genome.fa.s8420.2.7.7.80.10.50.1000.4.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: VEPZ01008420.1 Hibiscus syriacus cultivar Beakdansim tig00111200_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1020524

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 664 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)
528967--529013	3	17.0	3	83	16	57	68	2	0	29	1.02
528967--529017	13	3.8	13	79	7	50	68	1	0	29	1.00
528969--529016	16	3.1	15	81	3	60	68	2	0	29	1.01
529323--530229	113	7.9	113	84	3	1081	28	19	13	38	1.90
529324--530234	339	2.7	340	91	3	1377	28	19	13	38	1.90
531006--531155	54	2.9	54	78	11	138	30	20	13	36	1.91
531067--531155	46	1.9	46	88	4	135	28	22	12	37	1.90
535716--535769	7	7.7	7	84	15	76	0	24	0	75	0.80
535715--535772	28	2.2	26	93	6	98	0	22	0	77	0.77
538316--538384	36	2.0	34	85	5	93	57	10	14	17	1.63
538443--538480	15	2.6	14	91	4	58	60	10	15	13	1.59
541208--541266	29	2.0	30	83	9	77	61	3	6	28	1.38
542595--542640	3	16.0	3	80	17	53	67	2	0	30	1.03
542595--542650	20	2.7	20	83	10	60	69	3	0	26	1.04
547655--547702	20	2.4	19	83	10	60	56	2	2	39	1.23
551441--551473	18	1.9	18	88	11	52	30	0	0	69	0.88
551533--551598	16	4.3	16	75	9	57	36	1	3	59	1.22
556276--556332	30	2.0	29	82	6	71	26	0	17	56	1.41
556538--556568	15	2.1	15	93	0	53	54	0	9	35	1.33
557809--557858	20	2.4	21	93	3	84	40	6	22	32	1.78
560587--560626	21	1.9	21	85	10	55	27	17	0	55	1.43
561031--561083	18	2.9	18	97	0	97	28	33	20	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569713--569738	2	13.0	2	100	0	52	50	0	0	50	1.00
572289--572343	3	18.0	3	81	10	67	36	1	0	61	1.06
572294--572345	25	2.1	25	85	7	70	38	1	0	59	1.08
572344--572399	2	28.0	2	100	0	112	50	0	0	50	1.00
573787--573862	11	6.5	11	70	20	50	28	3	3	63	1.30
574671--574722	20	2.6	21	76	11	56	26	7	0	65	1.20
576799--576837	14	2.8	14	85	11	53	17	17	5	58	1.56
581588--581773	93	2.0	94	93	4	322	28	10	22	38	1.87
581681--582154	115	4.1	115	96	0	860	32	13	21	32	1.92
584274--584479	54	3.9	54	80	10	228	38	15	22	24	1.92
585546--586113	76	7.5	76	97	0	1055	22	20	21	35	1.96
586240--586306	3	22.3	3	79	11	75	37	1	0	61	1.05
586299--586339	2	21.0	2	95	5	75	48	0	0	51	1.00
586356--586395	21	1.9	21	85	10	55	27	20	27	25	1.99
587719--587807	20	4.0	22	72	25	73	30	3	3	62	1.27
589894--590023	39	3.3	39	83	2	163	23	29	28	19	1.98
598217--598284	3	22.7	3	93	0	118	35	1	0	63	1.04
599712--599758	14	3.5	13	80	13	51	40	2	2	55	1.24
611076--611106	14	2.2	14	94	0	53	83	0	16	0	0.64
612244--612550	83	3.7	83	98	0	596	27	14	21	36	1.92
613286--614188	113	8.0	113	97	0	1632	36	12	20	30	1.90
614476--614521	3	15.0	3	90	4	74	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615949--615995	14	3.5	13	80	13	51	40	2	2	55	1.24
627286--627316	15	2.1	15	93	0	53	83	0	16	0	0.64
628454--628763	83	3.7	83	99	0	611	27	13	22	36	1.92
629501--630402	113	8.0	113	97	1	1623	36	12	20	30	1.90
629501--630402	451	2.0	451	95	1	1632	36	12	20	30	1.90
630689--630783	3	31.7	3	95	0	172	34	1	0	64	1.01
639405--639434	15	2.0	15	100	0	60	53	13	20	13	1.72
639919--639963	23	2.1	22	88	12	67	51	0	4	44	1.21
640138--640206	18	4.0	18	73	17	74	43	5	5	44	1.52
641837--641893	30	1.9	30	85	7	80	64	8	8	17	1.46
641890--641948	30	2.0	30	86	6	84	61	6	15	16	1.55
641995--642073	30	2.7	29	86	7	106	56	8	18	15	1.64
642016--642103	30	2.9	30	83	3	88	55	10	19	14	1.67
642945--642994	24	2.1	24	88	7	75	26	2	14	58	1.47
