genome.fa.s7860.2.7.7.80.10.50.1000.4.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1828 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)
484211--484310	19	5.5	19	84	12	147	45	17	23	15	1.85
484211--484327	53	2.2	53	95	1	209	43	17	24	14	1.86
484317--484484	19	9.6	19	75	18	168	14	22	17	44	1.86
484323--484484	33	4.7	33	73	16	150	14	22	17	45	1.84
484317--484484	52	3.2	52	96	0	300	14	22	17	44	1.86
484543--484689	19	8.2	19	80	16	188	45	17	23	14	1.84
484561--484712	33	4.4	34	74	19	136	45	17	23	13	1.84
484543--484712	53	3.2	53	98	0	324	45	17	23	13	1.84
487218--487262	23	2.0	23	86	8	65	35	22	15	26	1.94
487945--488214	20	13.5	20	87	1	281	20	17	24	37	1.94
488612--488671	24	2.6	23	81	5	68	48	3	0	48	1.18
488810--488875	30	2.2	30	78	10	73	45	0	1	53	1.09
493624--493673	26	2.0	26	92	4	84	40	10	12	38	1.76
493953--493992	18	2.2	18	86	8	55	25	5	0	70	1.08
494155--494560	82	4.9	82	80	4	399	30	16	18	33	1.94
494575--494631	22	2.6	22	86	2	80	54	0	8	36	1.32
494575--494638	22	3.1	21	82	6	69	53	0	9	37	1.34
499579--499628	21	2.4	21	96	0	91	20	14	12	54	1.71
500390--500670	156	1.8	156	85	0	400	37	22	14	25	1.92
500628--500757	65	2.0	65	95	0	233	39	20	13	26	1.90
500489--501298	281	2.9	281	91	2	1285	37	22	13	26	1.92
500909--501082	65	2.8	65	85	4	223	39	20	10	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501497--501754	85	3.0	84	88	3	390	34	23	18	23	1.96
503521--503555	9	3.8	9	88	7	52	22	5	0	71	1.07
503530--503708	81	2.2	81	77	14	183	20	5	3	70	1.21
503666--503736	26	2.8	26	95	2	126	16	8	0	74	1.05
503816--503864	12	3.9	12	76	10	53	4	20	2	73	1.10
503811--503871	26	2.3	26	97	0	113	3	16	3	77	1.04
504217--504270	3	17.3	3	84	7	56	29	1	0	68	1.00
506121--506200	4	18.8	4	74	14	54	16	8	0	75	1.04
506114--506192	30	2.7	29	81	18	85	15	8	0	75	1.02
506112--506213	26	4.0	25	77	15	86	18	7	0	73	1.07
506445--506540	5	19.6	5	70	16	58	14	7	3	75	1.15
506468--506517	25	2.0	26	88	7	77	16	10	2	72	1.21
506652--506685	11	3.2	10	91	8	50	14	0	0	85	0.60
507062--507099	5	7.8	5	82	5	51	76	2	2	18	1.02
507057--507126	29	2.4	27	78	17	70	75	4	5	14	1.14
507415--507480	4	16.8	4	73	14	57	71	1	7	19	1.18
507588--507612	9	2.8	9	100	0	50	72	0	0	28	0.86
508951--508989	2	19.5	2	100	0	78	48	0	0	51	1.00
508987--509058	8	8.1	9	73	13	60	19	4	2	73	1.12
508979--509056	17	4.5	17	71	15	61	23	3	2	70	1.16
509201--509295	6	14.7	6	73	22	59	14	5	1	78	0.97
509203--509280	15	4.8	17	73	17	67	14	6	1	78	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509201--509319	14	8.2	14	74	14	91	15	5	1	77	1.04
509220--509319	29	3.4	29	83	6	94	16	6	2	76	1.08
509244--509322	4	20.5	4	69	25	55	18	3	1	75	1.02
510555--510603	21	2.3	21	78	0	53	28	0	20	51	1.48
510984--511016	6	5.5	6	100	0	66	48	0	18	33	1.48
516124--516155	15	2.1	15	100	0	64	37	25	6	31	1.81
517470--517494	9	2.8	9	100	0	50	88	0	0	12	0.53
517914--518246	75	4.4	75	85	2	445	41	12	13	33	1.81
517914--518246	149	2.2	151	87	2	465	41	12	13	33	1.81
518221--518313	23	4.1	23	79	10	93	36	13	11	37	1.82
518235--518316	23	3.7	22	82	14	98	34	13	12	40	1.82
518594--518630	18	2.1	17	90	5	56	51	10	2	35	1.51
518848--519341	109	4.5	108	75	7	413	33	14	12	38	1.84
518963--519422	225	2.0	225	86	1	627	31	15	13	39	1.86
522514--522661	74	2.0	74	98	0	287	37	27	17	16	1.92
527476--527526	22	2.4	22	87	6	70	11	3	37	47	1.59
