genome.fa.s9634.2.7.7.80.10.50.1000.45.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  45  of  78  ( 9351 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)
8955358--8955614	129	2.0	129	98	0	496	31	13	20	34	1.91
8956242--8956418	90	2.0	89	90	1	282	45	7	10	36	1.67
8957018--8957076	31	1.9	31	96	0	109	35	27	13	23	1.92
8957126--8957194	21	3.2	20	76	10	57	28	14	26	30	1.95
8957583--8957634	25	2.1	25	92	0	86	30	13	13	42	1.83
8957638--8957681	21	2.1	21	88	12	65	45	0	4	50	1.22
8962461--8962504	18	2.3	18	84	7	52	63	6	9	20	1.46
8964943--8964983	21	1.9	22	85	14	59	36	14	19	29	1.92
8967188--8967231	14	3.1	14	90	3	70	13	34	0	52	1.41
8967605--8967643	12	3.2	12	81	3	51	35	0	35	28	1.58
8968629--8968674	24	1.9	24	90	0	74	15	23	26	34	1.94
8968639--8968685	24	2.0	24	86	0	67	21	25	25	27	1.99
8974631--8974740	23	4.8	23	81	0	130	17	24	25	32	1.96
8974631--8974740	46	2.4	46	90	0	166	17	24	25	32	1.96
8977478--8977580	29	3.6	29	91	0	152	48	18	1	31	1.59
8978308--8978364	24	2.4	24	96	0	105	38	10	1	49	1.48
8984564--8984719	29	5.6	29	76	11	119	48	15	3	32	1.63
8984721--8984777	18	3.2	18	89	0	96	14	19	49	17	1.80
8995484--8995518	18	1.9	18	88	0	52	28	34	17	20	1.95
8995837--8995877	14	2.9	14	88	0	64	39	29	12	19	1.88
8996402--8996444	17	2.4	18	84	3	52	34	9	0	55	1.32
8997423--8997522	45	2.2	45	100	0	200	33	17	17	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9001417--9001465	21	2.3	21	96	0	89	22	28	22	26	1.99
9001496--9001635	64	2.2	63	83	7	167	37	19	17	25	1.94
9001536--9001656	64	1.9	64	91	6	201	35	17	20	26	1.95
9002117--9002334	103	2.1	103	95	0	391	25	13	23	37	1.92
9002359--9002413	23	2.4	23	84	0	65	23	23	25	27	2.00
9008499--9008602	45	2.3	44	85	6	129	39	16	15	28	1.89
9009083--9009308	103	2.2	103	93	1	391	25	14	24	36	1.93
9009317--9009379	23	2.7	23	85	4	83	19	26	28	25	1.98
9010830--9010863	2	16.5	2	93	6	59	50	2	0	47	1.16
9010796--9010885	47	1.9	47	82	13	114	44	11	3	41	1.56
9010945--9010979	2	17.0	2	88	5	52	45	2	2	48	1.32
9010830--9011067	116	2.1	116	98	0	458	37	14	5	42	1.69
9016039--9016094	21	2.7	21	94	0	94	21	26	23	28	1.99
9016125--9016285	64	2.5	63	85	7	191	34	18	21	26	1.96
9016746--9016960	103	2.1	103	97	0	403	26	13	24	36	1.92
9023715--9023928	103	2.1	103	97	0	401	23	14	25	36	1.92
9023945--9024007	23	2.7	23	85	4	83	22	26	25	25	2.00
9025461--9025526	2	32.5	2	93	3	114	48	1	1	48	1.20
9025625--9025667	17	2.4	18	84	3	52	34	9	0	55	1.32
9032718--9032799	29	2.8	29	94	1	137	32	14	9	42	1.79
9034082--9034111	15	2.0	15	93	0	51	56	23	0	20	1.42
9037483--9037564	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9043897--9044089	95	2.0	95	87	2	280	32	27	21	18	1.96
9044207--9044257	2	25.5	2	100	0	102	50	0	0	49	1.00
9045576--9045611	15	2.4	15	100	0	72	11	30	36	22	1.89
9052710--9052769	30	2.0	30	96	0	111	18	20	16	45	1.86
9054011--9054079	25	2.8	24	93	4	111	27	15	17	39	1.90
9071772--9071826	25	2.1	27	83	12	71	52	0	7	40	1.29
9081298--9081349	20	2.6	20	93	0	86	23	7	7	61	1.49
9084397--9084448	23	2.3	23	93	0	86	26	19	23	30	1.98
9084397--9084471	23	3.4	22	80	10	82	28	16	25	30	1.96
9085805--9085864	30	2.0	29	84	9	77	36	8	16	38	1.79
9085894--9085936	23	1.9	23	85	4	61	46	6	23	23	1.76
9086037--9086097	22	2.8	22	89	0	86	31	19	26	22	1.98
9086268--9086314	19	2.3	21	78	7	53	40	2	19	38	1.63
9088766--9088803	11	3.5	11	85	7	51	44	0	5	50	1.24
9088876--9088918	19	2.3	19	91	0	77	53	0	4	41	1.21