648551--648600	24	2.1	24	88	7	75	26	2	14	58	1.47
650392--650450	3	19.7	3	76	13	59	61	1	3	33	1.23
650964--651116	66	2.4	64	78	7	157	35	15	22	26	1.93
651606--651674	35	2.0	35	85	5	95	34	13	20	31	1.91
652928--652973	14	3.3	13	80	16	56	2	15	8	73	1.16
652977--653030	23	2.3	24	84	12	69	7	12	5	74	1.21
661222--661344	30	4.1	30	74	11	92	60	11	12	16	1.59
661261--661328	29	2.3	30	84	2	84	57	13	14	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661236--661445	59	3.6	57	75	10	176	58	10	14	15	1.63
661302--661359	30	1.9	30	82	6	73	55	10	15	18	1.68
662681--662745	3	21.7	3	73	17	55	61	3	3	32	1.27
663678--663707	2	15.0	2	100	0	60	50	0	0	50	1.00
663898--664076	18	10.4	18	73	13	162	40	8	5	45	1.58
663898--664088	51	3.7	51	84	6	269	41	8	5	44	1.58
664083--664204	33	3.5	33	76	10	120	45	5	4	44	1.49
664066--664121	26	2.2	26	86	0	76	46	7	5	41	1.54
664188--664348	2	80.5	2	67	18	59	46	6	3	43	1.46
665572--665672	50	2.0	50	92	0	166	34	17	11	35	1.87
668429--668457	11	2.6	11	100	0	58	48	6	0	44	1.29
671583--671609	12	2.2	12	100	0	54	22	7	0	70	1.12
675086--675115	15	2.0	15	100	0	60	6	46	20	26	1.75
683404--683609	45	4.6	45	90	1	324	21	24	11	42	1.86
683487--683556	21	3.2	21	64	18	52	22	22	8	45	1.79
683703--683880	56	3.2	56	87	0	266	33	19	11	36	1.87
684305--684353	19	2.5	19	87	9	64	26	26	12	34	1.92
687302--687349	11	4.3	11	78	2	51	27	0	0	72	0.84
687305--687348	22	2.0	23	90	4	72	29	0	0	70	0.88
688233--688266	14	2.4	14	90	5	50	52	0	0	47	1.00
694197--694247	24	2.1	24	85	0	66	58	5	1	33	1.33
710699--710759	23	2.7	23	89	0	95	26	27	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
710775--710992	103	2.1	103	99	0	427	36	23	13	26	1.92
712192--712236	21	2.1	21	83	0	54	13	24	31	31	1.93
713965--714019	2	27.5	2	100	0	110	50	0	0	49	1.00
715186--715228	3	14.3	3	90	0	68	60	0	2	37	1.10
715372--716513	86	13.2	86	87	3	1319	30	20	22	27	1.98
715372--716513	302	3.8	302	86	5	1463	30	20	22	27	1.98
717157--717275	22	5.5	22	87	6	138	39	12	15	32	1.85
717639--717804	54	3.1	54	85	0	215	26	23	12	37	1.91
719571--719652	7	10.5	8	81	16	75	1	19	0	79	0.80
719566--719655	34	2.7	33	81	10	94	1	20	0	78	0.81
719579--719654	19	4.1	18	80	11	73	1	18	0	80	0.79
722090--722124	12	2.8	12	91	4	52	74	0	8	17	1.06
722096--722133	14	2.8	13	88	7	51	71	2	7	18	1.23
734576--734745	15	10.8	15	80	13	159	49	0	2	48	1.14
734576--734801	30	7.0	31	85	12	223	46	0	3	49	1.20
734576--734747	45	3.7	45	88	5	236	49	0	2	48	1.14
734681--734776	37	2.6	37	90	8	160	42	0	7	50	1.30
734589--734964	32	11.4	32	77	14	204	40	0	8	50	1.36
734782--734837	22	2.5	22	91	0	94	33	0	14	51	1.42
734857--734941	14	5.5	14	67	20	53	36	0	8	55	1.30
734871--734959	18	5.4	18	65	20	68	33	0	12	53	1.38
734945--734986	22	1.9	22	100	0	84	35	2	14	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
735492--735532	15	2.7	15	88	3	55	41	0	2	56	1.13
736713--736756	23	1.9	23	81	9	54	56	0	6	36	1.26
739087--739262	92	1.9	92	90	2	282	23	20	15	40	1.91
738957--739392	228	1.9	221	87	4	631	24	20	17	36	1.94
739179--739532	136	2.6	136	94	0	609	24	22	18	35	1.96
740410--740503	24	3.8	24	77	16	77	8	13	1	76	1.06
740403--740473	26	2.8	25	81	16	83	8	12	0	78	0.95
740404--740476	19	4.1	19	84	15	86	9	13	0	76	1.01
740428--740486	16	3.7	16	86	11	77	10	11	0	77	0.98
740402--740499	33	2.9	33	79	13	103	8	14	1	76	1.06

Tables:   1   2   3   4   5   6