539834--540439	82	7.4	82	85	2	725	38	19	16	24	1.92
539834--540429	164	3.6	164	88	1	816	38	19	16	25	1.92
539835--540439	246	2.5	246	86	0	832	39	19	17	24	1.92
547400--548001	77	7.8	76	83	5	606	38	9	15	36	1.79
547784--547904	37	3.2	37	68	13	93	38	9	16	35	1.82
547400--547961	231	2.4	231	85	2	754	38	9	15	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547722--547930	40	5.4	39	66	12	126	37	8	16	37	1.78
548032--548279	133	1.9	134	90	0	399	42	11	11	34	1.77
549130--549671	77	7.1	77	82	1	631	34	17	11	36	1.85
549130--549671	154	3.5	154	84	3	696	34	17	11	36	1.85
549796--549959	78	2.1	79	82	4	197	34	14	10	40	1.80
549528--550046	264	2.0	261	85	4	713	34	16	8	40	1.79
555705--555748	19	2.3	19	88	7	63	43	4	13	38	1.65
556371--556424	22	2.5	22	87	0	72	24	24	22	29	1.99
563758--563959	95	2.1	95	93	0	341	34	16	18	31	1.93
565445--565713	95	2.7	97	86	6	346	33	17	17	31	1.94
567040--567112	36	2.0	37	94	2	130	27	19	13	39	1.89
567135--567239	37	2.9	36	85	4	147	27	17	13	41	1.86
567013--567111	36	2.7	36	80	13	96	29	19	13	38	1.89
567040--567473	138	3.1	138	92	1	701	27	18	11	41	1.86
567269--567389	36	3.3	36	80	5	145	30	20	9	38	1.85
567301--567646	101	3.4	101	85	4	426	28	18	11	41	1.85
567412--567490	36	2.2	36	88	0	113	32	20	11	35	1.88
567632--567666	15	2.3	15	90	0	61	20	17	20	42	1.89
569389--569415	2	13.5	2	100	0	54	48	0	0	51	1.00
571867--571936	15	4.7	15	80	3	70	40	5	15	38	1.71
572075--572178	24	4.4	23	81	6	86	20	24	25	30	1.98
572067--572165	23	4.2	24	84	5	112	22	23	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572091--572191	48	2.1	47	83	8	125	21	21	23	32	1.98
573573--573640	9	7.6	9	70	9	50	17	5	5	70	1.28
578882--579128	72	3.4	72	80	6	250	29	17	12	40	1.86
578994--579133	73	1.9	72	85	4	192	27	17	15	40	1.89
579101--579155	21	2.7	20	88	5	74	23	21	12	41	1.88
579182--579332	65	2.3	65	83	2	187	29	19	11	39	1.87
579228--579552	102	3.2	102	84	1	341	29	18	12	39	1.87
579130--579451	167	1.9	166	94	0	563	29	18	12	39	1.87
579395--579480	37	2.4	37	86	2	111	25	20	15	38	1.92
579533--579583	21	2.5	20	93	6	84	25	25	9	39	1.86
579840--579997	84	1.9	85	82	1	201	31	24	18	25	1.98
581244--581297	24	2.2	26	83	6	67	12	7	3	75	1.14
583242--583275	14	2.4	14	100	0	68	29	5	35	29	1.81
585981--586039	25	2.4	24	76	21	59	57	3	1	37	1.25
587203--587254	23	2.3	23	86	0	68	46	1	0	51	1.12
588718--588795	31	2.5	31	85	0	93	53	14	11	20	1.71
593494--593531	20	1.9	20	88	0	58	36	42	10	10	1.74
593547--593646	49	2.0	49	98	0	191	47	20	17	16	1.83
594823--594854	15	2.1	15	100	0	64	40	21	12	25	1.88
599187--599261	21	3.6	21	78	10	73	26	22	17	33	1.96
599251--599302	21	2.5	21	87	3	70	38	17	23	21	1.93
599288--599400	41	2.8	42	85	4	142	31	26	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599292--599400	20	5.4	20	83	6	130	29	27	19	23	1.98
599632--599727	20	4.8	20	89	0	147	40	21	21	15	1.91
599746--599825	34	2.4	34	89	0	115	12	22	25	40	1.89
601379--601469	42	2.2	42	88	2	139	20	15	41	21	1.89
601406--601466	21	2.9	21	73	9	70	21	13	42	22	1.87
601834--601906	20	3.7	20	96	0	128	34	24	26	15	1.94
601814--601899	40	2.2	40	86	0	118	33	26	22	17	1.96
601893--601951	19	3.4	19	73	22	65	49	20	16	13	1.80
601834--601920	40	2.2	40	87	2	122	35	24	25	14	1.94
601893--601972	33	2.4	33	93	0	133	50	21	17	11	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16