genome.fa.s8187.2.7.7.80.10.50.1000.2.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: VEPZ01008187.1 Hibiscus syriacus cultivar Beakdansim tig00110794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1300289

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 587 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)
344605--344660	21	2.8	20	78	10	69	35	19	21	23	1.96
344650--344725	21	3.6	21	82	3	89	21	19	28	30	1.97
344650--344714	22	3.0	22	88	2	87	23	20	27	29	1.98
344784--344837	21	2.6	21	96	0	99	20	24	25	29	1.99
349069--349107	18	2.2	18	86	9	53	61	0	15	23	1.33
349228--349266	21	1.9	21	84	5	53	41	5	7	46	1.55
349157--349419	33	7.3	36	74	16	185	42	6	4	46	1.50
359809--359905	34	2.9	33	79	7	99	29	3	6	60	1.36
360026--360060	16	2.1	18	89	10	56	25	8	0	65	1.21
360156--360194	16	2.4	16	83	8	53	23	7	0	69	1.14
363236--363305	20	3.3	20	82	9	68	78	5	14	1	1.00
363894--363956	29	2.2	29	100	0	126	28	33	14	23	1.94
364390--364425	18	2.0	18	88	0	54	19	8	30	41	1.81
364748--365164	36	11.8	37	70	15	165	26	19	14	40	1.90
364843--365165	72	4.6	73	76	10	230	26	19	14	38	1.91
364893--365165	72	3.9	70	76	10	299	26	19	14	39	1.90
364940--365128	102	1.9	103	88	2	292	26	19	13	40	1.89
364904--365228	138	2.4	137	83	3	429	27	20	12	39	1.89
365140--365296	68	2.4	68	84	3	203	32	21	8	36	1.85
365931--366972	105	10.0	104	90	3	1541	33	26	17	22	1.96
365931--366972	205	5.0	205	93	1	1611	33	26	17	22	1.96
365931--366972	310	3.3	312	90	4	1570	33	26	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368021--368053	2	16.5	2	93	0	57	45	0	0	54	0.99
367987--368055	8	8.4	8	73	12	50	34	0	5	59	1.21
368147--368181	16	2.1	18	89	10	56	25	8	0	65	1.21
371800--371870	34	2.1	34	89	5	108	21	19	12	46	1.83
382652--382807	73	2.1	73	95	0	276	36	22	16	24	1.94
382946--382980	18	1.9	18	94	0	61	37	5	14	42	1.69
383182--383218	2	18.5	2	91	0	56	54	2	0	43	1.14
395477--395550	39	2.0	35	87	12	105	31	16	13	39	1.87
395789--396005	118	1.8	118	93	0	380	26	9	17	46	1.79
405568--405739	55	3.1	54	81	6	186	42	9	14	33	1.79
408665--408753	46	1.9	46	95	0	160	15	26	30	26	1.96
420614--420731	61	1.9	61	94	0	209	47	17	11	22	1.81
420808--420860	26	2.0	26	81	0	61	20	28	9	41	1.83
432117--432151	14	2.5	14	95	0	61	0	8	8	82	0.83
432733--432784	3	17.0	3	84	11	70	65	3	0	30	1.10
433085--433323	40	5.6	41	73	16	157	22	19	33	24	1.97
432979--433342	133	2.7	133	91	1	550	22	18	33	25	1.97
433369--433445	28	2.6	28	80	13	93	48	14	14	23	1.80
433499--433610	31	3.6	31	66	13	88	34	10	19	34	1.87
433507--433640	61	2.2	61	100	0	268	33	12	20	33	1.90
433544--433641	30	3.2	30	64	13	83	32	14	20	32	1.92
434234--434354	37	3.5	35	68	23	96	43	11	12	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434226--434387	67	2.5	65	91	5	263	44	13	11	30	1.80
434343--434399	27	2.1	27	93	0	96	45	15	7	31	1.73
434487--434746	29	9.0	29	76	12	207	46	14	10	28	1.77
434440--434776	148	2.3	148	95	1	608	46	15	10	27	1.79
434999--435131	35	3.8	35	88	3	187	33	15	18	33	1.91
435116--435188	36	2.0	37	83	2	94	46	13	12	27	1.79
436757--436807	17	3.2	17	76	18	56	1	23	5	68	1.22
443867--443921	3	18.0	3	85	10	76	65	3	0	30	1.10
446535--446629	29	3.2	29	67	14	77	34	20	3	42	1.68
446548--446645	31	3.2	30	67	16	76	31	23	4	40	1.73
446523--446681	60	2.7	60	87	3	221	32	22	4	40	1.74
446801--446938	60	2.3	60	82	5	154	36	5	26	31	1.80
446801--446969	60	2.8	60	79	3	144	37	6	23	33	1.80
