genome.fa.s1129.2.7.7.80.10.50.1000.3.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  3  of  89  ( 10573 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)
441911--441956	20	2.2	22	88	7	69	15	13	15	56	1.68
442106--442245	4	34.5	4	70	21	55	20	7	2	70	1.21
442125--442169	18	2.6	17	83	10	56	17	13	0	68	1.20
442195--442244	26	1.9	26	88	8	75	24	2	0	74	0.93
442207--442246	18	2.2	19	82	13	57	20	2	0	77	0.88
442297--442326	11	2.8	11	95	5	53	33	0	0	66	0.92
443611--443646	2	18.0	2	94	0	63	52	0	0	47	1.00
444840--444891	19	2.7	19	88	8	79	25	21	25	28	1.99
448112--448169	20	2.9	21	75	14	59	46	0	10	43	1.38
449660--449724	28	2.3	28	100	0	130	32	3	30	33	1.73
449676--449739	28	2.3	28	86	0	83	32	7	21	37	1.83
449802--449835	2	18.0	2	88	11	54	52	0	0	47	1.00
449802--449835	13	2.6	13	100	0	68	52	0	0	47	1.00
454737--454780	14	3.1	14	90	0	61	2	31	22	43	1.66
455022--455392	184	2.0	185	90	1	584	46	8	3	41	1.52
455810--455866	2	29.0	2	96	3	107	49	0	0	50	1.00
461848--461889	2	21.0	2	100	0	84	50	0	0	50	1.00
464034--464076	11	3.8	11	85	11	52	27	0	2	69	1.00
465337--465401	32	2.1	31	91	2	103	24	10	3	61	1.43
465833--465928	29	3.3	29	78	11	97	25	17	10	46	1.79
465884--465941	30	1.9	30	86	13	84	25	20	6	46	1.75
470347--470408	32	2.0	31	84	9	81	25	9	3	61	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470866--470965	29	3.4	29	85	10	141	24	20	12	44	1.85
475093--475127	18	1.9	18	88	0	52	22	5	17	54	1.64
475398--475471	30	2.5	30	76	12	80	36	18	6	37	1.78
487134--488337	182	6.6	182	90	1	1709	27	17	14	40	1.88
487182--488337	362	3.2	363	89	1	1699	27	17	14	40	1.88
487185--488329	544	2.1	543	89	1	1745	26	17	14	40	1.88
490166--490200	18	1.9	18	88	11	54	68	8	2	20	1.29
491391--491431	3	14.3	3	90	10	68	65	0	0	34	0.93
498997--499041	3	15.0	3	100	0	90	66	0	0	33	0.92
503949--503984	15	2.5	15	95	4	65	27	22	0	50	1.50
507320--507368	2	24.5	2	100	0	98	48	0	0	51	1.00
507630--507668	14	2.8	14	88	7	53	61	2	5	30	1.31
507689--507753	33	2.0	33	96	0	121	66	3	7	23	1.32
509759--509821	20	3.0	20	70	11	56	33	20	23	22	1.97
518336--518378	3	13.7	3	95	4	68	32	37	0	30	1.58
518596--518628	16	2.1	16	88	11	50	81	0	18	0	0.68
518596--518651	17	3.3	16	76	16	51	80	1	12	5	0.96
540624--540671	2	24.5	2	93	4	80	54	45	0	0	0.99
547062--547113	20	2.6	20	88	8	79	28	25	17	28	1.97
549708--549742	18	1.9	18	100	0	70	57	0	28	14	1.38
551798--551894	46	2.1	46	84	3	124	37	19	20	22	1.95
551798--551884	23	3.8	23	75	3	77	37	19	19	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551829--551894	23	2.9	23	83	0	87	34	22	22	19	1.96
551982--552133	14	10.4	14	66	23	55	39	19	5	34	1.76
551985--552057	22	3.3	22	67	14	69	36	20	6	35	1.80
551970--552133	44	3.7	44	94	0	283	39	20	6	34	1.77
575950--576226	37	7.9	35	73	19	140	44	4	7	43	1.53
576029--576090	27	2.3	26	80	2	79	45	3	4	46	1.40
576068--576349	33	7.6	36	76	12	229	43	2	8	44	1.50
576004--576203	65	3.0	64	78	13	176	43	3	8	45	1.50
575968--576231	102	2.5	102	79	13	267	44	3	7	43	1.50
576068--576343	37	7.5	36	76	12	217	43	2	8	45	1.50
576362--576395	3	11.0	3	87	6	50	32	2	0	64	1.08
577675--577704	13	2.3	13	94	0	51	33	3	0	63	1.11
579304--579348	19	2.4	19	92	3	74	11	13	8	66	1.44
582706--582781	38	2.0	38	89	0	116	27	15	23	32	1.95
582744--583283	84	6.5	83	75	7	515	29	24	21	24	1.99
