genome.fa.s8756.2.7.7.80.10.50.1000.14.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2443 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)
2956752--2956800	13	3.8	13	76	10	55	73	0	0	26	0.83
2956755--2956810	16	3.5	15	80	11	58	73	0	1	25	0.93
2956755--2956808	23	2.3	23	81	9	65	72	0	1	25	0.95
2957583--2957642	3	20.7	3	74	19	56	65	0	3	31	1.09
2957583--2957650	26	2.7	26	95	2	120	64	0	2	32	1.08
2958959--2959070	3	36.7	3	84	7	145	61	0	0	38	0.96
2959375--2959466	42	2.2	42	90	3	141	32	26	15	26	1.95
2960357--2960407	17	3.1	16	77	11	50	62	3	0	33	1.13
2962662--2963082	59	7.1	59	91	1	637	36	12	23	27	1.91
2962662--2963082	119	3.6	118	90	1	646	36	12	23	27	1.91
2962662--2963082	178	2.4	177	91	1	673	36	12	23	27	1.91
2965149--2965201	2	26.5	2	100	0	106	50	0	0	49	1.00
2968150--2968240	31	3.0	31	93	3	159	34	5	17	42	1.72
2968305--2968370	19	3.5	19	87	0	87	40	10	12	36	1.77
2968477--2968518	21	2.0	21	95	0	75	23	21	28	26	1.99
2968548--2968587	20	1.9	22	90	10	66	37	37	10	15	1.80
2969555--2970498	59	16.0	59	87	2	1322	36	12	22	27	1.91
2978062--2978096	19	1.9	17	88	11	52	45	11	2	40	1.55
2978702--2978795	44	2.2	44	82	1	109	30	15	18	35	1.92
2980255--2980288	16	2.1	16	94	0	59	0	20	2	76	0.92
2983366--2983399	17	2.0	17	88	0	50	35	11	23	29	1.90
2984158--2984308	76	1.9	78	80	11	175	43	5	7	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2989222--2989273	20	2.6	20	90	0	77	15	21	28	34	1.94
2997040--2997240	98	2.0	99	99	0	395	28	12	26	31	1.93
2997069--2997272	98	2.1	98	85	1	266	32	12	27	26	1.93
3014672--3014960	144	2.0	143	99	0	569	28	22	13	35	1.91
3016896--3017282	46	8.4	46	87	0	540	42	13	21	22	1.88
3022910--3023206	46	6.5	46	88	2	409	41	13	22	21	1.89
3027280--3027331	24	2.2	24	82	0	59	34	34	11	19	1.88
3028188--3028231	17	2.6	17	82	10	54	20	2	6	70	1.21
3028913--3029025	38	3.0	38	92	0	190	38	11	17	32	1.86
3077866--3077913	19	2.5	19	77	16	53	29	31	12	27	1.93
3078507--3078607	41	2.5	41	76	9	98	29	24	14	30	1.95
3086292--3086346	23	2.5	22	77	16	69	29	16	16	38	1.90
3086292--3086354	23	2.8	22	72	13	58	26	20	15	36	1.93
3087575--3087603	15	1.9	15	100	0	58	37	6	27	27	1.82
3087702--3087766	30	2.2	30	86	5	87	29	13	21	35	1.92
3091879--3091928	16	3.0	16	85	5	64	38	4	30	28	1.75
3092485--3092641	61	2.7	56	83	10	208	47	30	7	14	1.71
3092485--3092646	89	1.8	88	93	4	281	47	30	7	14	1.71
3092485--3092641	28	5.4	28	83	8	199	47	30	7	14	1.71
3092514--3092643	33	4.2	33	74	18	145	46	32	7	13	1.72
3092638--3092705	31	2.2	30	82	7	82	39	27	10	22	1.86
3095375--3095408	4	8.8	4	93	6	61	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095537--3095564	5	5.6	5	100	0	56	21	57	21	0	1.41
3102116--3102398	121	2.3	121	91	0	458	29	14	10	45	1.79
3104014--3104057	2	22.5	2	81	4	54	40	4	2	52	1.34
3104558--3104598	7	5.7	7	91	2	55	34	14	39	12	1.84
3105858--3105920	24	2.7	24	80	2	74	31	19	11	38	1.86
3106138--3106194	12	4.8	12	73	0	51	38	24	15	21	1.92
3106138--3106194	24	2.4	24	96	0	105	38	24	15	21	1.92
3110896--3111078	90	2.0	90	100	0	366	23	29	21	25	1.99
3112481--3112545	20	3.0	20	70	21	51	52	0	3	44	1.16
3113078--3113134	29	2.0	28	86	10	80	64	5	3	26	1.30
3113471--3113528	25	2.2	27	78	9	75	60	1	5	32	1.29
3114801--3114882	23	3.6	23	76	12	71	17	17	9	56	1.67
3114849--3114891	23	1.9	22	85	4	59	11	13	13	60	1.59
3115834--3115974	2	74.0	2	73	14	102	53	2	4	39	1.35
3115904--3115980	19	3.9	19	85	6	100	50	0	3	45	1.20
3116086--3116130	2	24.0	2	82	13	60	48	0	2	48	1.13
