genome.fa.s1497.2.7.7.80.10.50.1000.3.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: VEPZ01001497.1 Hibiscus syriacus cultivar Beakdansim tig00002919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1780709

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 861 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)
423110--423196	20	4.3	20	82	5	88	27	20	19	32	1.97
423110--423240	41	3.2	41	79	3	140	31	19	20	29	1.97
423715--424156	216	2.1	215	89	2	681	37	26	11	23	1.89
429644--429703	16	3.9	16	95	4	106	46	13	23	16	1.82
429644--429703	30	1.9	30	93	6	102	46	13	23	16	1.82
431929--432027	51	1.9	51	95	0	180	36	11	21	31	1.88
433114--433849	370	2.0	369	98	0	1436	28	17	19	34	1.95
444913--444956	19	2.3	18	82	17	54	54	0	4	40	1.21
447956--447987	7	4.6	7	100	0	64	15	15	15	53	1.74
451027--451060	17	1.9	18	88	5	52	52	32	2	11	1.53
452066--452117	16	3.3	16	69	15	54	26	7	11	53	1.63
452063--452164	31	3.3	31	91	1	152	30	8	7	52	1.61
452226--452292	31	2.2	30	86	5	98	40	14	2	41	1.62
459587--459659	37	2.0	37	91	0	119	12	9	19	58	1.60
463067--463101	10	3.4	10	88	4	52	28	0	2	68	1.04
463015--463121	51	2.1	52	82	8	130	34	6	0	57	1.31
474282--474348	1	67.0	1	75	0	62	88	11	0	0	0.53
474282--474349	6	10.0	7	92	6	81	86	13	0	0	0.56
475126--476215	105	10.4	105	95	0	1910	33	24	18	23	1.97
477729--477833	49	2.1	50	81	11	128	33	6	0	59	1.30
477786--477820	10	3.4	10	88	4	52	28	0	2	68	1.04
484330--484360	14	2.2	14	100	0	62	58	9	12	19	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484423--484478	27	2.1	26	93	3	94	28	28	8	33	1.87
485213--485246	15	2.3	15	100	0	68	14	41	17	26	1.88
486628--486699	29	2.4	31	81	4	94	37	2	2	56	1.28
489308--489351	17	2.6	17	81	0	52	2	22	2	72	1.07
489982--490017	14	2.6	14	87	12	56	66	0	0	33	0.92
489982--490018	3	13.0	3	88	11	60	67	0	0	32	0.91
490310--490550	40	5.8	40	79	9	234	23	19	33	24	1.97
490171--490550	169	2.2	171	92	2	622	23	18	32	25	1.97
490350--490602	129	2.0	129	96	1	463	24	18	31	25	1.98
490956--491038	35	2.3	36	82	10	100	36	12	19	32	1.88
491495--491618	64	2.0	62	85	4	169	43	11	14	30	1.80
491858--491979	37	3.4	36	72	11	117	43	10	13	32	1.78
491840--491998	69	2.3	69	89	5	236	44	11	12	32	1.78
491983--492086	51	2.0	53	88	5	158	35	17	13	33	1.89
492082--492203	29	4.4	27	80	10	92	46	14	10	27	1.78
492097--492197	29	3.7	28	83	10	120	44	16	9	28	1.80
492473--492538	35	1.9	34	84	9	89	31	10	22	34	1.88
492484--492550	35	1.9	34	82	8	82	32	11	22	32	1.90
492508--492738	104	2.3	100	82	8	252	37	12	18	31	1.88
493201--493240	4	10.5	4	89	10	66	25	0	25	50	1.50
494430--494463	12	2.8	12	86	4	50	5	11	11	70	1.32
494400--494483	35	2.4	35	79	15	100	2	15	10	71	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494400--494495	10	9.4	10	70	13	63	3	14	9	72	1.21
495119--495160	20	2.1	20	90	0	66	40	11	19	28	1.87
495091--495170	26	3.3	25	72	21	89	40	10	23	26	1.86
495077--495170	46	2.1	45	87	2	134	37	9	25	27	1.87
497589--497649	32	2.0	32	93	6	108	60	9	14	14	1.58
501087--501130	17	2.6	17	81	0	52	2	22	2	72	1.07
501763--501799	3	12.3	3	88	11	58	70	0	0	29	0.88
504863--504912	22	2.3	23	79	10	59	46	2	6	46	1.39
509397--509435	19	1.9	19	85	10	51	5	28	5	61	1.39
513186--513229	23	1.9	23	90	9	72	20	2	27	50	1.60
515659--515707	24	2.0	24	84	0	62	30	6	18	44	1.74
515872--516083	82	2.6	82	87	3	291	21	22	23	32	1.98
516972--517059	10	9.1	10	77	12	94	18	23	30	27	1.97
