genome.fa.s9056.2.7.7.80.10.50.1000.2.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: VEPZ01009056.1 Hibiscus syriacus cultivar Beakdansim tig00112471_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  907955

Tables:   1   2   3   

This is table  2  of  3  ( 360 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)
340090--340221	20	6.8	20	83	16	179	16	18	28	36	1.93
340743--340809	35	1.9	35	100	0	134	14	19	16	49	1.80
347641--347673	16	2.1	16	100	0	66	48	12	21	18	1.80
349531--349691	80	2.0	80	98	1	315	23	27	11	36	1.90
350783--351160	189	2.0	189	100	0	756	28	22	16	32	1.96
356119--356273	64	2.4	63	83	9	190	33	17	21	27	1.96
356834--356931	31	3.2	31	94	0	178	36	11	16	35	1.84
367063--367139	38	2.0	38	100	0	154	22	5	20	51	1.66
373581--373631	18	2.9	17	80	11	59	43	3	0	52	1.19
374769--374795	2	13.5	2	100	0	54	48	0	0	51	1.00
382824--382875	2	26.0	2	96	0	95	50	1	0	48	1.12
384648--384765	3	39.0	3	86	1	128	40	0	2	56	1.13
391318--391384	2	34.0	2	93	3	118	50	0	1	47	1.10
394003--394246	92	2.7	92	93	0	400	26	14	22	36	1.93
396987--397044	22	2.6	22	91	0	98	37	10	15	36	1.82
397717--398508	76	10.4	76	97	0	1399	21	21	21	35	1.96
398635--398752	3	39.0	3	83	5	130	38	0	2	58	1.12
402039--402078	21	1.9	21	100	0	80	25	30	32	12	1.92
402375--402495	58	2.1	59	93	1	208	47	6	9	37	1.62
402639--402711	12	5.7	12	75	15	56	45	5	1	47	1.34
402679--402720	13	3.3	13	87	12	61	35	2	4	57	1.33
402679--402739	12	4.8	12	76	9	59	36	3	6	54	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402679--402746	26	2.6	26	81	9	68	33	4	5	55	1.44
402893--402929	2	18.5	2	88	0	56	51	5	0	43	1.24
409342--409412	36	2.0	35	86	2	97	36	7	16	39	1.76
410905--410968	23	2.7	24	76	13	69	54	0	1	43	1.09
410911--410968	24	2.4	25	82	8	75	55	0	1	43	1.10
411033--411075	22	2.0	22	86	9	61	58	2	0	39	1.11
411027--411109	32	2.5	32	86	5	103	51	3	1	43	1.26
411630--411677	14	3.4	14	78	16	62	35	0	16	47	1.47
411659--411717	21	2.8	20	70	9	55	23	1	25	49	1.60
415735--415781	21	2.2	22	84	3	60	31	19	21	27	1.97
418297--418335	19	2.1	19	85	9	53	66	5	5	23	1.32
419176--419311	71	1.9	71	92	0	227	31	6	8	53	1.56
419902--420029	61	2.1	61	80	9	138	39	15	10	35	1.81
420524--420563	13	3.0	13	85	10	55	82	2	5	10	0.91
420596--420685	43	2.1	43	83	4	110	73	3	6	16	1.18
420936--420962	14	1.9	14	100	0	54	44	7	18	29	1.77
421628--421684	13	4.3	12	84	8	60	78	1	1	17	0.91
421633--421689	5	11.6	5	82	12	66	78	1	0	19	0.83
421633--421688	9	5.8	9	80	15	67	78	1	0	19	0.84
421637--421688	21	2.6	19	88	8	77	78	1	0	19	0.84
421696--421886	34	5.4	34	85	7	247	43	6	3	46	1.46
421879--421966	36	2.4	35	79	9	86	43	9	2	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423469--423515	25	2.0	25	87	8	71	29	0	6	63	1.19
427479--427563	33	2.5	34	81	10	102	47	1	2	49	1.22
428885--428962	40	2.0	41	84	5	106	26	20	16	35	1.94
432349--432516	64	2.6	64	89	0	255	30	15	6	47	1.71
433696--433722	5	5.4	5	100	0	54	40	18	0	40	1.51
438996--439026	5	6.2	5	100	0	62	38	61	0	0	0.96
446325--446361	18	2.1	18	100	0	74	13	10	21	54	1.69
451773--451817	17	2.8	16	80	6	56	71	0	0	28	0.87
460681--460732	23	2.3	22	83	6	59	53	7	17	21	1.68
465585--465724	59	2.4	59	81	1	163	40	5	23	30	1.78
468917--469410	247	2.0	246	93	1	855	23	14	24	37	1.93
470309--470338	15	1.9	16	93	6	53	26	16	13	43	1.85
470861--470980	62	2.0	62	83	1	152	40	5	7	47	1.54