3116086--3116130	23	2.0	22	87	12	65	48	0	2	48	1.13
3116086--3116133	11	4.1	12	89	7	64	47	0	4	47	1.21
3116209--3116261	22	2.4	22	80	3	61	71	1	1	24	1.06
3115939--3116251	163	1.9	158	93	6	533	60	1	8	28	1.37
3117701--3117784	30	2.6	33	83	11	111	33	8	14	44	1.75
3117836--3117945	37	3.0	37	89	2	177	40	11	20	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3117858--3118030	88	2.0	88	84	0	211	41	11	20	26	1.86
3117959--3118313	36	10.2	36	75	12	289	39	13	18	28	1.89
3117836--3118313	138	3.6	125	76	16	396	39	12	19	27	1.88
3117980--3118077	21	5.2	21	62	26	58	39	12	20	27	1.88
3117954--3118313	138	2.6	134	85	5	477	39	13	18	28	1.88
3120212--3120474	95	2.7	94	83	6	289	33	18	16	31	1.93
3124398--3124467	17	3.8	18	75	7	52	70	1	7	21	1.20
3124568--3124611	15	2.9	15	86	6	54	70	0	4	25	1.06
3124576--3124613	3	12.7	3	83	10	51	71	0	2	26	1.00
3124645--3124701	29	1.9	30	83	16	75	68	1	0	29	1.00
3126155--3126183	12	2.3	13	94	5	51	13	31	0	55	1.39
3126754--3126949	106	1.8	106	84	8	265	31	3	12	52	1.56
3129440--3129480	21	1.9	22	95	5	75	41	17	0	41	1.49
3129457--3129668	27	7.5	27	76	9	172	40	14	3	41	1.64
3132565--3132699	45	3.0	45	86	2	191	42	25	7	24	1.81
3132843--3132918	38	2.0	38	86	0	107	39	21	9	30	1.84
3132929--3132988	25	2.4	25	94	0	102	35	6	1	56	1.35
3133936--3134019	38	2.2	40	79	10	95	30	21	21	26	1.98
3136522--3136587	31	2.2	31	83	5	91	39	12	0	48	1.40
3138682--3138721	15	2.7	15	88	0	62	20	17	50	12	1.78
3138934--3138976	23	1.9	22	90	4	68	67	2	13	16	1.33
3143345--3143431	10	8.9	10	70	23	53	77	1	18	3	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3143340--3143397	16	3.6	16	77	13	66	74	1	22	1	1.01
3143362--3143442	9	8.8	9	72	22	53	76	0	19	3	0.93
3143384--3143442	24	2.3	26	83	11	70	77	0	16	5	0.93
3144571--3144735	58	2.9	57	86	2	206	34	9	16	40	1.80
3144922--3145045	58	2.1	59	78	1	133	26	23	16	33	1.96
3145044--3145149	38	2.8	38	86	4	142	32	19	11	36	1.88
3145342--3145469	39	3.3	39	94	1	222	28	17	17	35	1.94
3145504--3145667	59	2.8	58	88	3	256	30	26	16	26	1.97
3146712--3146757	23	2.1	23	92	8	78	69	0	15	15	1.19
3147217--3147243	11	2.5	11	100	0	54	25	0	0	74	0.83
3147217--3147289	17	4.4	16	75	17	53	17	2	4	75	1.08
3149048--3149087	21	1.9	21	90	10	64	50	7	7	35	1.59
3157981--3158449	231	2.0	235	98	1	910	38	15	16	29	1.89
3160419--3161092	350	1.9	350	93	0	1159	27	12	21	38	1.90
3189458--3189522	20	3.2	20	86	6	94	18	38	27	15	1.91
3190755--3190804	3	17.0	3	89	4	75	68	2	30	0	1.01
3192371--3192601	115	2.0	115	99	0	453	37	6	24	32	1.81
3192866--3192908	20	2.2	20	91	0	68	18	41	25	13	1.88
3193723--3194271	45	12.2	45	87	2	755	43	12	20	23	1.85
3200382--3200430	21	2.3	21	89	0	71	34	14	20	30	1.92
3201013--3201087	19	3.3	23	67	25	59	46	13	21	18	1.83
3212204--3212445	45	5.4	45	90	2	333	44	14	20	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3213171--3213248	27	2.9	27	90	1	113	57	1	1	39	1.15
3213183--3213233	13	3.9	12	76	18	57	60	0	1	37	1.08
3219524--3219595	28	2.5	29	76	13	78	27	20	8	43	1.81
3220828--3220897	34	2.1	32	86	5	95	22	30	15	31	1.95
3222224--3222291	20	3.3	20	75	4	73	19	27	22	30	1.97
3222662--3222731	34	2.1	32	84	5	86	31	14	31	22	1.94
3228355--3228478	52	2.4	52	94	0	212	26	29	14	29	1.95
3243052--3243256	111	1.8	111	92	0	347	33	14	20	32	1.92
3245335--3245386	3	17.3	3	84	7	70	34	0	0	65	0.93
3245393--3245447	26	2.1	26	89	0	83	40	32	18	9	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21