516972--517061	19	4.7	19	90	6	128	17	25	30	26	1.98
517055--517095	17	2.4	17	100	0	82	17	43	24	14	1.86
517085--517127	7	6.4	7	86	10	63	18	30	27	23	1.98
517085--517121	13	2.8	13	100	0	74	16	32	29	21	1.95
517085--517127	20	2.2	20	87	8	61	18	30	27	23	1.98
517997--518120	63	2.0	63	80	6	144	17	28	28	25	1.98
524325--524393	10	7.1	10	73	12	63	18	21	30	28	1.97
524325--524395	19	3.7	19	84	5	81	18	23	29	28	1.98
524389--524429	17	2.4	17	95	0	73	17	41	24	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524419--524461	7	6.4	7	89	10	72	16	30	30	23	1.96
524419--524457	13	3.0	13	100	0	78	15	30	30	23	1.95
524419--524461	20	2.2	20	91	8	70	16	30	30	23	1.96
525331--525454	63	2.0	63	82	6	153	16	28	29	25	1.97
536366--536431	32	2.1	31	86	8	89	48	1	1	48	1.20
536574--536693	61	2.0	62	89	1	188	50	4	3	42	1.38
537161--537238	34	2.3	33	77	14	79	42	12	1	43	1.51
538400--538499	21	4.9	21	78	8	100	18	46	12	24	1.82
538421--538560	42	3.4	39	78	10	138	18	44	10	27	1.81
538446--538514	21	3.5	20	76	11	70	21	46	8	23	1.79
538786--538814	10	2.9	10	100	0	58	58	0	31	10	1.31
538787--538834	20	2.2	20	82	10	51	60	2	29	8	1.37
539183--539211	15	2.0	15	93	6	51	31	0	20	48	1.50
550124--550197	22	3.2	22	76	16	62	43	1	4	51	1.29
550555--550636	41	2.0	41	100	0	164	34	9	12	43	1.75
563486--563536	15	3.4	15	97	0	93	5	17	68	7	1.34
573280--573331	27	2.0	27	88	3	79	28	1	1	67	1.12
575313--575344	2	16.0	2	100	0	64	50	0	0	50	1.00
578974--578998	2	12.5	2	100	0	50	48	0	0	52	1.00
581005--581050	24	1.9	23	86	8	65	43	19	2	34	1.63
582941--582994	16	3.6	16	70	14	60	53	5	1	38	1.35
582947--583006	29	2.1	29	100	0	120	55	3	3	38	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595762--596391	210	3.0	210	99	0	1242	31	12	19	35	1.89
613873--613913	22	1.9	21	85	5	55	41	9	14	34	1.79
619757--619809	27	2.0	27	85	14	74	35	3	1	58	1.27
621736--621769	17	2.0	17	94	0	59	50	0	0	50	1.00
624646--624679	15	2.4	14	90	5	50	44	5	0	50	1.26
631952--631989	20	1.9	20	94	0	67	68	0	0	31	0.90
638741--638778	9	4.3	9	83	6	51	47	0	0	52	1.00
640174--640577	68	6.1	68	84	8	566	29	11	13	44	1.80
640174--640577	129	3.1	129	91	2	628	29	11	13	44	1.80
640212--640572	197	1.9	190	88	4	551	30	11	13	44	1.79
640859--641126	68	4.1	67	85	9	371	42	14	12	30	1.82
640861--641126	129	2.1	129	93	0	460	43	14	12	30	1.82
643252--643655	68	6.1	68	83	8	557	28	11	14	45	1.79
643252--643655	129	3.1	129	90	2	628	28	11	14	45	1.79
643290--643650	197	1.9	190	88	4	551	29	11	14	45	1.79
651180--651217	20	2.0	19	85	10	51	26	23	7	42	1.81
655001--655055	23	2.4	22	75	6	56	36	3	1	58	1.26
663225--663288	31	2.0	33	84	6	87	40	0	12	46	1.42
663275--663329	23	2.3	23	78	9	58	63	3	0	32	1.12
663464--663494	12	2.6	12	94	0	53	25	9	35	29	1.88
664485--664538	10	5.0	10	77	16	54	11	9	22	57	1.61
664467--664548	34	2.3	36	87	8	116	14	10	19	54	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664488--664548	24	2.5	24	83	0	68	11	9	21	57	1.62
664571--664625	23	2.3	25	75	18	62	50	14	0	34	1.43
664721--664810	23	3.9	23	78	8	83	8	13	18	58	1.60
665235--665271	7	5.3	7	93	0	65	27	16	29	27	1.97
666546--666591	21	2.2	21	88	0	65	30	28	26	15	1.96
667221--667265	22	2.0	23	91	4	74	42	0	22	35	1.54
667480--667592	31	3.7	31	95	2	201	21	19	21	38	1.94
670722--670767	21	2.2	21	88	0	65	30	28	26	15	1.96
671399--671445	23	2.0	24	91	4	78	44	0	21	34	1.52
671660--671784	31	4.0	31	95	2	216	20	19	21	38	1.94

Tables:   1   2   3   4   5   6   7   8