448670--448715	14	3.3	14	96	0	83	8	15	26	50	1.73
448685--448735	24	2.1	24	85	7	68	13	11	19	54	1.69
448647--448735	38	2.5	34	76	7	88	14	14	20	50	1.77
449356--449406	16	3.3	16	89	5	79	11	9	17	60	1.57
477074--477124	2	25.5	2	84	7	68	49	1	0	49	1.12
489998--490032	16	2.1	17	94	5	63	34	22	8	34	1.85
495409--495462	2	27.0	2	100	0	108	50	0	0	50	1.00
503791--503880	42	2.1	42	91	0	144	42	26	21	10	1.84
505300--505345	17	2.8	17	83	6	51	39	4	6	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509635--509667	15	2.1	16	88	5	50	9	24	15	51	1.72
525907--525932	13	2.0	13	100	0	52	15	15	23	46	1.83
533315--533363	25	2.0	25	88	4	73	38	0	26	34	1.57
533313--533365	24	2.3	22	78	15	61	41	0	24	33	1.55
536203--536319	43	2.9	41	81	10	143	45	1	0	52	1.10
536221--536299	10	8.5	10	68	26	50	41	2	0	55	1.13
536203--536313	41	2.7	43	84	8	151	45	1	0	53	1.11
536286--536328	20	2.1	21	83	12	54	53	0	0	46	1.00
536503--536568	29	2.3	29	81	7	80	50	16	0	33	1.46
536538--536584	23	2.1	23	88	7	71	48	12	0	38	1.41
536549--536597	23	2.1	23	88	3	71	46	8	0	44	1.33
541128--541166	17	2.3	17	95	0	69	35	38	2	23	1.68
543171--543213	20	2.1	21	86	4	61	55	4	4	34	1.41
543165--543225	22	2.8	22	80	12	72	55	3	4	36	1.38
543246--543284	8	4.6	9	81	12	55	64	0	0	35	0.94
543241--543294	17	3.1	17	89	2	72	62	0	1	35	1.06
543241--543287	9	5.8	8	78	14	51	61	0	0	38	0.96
545343--545375	17	2.0	17	88	5	50	30	0	0	69	0.88
545342--545383	18	2.4	17	81	14	50	35	0	0	64	0.94
547511--547569	27	2.2	27	96	3	111	42	22	3	32	1.70
554991--555084	34	2.6	38	80	11	101	28	23	9	38	1.86
569053--569167	60	1.9	60	81	0	140	38	16	15	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591071--591161	34	2.7	33	89	6	137	32	26	15	25	1.95
592980--593095	60	1.9	60	94	0	205	44	15	22	17	1.86
597972--598005	15	2.3	15	94	0	59	44	20	26	8	1.81
611989--612015	6	4.5	6	100	0	54	37	0	44	18	1.50
612449--612486	20	1.9	20	88	0	58	28	13	5	52	1.61
614731--614957	87	2.6	86	82	8	255	34	20	18	25	1.96
614731--614957	43	5.2	43	75	10	210	34	20	18	25	1.96
616419--616582	82	2.0	82	98	0	319	32	8	34	24	1.86
627495--627544	22	2.3	22	77	19	59	68	4	0	28	1.08
628330--628375	20	2.3	19	89	10	74	56	10	15	17	1.67
628117--628589	181	2.6	181	88	1	662	42	14	16	27	1.86
628519--628561	20	2.3	20	88	11	65	53	11	13	20	1.71
630654--630687	17	2.0	17	94	0	59	17	8	58	14	1.61
630769--630832	21	3.1	21	90	2	94	42	10	29	17	1.83
630866--630931	33	2.0	33	90	0	105	28	0	48	22	1.51
631891--631953	20	3.1	21	88	4	85	41	11	31	15	1.83
634372--634435	23	2.8	23	87	0	92	39	4	20	35	1.73
634856--634928	23	3.2	23	92	0	119	34	5	21	38	1.77
634029--635827	491	3.7	490	95	1	3192	41	7	10	39	1.69
635347--635419	23	3.2	23	92	0	119	34	5	21	38	1.77
636269--636432	85	1.9	85	88	0	247	30	10	7	51	1.63
639276--639313	20	1.9	20	84	10	51	39	5	0	55	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640247--640331	30	2.9	30	96	1	154	21	23	37	17	1.94
640927--641028	50	2.0	50	100	0	204	56	15	1	25	1.50
645986--646060	27	2.8	27	89	0	114	30	21	16	32	1.95
646259--646293	17	2.1	17	100	0	70	17	5	11	65	1.43
646340--646369	3	10.0	3	100	0	60	33	0	0	66	0.92
652487--652627	71	2.0	72	95	1	257	15	17	11	55	1.69
659679--659725	2	23.5	2	100	0	94	48	0	0	51	1.00
667477--667596	63	1.9	63	84	0	159	50	9	12	27	1.70
671899--671924	13	2.0	13	100	0	52	23	23	30	23	1.99
681439--681525	19	4.5	19	77	18	90	40	2	2	55	1.25

Tables:   1   2   3   4   5