582962--583379	165	2.5	165	84	3	504	29	25	21	24	1.99
582744--583283	249	2.2	249	93	2	931	29	24	21	24	1.99
583916--584189	33	7.9	35	73	18	138	44	4	8	43	1.53
583995--584056	27	2.3	26	80	2	79	45	3	4	46	1.40
584034--584272	33	6.7	34	76	17	177	43	2	8	45	1.49
584033--584194	70	2.4	68	83	12	206	44	2	7	45	1.45
584321--584367	3	15.7	3	89	8	69	34	2	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584321--584385	14	4.9	13	80	16	55	30	3	0	66	1.07
584321--584384	23	2.7	24	85	11	87	31	3	0	65	1.08
589084--589137	2	27.5	2	96	3	101	51	0	0	48	1.00
592353--592431	38	2.1	38	81	9	99	43	5	6	45	1.51
592354--592745	36	10.9	35	75	21	247	45	3	5	45	1.44
592355--592666	39	8.4	36	78	18	220	44	3	6	45	1.46
592445--592666	75	2.9	74	86	9	268	44	3	5	46	1.45
592738--592796	27	2.2	28	79	14	70	28	0	0	71	0.87
592753--592805	3	17.7	3	77	14	56	24	1	0	73	0.93
592753--592808	12	4.7	12	81	18	64	23	1	0	75	0.90
592752--592811	15	4.1	15	85	12	72	23	1	0	75	0.90
592747--592807	26	2.3	26	89	10	90	22	1	0	75	0.89
598283--598327	23	2.0	23	86	0	63	26	28	24	20	1.99
598308--598609	149	2.0	149	97	0	568	38	18	15	27	1.92
598778--598849	29	2.5	29	93	0	117	40	11	8	40	1.71
598780--598857	29	2.4	33	75	20	92	41	11	7	39	1.70
599149--599298	66	2.3	66	89	1	219	15	27	28	28	1.96
599278--599320	21	2.0	21	86	0	59	16	25	27	30	1.97
605342--605385	22	2.0	23	81	4	54	27	27	25	20	1.99
605822--605896	28	2.7	28	85	6	91	38	12	8	41	1.72
606194--606343	66	2.3	66	89	1	219	15	27	28	28	1.96
606323--606365	21	2.0	21	86	0	59	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608106--608968	84	10.2	84	85	2	1095	34	21	18	25	1.96
608106--609011	253	3.6	253	86	2	1137	34	21	18	25	1.96
608101--608968	422	2.1	420	89	0	1324	34	21	18	25	1.96
608106--609062	169	5.7	167	84	4	1004	34	21	17	25	1.96
609581--609661	2	41.5	2	95	4	148	49	0	0	50	1.00
609732--610034	77	4.0	76	85	7	350	44	3	5	46	1.44
609726--610192	38	12.9	37	77	16	348	43	3	5	47	1.42
610020--610087	13	4.5	15	73	21	54	36	0	4	58	1.18
609733--610192	77	6.4	74	74	19	284	43	3	5	47	1.41
610013--610117	30	3.5	30	88	8	153	38	0	5	55	1.30
609975--610165	70	2.9	69	76	20	208	39	2	5	52	1.38
610109--610177	27	2.7	25	73	6	66	47	2	2	46	1.32
610196--610279	3	26.7	3	81	13	98	28	2	0	69	1.01
611956--611995	3	13.3	3	100	0	80	32	0	0	67	0.91
615756--615795	21	1.9	21	89	0	62	12	30	35	22	1.91
621399--621449	26	2.0	26	92	0	84	29	37	13	19	1.90
621692--621808	29	3.9	29	90	6	164	12	18	42	25	1.86
621700--621834	29	4.4	30	88	8	143	11	17	44	26	1.83
622189--623113	465	2.0	458	94	1	1625	37	7	23	32	1.81
626940--627087	75	2.0	76	81	11	180	25	12	12	50	1.75
631031--631082	20	2.6	20	81	6	61	32	13	32	21	1.92
631133--631177	22	2.1	21	92	8	74	26	15	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631518--631941	55	7.7	55	89	2	588	33	20	19	27	1.97
634508--634577	20	3.5	20	69	7	61	40	17	12	30	1.87
634952--635004	21	2.5	21	93	0	97	28	15	22	33	1.94
636799--636845	19	2.4	19	96	3	85	29	0	10	59	1.31
637511--637602	41	2.2	41	98	0	175	27	20	23	28	1.99
638968--639102	52	2.7	50	82	8	143	30	4	5	59	1.41
647778--647834	22	2.8	20	77	20	55	28	8	1	61	1.36
647800--647843	19	2.4	19	82	17	58	29	4	4	61	1.36
648270--648304	18	1.9	18	100	0	70	25	34	22	17	1.96
650062--650102	13	3.4	13	74	19	52	39	9	0	51	1.35

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