genome.fa.s8338.2.7.7.80.10.50.1000.4.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: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2210178

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  4  of  12  ( 1386 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)
401723--401790	23	3.0	23	80	8	75	55	10	19	14	1.67
402304--402340	16	2.3	16	95	0	65	35	10	10	43	1.75
402497--402529	2	16.5	2	100	0	66	48	0	0	51	1.00
408411--409051	322	2.0	316	96	3	1187	25	16	18	39	1.91
413582--413654	30	2.4	31	86	4	105	28	8	8	54	1.59
415450--415537	45	1.9	46	88	2	133	28	17	25	29	1.97
415519--415620	45	2.3	45	94	1	179	29	13	17	39	1.88
418145--418242	44	2.2	44	82	7	119	27	23	23	25	2.00
434404--434742	20	16.1	20	72	17	158	45	3	5	46	1.42
434506--434643	11	13.3	11	64	15	53	45	2	4	47	1.37
434552--434605	21	2.5	22	77	14	60	44	3	3	48	1.38
434612--434721	49	2.3	47	90	4	166	46	2	5	45	1.40
434681--434742	22	3.0	21	82	13	76	48	0	8	43	1.32
434872--434945	37	2.1	36	82	5	87	40	10	10	37	1.75
434931--434974	20	2.2	20	84	4	54	45	6	9	38	1.63
434952--434996	13	3.3	13	79	11	54	51	11	0	37	1.38
435023--435054	7	4.6	7	100	0	64	46	40	0	12	1.42
435023--435061	14	2.8	14	92	0	51	48	35	0	15	1.45
435175--435208	13	2.5	13	90	4	50	47	8	2	41	1.50
435159--435202	20	2.2	20	83	0	52	47	9	2	40	1.48
435188--435244	22	2.7	22	78	8	64	42	8	5	43	1.58
435190--435244	20	2.7	20	76	18	58	41	9	5	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435126--435259	55	2.4	55	86	2	180	42	8	6	41	1.62
435290--435344	21	2.6	21	82	0	74	40	9	5	45	1.59
435447--435493	21	2.2	21	77	7	51	42	6	4	46	1.48
435318--435565	129	1.9	130	81	5	297	44	3	4	47	1.39
435556--435629	22	3.6	20	76	18	64	48	0	1	50	1.09
435569--435610	15	2.9	15	83	16	54	42	0	0	57	0.99
435556--435631	16	4.9	15	69	19	50	48	0	1	50	1.09
440166--440205	19	2.1	19	85	0	53	60	0	10	30	1.30
446974--447163	31	5.8	31	75	11	148	32	13	16	36	1.88
446996--447071	38	2.0	38	97	0	143	28	14	18	38	1.90
448428--448484	30	2.0	30	83	10	75	50	1	3	43	1.29
448920--449005	31	2.7	32	85	8	122	38	25	12	23	1.90
451128--451497	192	1.9	192	87	3	548	35	19	12	33	1.89
457300--457340	20	2.0	20	86	9	57	56	12	0	31	1.36
462828--462873	20	2.3	20	92	0	74	30	19	13	36	1.90
468571--468619	21	2.3	21	85	0	71	28	16	10	44	1.80
470253--470312	24	2.5	24	100	0	120	15	20	15	50	1.79
476673--476720	14	3.3	14	75	11	51	0	66	0	33	0.92
479358--479407	21	2.3	22	89	3	75	46	0	0	54	1.00
479358--479407	14	3.5	15	75	8	59	46	0	0	54	1.00
481184--481213	2	15.0	2	100	0	60	0	50	0	50	1.00
482821--482879	21	2.8	21	81	0	73	22	37	30	10	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484862--484898	18	2.1	18	89	0	56	16	16	21	45	1.84
490282--490359	26	2.8	28	75	19	74	29	1	0	69	0.97
490281--490323	22	1.9	23	86	13	63	27	2	0	69	1.00
490289--490347	30	2.0	30	86	6	84	32	1	0	66	1.02
490307--490340	18	1.9	18	88	5	52	35	2	0	61	1.11
490302--490342	18	2.3	19	79	12	50	31	2	0	65	1.05
492025--492142	33	3.6	33	85	0	164	15	44	17	22	1.86
500209--500290	30	2.8	30	83	1	94	34	31	19	14	1.92
500236--500330	31	3.1	31	81	4	86	36	24	18	20	1.95
500253--500330	31	2.5	32	83	6	90	37	24	19	19	1.94
508233--508272	13	3.1	13	85	7	55	82	0	5	12	0.82
508232--508276	18	2.5	18	96	0	81	80	0	4	15	0.87
508374--508435	22	2.8	22	95	0	106	61	9	0	29	1.28
514278--514332	25	2.2	25	93	0	92	36	18	9	36	1.82
