24	20	0	55	1.44

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91