482217--482244	14	2.0	14	100	0	56	71	7	0	21	1.09
484666--484700	15	2.2	16	90	5	54	57	5	0	37	1.23
484745--484806	16	3.9	16	86	0	88	22	29	32	16	1.95
487708--487776	28	2.4	29	85	9	88	62	7	0	30	1.22
488073--488103	2	15.5	2	93	0	53	48	3	0	48	1.17
506960--506995	16	2.1	18	90	10	58	55	0	0	44	0.99
510632--510673	21	2.0	21	85	0	57	26	0	4	69	1.08
510658--510690	16	2.1	16	88	5	50	36	3	0	60	1.12
517927--518061	15	8.5	15	72	17	103	42	0	5	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517904--518087	94	2.0	93	84	10	241	42	0	7	50	1.34
517927--518087	47	3.3	47	92	4	250	42	0	6	50	1.29
518064--518149	22	3.7	22	72	17	84	33	0	13	52	1.41
518068--518230	26	6.3	26	65	20	83	34	0	11	53	1.37
518063--518180	48	2.5	48	98	0	227	33	0	15	51	1.43
518094--518167	22	3.2	22	67	14	67	31	0	16	52	1.44
518259--518317	31	1.9	31	96	0	109	42	8	6	42	1.61
522567--522620	27	2.0	27	89	7	83	33	7	7	51	1.58
523933--524061	59	2.2	58	82	12	158	34	12	17	35	1.87
524214--524441	108	2.1	108	94	4	399	31	20	27	20	1.97
527103--527141	18	2.1	18	85	4	51	64	17	10	7	1.48
528977--529005	2	14.5	2	100	0	58	51	0	0	48	1.00
529891--529947	21	2.7	21	78	10	64	28	22	29	19	1.98
530639--530816	89	2.0	87	93	5	304	26	22	2	47	1.65
532446--532505	2	30.0	2	100	0	120	50	50	0	0	1.00
533554--533583	15	2.0	15	100	0	60	33	26	13	26	1.93
540702--540773	36	2.0	36	91	0	117	16	11	22	50	1.77
542855--542936	30	2.7	30	94	3	139	48	7	19	24	1.74
554334--554740	205	2.0	201	95	4	737	28	16	20	33	1.95
563362--563411	18	2.7	18	84	3	64	38	14	4	44	1.63
570508--570542	19	1.9	17	88	11	52	40	0	2	57	1.14
572146--572208	31	2.0	32	84	9	85	20	22	9	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574259--574301	22	2.0	22	90	0	68	27	6	16	48	1.71
579870--579988	3	40.0	3	84	8	154	36	0	0	63	1.01
580440--580484	6	7.5	6	89	0	72	55	13	31	0	1.38
580436--580484	18	2.7	18	93	0	80	59	12	28	0	1.34
581404--581437	17	2.1	17	94	5	61	14	0	5	79	0.91
587087--587139	26	2.0	26	100	0	106	45	20	15	18	1.85
592648--592728	1	81.0	1	72	0	63	86	0	11	2	0.67
592648--592728	17	4.5	17	83	10	83	86	0	11	2	0.67
592648--592728	20	4.1	20	83	10	96	86	0	11	2	0.67
593860--594115	52	5.0	52	96	2	464	23	14	24	37	1.92
594148--594250	52	2.0	52	98	0	197	24	14	24	36	1.93
594013--594586	135	4.3	135	99	0	1103	28	13	21	36	1.91
593911--594385	187	2.6	184	72	16	474	26	14	22	36	1.92
594283--594385	52	2.0	52	96	0	188	25	14	23	36	1.93
594418--594520	52	2.0	52	96	0	188	25	14	23	36	1.93
595160--595708	119	4.8	114	89	4	784	38	12	20	28	1.89
595160--595708	235	2.4	228	89	6	829	38	12	20	28	1.89
595956--596082	3	42.7	3	90	1	202	34	0	0	64	0.99
596551--596589	6	6.5	6	87	0	60	56	12	30	0	1.37
600075--600114	4	10.0	4	100	0	80	0	75	0	25	0.81
603075--603187	20	5.6	20	77	2	118	14	20	22	43	1.87
603059--603214	41	3.8	41	76	5	156	17	19	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603059--603223	81	2.0	79	80	11	183	18	18	21	41	1.91
603368--603402	6	6.2	6	90	9	56	0	17	48	34	1.47
603564--603617	21	2.6	21	96	0	99	29	27	16	25	1.97
605847--605878	15	2.0	17	88	11	50	31	15	6	46	1.71
609967--610050	24	3.5	24	90	1	125	52	13	20	14	1.74
609967--610063	24	4.1	24	86	1	97	51	14	18	15	1.76
610653--610691	20	2.0	20	84	0	51	33	10	23	33	1.88
611303--611394	31	3.0	31	83	0	121	36	16	17	29	1.92
613673--613760	32	2.8	32	70	15	85	50	2	2	45	1.27
614778--614817	21	1.9	21	84	0	53	37	5	17	40	1.72

Tables:   1   2   3