516326--516939	307	2.0	307	99	0	1210	24	23	16	35	1.95
530267--530309	16	2.6	17	77	3	52	58	0	0	41	0.98
530782--530839	25	2.3	25	100	0	116	63	0	0	36	0.94
533753--533783	13	2.4	13	88	0	53	77	12	0	9	0.99
534352--534395	20	2.2	20	87	0	61	43	20	15	20	1.88
541245--541304	23	2.9	20	87	9	77	21	33	26	18	1.96
541287--541326	21	1.9	21	89	0	62	25	40	25	10	1.86
546020--546118	42	2.4	42	86	3	137	28	36	18	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546691--546745	21	2.6	21	91	0	92	21	38	20	20	1.94
548121--548156	16	2.2	16	95	0	63	19	0	11	69	1.18
548254--548302	20	2.5	20	89	0	71	16	16	22	44	1.86
550785--550836	24	2.2	24	82	0	59	36	21	19	23	1.95
551546--551584	15	2.5	15	83	4	51	66	0	5	28	1.12
551720--551798	20	4.0	20	76	14	74	35	10	25	29	1.88
551764--551811	20	2.4	20	86	6	62	35	12	29	22	1.91
551803--551892	20	4.4	20	79	9	92	28	14	25	31	1.95
551803--551890	41	2.1	41	79	8	99	28	14	25	31	1.95
551774--551977	102	2.0	101	84	8	263	30	13	26	29	1.94
551918--551959	20	2.1	20	86	0	57	33	9	28	28	1.88
552525--552593	17	4.1	17	75	0	57	26	34	21	17	1.95
558025--558060	15	2.4	15	100	0	72	27	13	38	19	1.90
558888--559129	123	2.0	120	87	3	351	46	11	11	30	1.75
560816--560848	16	2.1	16	88	5	50	30	24	9	36	1.86
568667--568701	18	1.9	18	100	0	70	17	22	34	25	1.96
569271--569312	21	2.0	21	90	0	66	21	23	28	26	1.99
574545--574574	14	2.1	14	93	0	51	23	26	0	50	1.50
580643--580677	2	17.5	2	100	0	70	51	0	48	0	1.00
583255--583402	41	3.6	41	81	9	153	34	17	21	26	1.96
584425--584555	57	2.3	57	97	0	244	29	6	13	51	1.65
584818--584929	43	2.7	43	82	10	135	19	23	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585833--585923	46	2.0	46	97	0	173	10	24	15	49	1.76
587684--587739	21	2.7	21	85	0	85	39	19	41	0	1.52
587747--587809	21	3.0	21	88	0	90	44	23	30	1	1.63
588171--588307	43	3.2	44	79	5	120	31	25	19	23	1.98
588227--588350	43	2.9	43	82	2	133	32	26	18	22	1.97
588344--588476	43	3.2	43	85	8	193	24	24	18	32	1.97
588341--588455	40	2.8	40	85	6	160	25	23	18	33	1.97
589474--589640	21	8.2	20	75	13	146	31	22	22	23	1.99
589474--589626	41	3.8	40	83	9	172	32	21	22	23	1.98
590280--590319	6	7.0	6	91	8	66	0	17	47	35	1.48
590280--590318	17	2.3	17	100	0	78	0	17	46	35	1.49
590280--590319	11	3.5	12	90	10	66	0	17	47	35	1.48
590407--590547	21	6.7	21	74	16	130	36	23	19	20	1.95
590407--590547	42	3.3	42	94	1	246	36	23	19	20	1.95
591703--591791	33	2.7	33	80	0	88	26	1	22	49	1.57
591805--591852	3	15.7	3	82	4	60	62	0	0	37	0.95
593972--594013	21	2.0	21	85	0	57	42	0	9	47	1.36
594136--594211	39	1.9	39	89	5	118	52	1	3	42	1.28
594231--594317	33	2.4	37	81	11	101	42	4	6	45	1.51
594295--594339	21	2.1	22	84	12	58	55	6	6	31	1.52
594316--594424	40	3.0	36	79	18	127	45	4	5	44	1.47
594316--594453	34	3.8	34	79	12	125	47	4	4	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594462--594496	12	3.0	12	91	4	54	40	0	8	51	1.33
595516--595568	22	2.6	20	75	18	56	24	11	7	56	1.60
599721--599919	99	2.0	99	92	0	326	32	17	20	30	1.95
601098--601261	83	1.9	84	88	3	249	34	20	18	26	1.96
601104--601289	83	2.2	84	83	4	241	36	18	19	25	1.95
601714--601744	5	6.4	5	92	7	55	19	0	0	80	0.71
601870--602079	36	5.7	37	83	6	248	48	3	6	42	1.44
601744--601950	115	1.8	114	80	12	255	46	2	6	44	1.41
601868--602079	73	2.8	73	83	6	257	48	3	6	42	1.44
603425--603465	6	7.2	6	81	10	50	17	0	2	80	0.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12