9088913--9088950	18	2.1	19	85	5	51	63	5	2	28	1.30
9089694--9089753	27	2.2	27	82	5	77	51	1	0	46	1.10
9089927--9089994	25	2.6	25	73	13	75	51	1	2	44	1.25
9090255--9090281	10	2.7	10	100	0	54	70	7	0	22	1.12
9091317--9091363	19	2.5	19	83	16	62	68	0	0	31	0.90
9092373--9092561	21	9.1	21	80	4	152	19	17	25	37	1.94
9092377--9092536	41	3.9	41	77	3	196	19	18	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9092402--9092515	20	5.6	20	85	2	111	16	20	24	38	1.92
9092381--9092539	82	1.9	83	92	1	266	19	18	25	36	1.94
9092377--9092539	62	2.6	62	92	0	256	19	18	25	36	1.94
9092528--9092580	22	2.4	22	100	0	106	16	18	28	35	1.93
9092680--9092715	10	3.3	11	92	7	56	27	55	16	0	1.42
9092684--9092718	5	6.6	5	96	3	52	25	54	20	0	1.45
9093215--9093269	6	9.2	6	100	0	110	0	16	49	34	1.46
9093371--9093507	21	6.3	21	68	14	98	30	24	20	24	1.98
9094053--9094093	18	2.3	18	86	0	64	0	31	2	65	1.05
9096094--9096201	55	1.9	56	96	3	200	52	12	2	31	1.54
9096002--9096250	128	2.0	126	92	5	423	51	10	3	34	1.53
9096896--9096947	2	26.0	2	100	0	104	50	0	0	50	1.00
9097438--9097469	2	16.0	2	100	0	64	50	0	0	50	1.00
9098516--9098639	61	2.0	60	81	4	142	33	16	6	42	1.74
9098808--9098980	60	2.9	60	75	10	147	40	5	19	34	1.74
9100298--9100383	42	2.0	42	97	0	163	45	6	33	13	1.71
9101857--9101920	31	2.1	31	100	0	128	34	9	9	46	1.68
9107214--9107292	22	3.6	22	80	11	92	26	2	1	69	1.09
9107225--9107292	3	24.0	3	76	19	58	26	1	1	70	1.04
9107214--9107292	11	7.2	11	78	15	83	26	2	1	69	1.09
9107233--9107295	19	3.3	19	75	14	67	25	1	1	71	1.04
9107308--9107346	2	20.0	2	84	5	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9107589--9107624	19	1.9	18	88	5	54	50	0	0	50	1.00
9112974--9113019	19	2.4	18	82	10	56	82	4	13	0	0.81
9115315--9115538	114	2.0	115	90	2	353	33	15	20	30	1.93
9116494--9116636	76	1.9	76	85	2	198	30	18	22	27	1.97
9118836--9119370	76	7.0	76	96	0	926	23	22	21	32	1.98
9119530--9119593	3	20.3	3	77	6	56	39	0	0	60	0.97
9120919--9120975	15	3.6	16	76	11	55	26	0	1	71	0.95
9120973--9121021	2	25.5	2	83	8	66	55	0	0	44	0.99
9121267--9121302	19	1.9	18	88	5	54	50	0	0	50	1.00
9122342--9122433	2	47.0	2	78	12	75	48	2	5	43	1.38
9122342--9122457	60	1.9	60	100	0	232	50	3	6	39	1.46
9127681--9127721	19	2.2	19	91	8	66	46	14	7	31	1.72
9128853--9128890	17	2.2	17	100	0	76	52	7	5	34	1.53
9129832--9129884	18	3.1	17	80	15	65	79	1	1	16	0.92
9129842--9129892	26	2.0	26	85	11	70	76	1	1	19	0.98
9129828--9129891	18	3.6	18	70	12	60	78	1	1	18	0.92
9129833--9129889	30	1.9	30	82	13	73	78	1	1	17	0.91
9131865--9132053	29	6.6	29	85	4	240	36	21	5	36	1.76
9131865--9132054	57	3.3	57	88	2	283	36	22	5	36	1.77
9131865--9132053	86	2.2	86	83	1	254	36	21	5	36	1.76
9132054--9132095	16	2.5	17	84	7	59	11	23	45	19	1.83
9132054--9132099	17	2.7	18	80	10	60	13	23	43	19	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9134485--9134969	139	3.5	137	84	6	608	25	20	17	36	1.94
9136672--9136717	20	2.3	19	85	14	58	26	15	8	50	1.73
9144576--9144623	23	2.1	23	84	0	60	25	25	33	16	1.96
9147065--9147110	20	2.3	19	85	14	58	26	15	8	50	1.73
9147753--9147871	55	2.2	54	85	7	161	42	18	10	28	1.82
9147753--9147927	55	3.2	56	80	7	159	41	17	10	30	1.82
9149924--9149998	28	2.8	27	82	8	82	1	16	1	81	0.83
9149917--9149989	36	2.1	36	89	2	112	1	17	0	80	0.78
9149912--9149998	7	12.7	7	76	10	74	1	17	1	80	0.84
9149917--9149998	16	5.1	16	78	12	73	1	17	1	80	0.84

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