genome.fa.s3.2.7.7.80.10.50.1000.10.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: NW_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  10  of  29  ( 3437 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)
3570823--3571018	96	2.0	96	98	0	374	18	20	15	45	1.85
3573552--3573622	30	2.4	30	90	0	106	36	8	21	33	1.83
3574010--3574133	64	1.9	65	90	4	198	39	10	12	37	1.77
3581279--3581364	8	11.1	8	70	16	56	40	0	2	56	1.12
3581310--3581378	20	3.7	20	75	15	83	40	0	2	56	1.14
3587174--3587472	33	9.4	32	67	20	123	65	0	1	32	1.06
3587184--3587478	15	20.8	15	67	27	121	65	0	1	32	1.06
3587221--3587346	29	4.7	25	71	18	85	68	0	0	30	1.01
3587252--3587431	68	2.7	66	76	13	190	62	0	2	34	1.11
3587380--3587478	9	11.6	9	66	28	56	65	0	0	34	0.93
3587679--3587705	2	13.5	2	100	0	54	51	0	0	48	1.00
3601083--3601195	14	7.9	14	77	13	106	8	0	86	4	0.69
3601085--3601195	1	111.0	1	76	0	96	8	0	87	4	0.67
3619829--3619858	15	2.0	15	93	0	51	56	0	3	40	1.16
3620718--3620754	18	2.0	19	89	5	58	40	2	0	56	1.13
3628316--3628351	17	2.2	16	90	5	54	47	0	8	44	1.33
3629023--3629078	22	2.6	21	80	8	67	44	8	3	42	1.53
3633788--3634002	110	2.0	110	85	3	299	25	7	14	52	1.68
3634622--3634668	20	2.4	19	82	13	51	27	2	2	68	1.13
3636035--3636124	38	2.4	37	78	9	101	36	17	12	33	1.87
3636913--3637082	87	2.0	84	80	6	189	31	18	11	38	1.86
3645586--3645617	16	2.0	16	93	0	55	50	3	0	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3650580--3650654	30	2.6	29	80	4	89	58	0	4	37	1.17
3650643--3650688	21	2.1	22	84	11	60	43	4	0	52	1.21
3674553--3674748	103	1.9	104	85	5	272	23	11	29	35	1.90
3674567--3674769	103	2.0	104	83	4	259	24	11	27	37	1.89
3678455--3678721	94	2.9	94	78	7	240	40	10	13	35	1.79
3681291--3681485	107	1.8	107	86	0	282	33	11	12	42	1.78
3690754--3690815	20	3.0	20	76	4	70	37	6	12	43	1.69
3708730--3708931	100	2.0	99	96	0	368	18	12	25	43	1.85
3711460--3711616	78	2.0	76	91	4	253	22	14	19	44	1.86
3712084--3712108	2	12.5	2	100	0	50	0	48	0	52	1.00
3715887--3715939	14	3.7	14	78	9	54	49	0	0	50	1.00
3716184--3716216	2	16.5	2	100	0	66	51	0	0	48	1.00
3718546--3718571	2	13.0	2	100	0	52	50	0	0	50	1.00
3718569--3718602	16	2.1	16	94	0	59	55	0	2	41	1.15
3725960--3726003	18	2.4	19	81	7	56	25	0	2	72	0.96
3726202--3726405	108	1.9	109	91	1	338	46	3	14	35	1.62
3728436--3728484	14	3.7	13	81	18	57	79	0	10	10	0.93
3728436--3728480	24	1.9	23	86	13	65	80	0	11	8	0.92
3728436--3728484	26	1.9	25	91	4	80	79	0	10	10	0.93
3728731--3728768	16	2.3	16	83	16	51	28	0	0	71	0.87
3731172--3731210	16	2.4	16	87	8	53	74	0	10	15	1.07
3731213--3731241	15	1.9	15	100	0	58	62	0	13	24	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737085--3737225	42	3.4	42	76	8	144	21	12	26	39	1.88
3737086--3737243	83	1.9	83	82	8	196	20	13	24	41	1.89
3737085--3737249	42	3.9	42	79	4	136	19	13	25	41	1.87
3740478--3740519	21	2.0	21	90	0	66	35	11	9	42	1.74
3749214--3749273	15	4.3	13	74	18	50	61	15	1	21	1.42
3749214--3749269	27	2.1	26	87	9	78	62	14	1	21	1.40
3749214--3749269	26	2.1	27	87	9	80	62	14	1	21	1.40
3753562--3753594	15	2.1	16	88	5	50	24	9	12	54	1.66
3762464--3762500	2	18.5	2	94	0	65	48	0	51	0	1.00
3763676--3763707	2	16.0	2	100	0	64	50	0	0	50	1.00
3766981--3767022	15	2.8	15	92	0	75	33	4	26	35	1.77
3767238--3767321	24	3.5	24	78	13	86	32	0	0	67	0.91
3767238--3767542	33	10.0	31	66	26	99	31	3	0	64	1.16
3767169--3767400	114	2.0	114	96	0	428	31	4	1	62	1.24
3767428--3767545	15	8.0	15	68	16	59	31	1	0	66	1.08
3767419--3767484	35	1.9	32	82	17	80	34	3	0	62	1.11
3767478--3767542	5	12.4	5	73	12	51	29	0	1	69	0.98
3767412--3767542	55	2.4	51	82	13	147	31	1	0	66	1.06
3767452--3767545	25	3.8	25	70	22	74	32	0	1	65	0.99
3771248--3771280	17	1.9	17	93	0	57	57	27	9	6	1.53
3771508--3771538	2	16.0	2	93	6	55	51	0	0	48	1.00
3774580--3775257	362	1.9	364	86	3	972	34	14	9	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3776133--3776168	17	2.1	18	89	5	56	41	2	0	55	1.14
3777139--3777187	25	2.0	25	100	0	98	16	4	32	46	1.65
3788833--3788877	18	2.6	18	86	6	67	46	0	4	48	1.22
3796091--3796124	8	4.2	8	100	0	68	26	23	23	26	2.00
3797822--3797895	28	2.6	28	85	8	105	29	17	14	37	1.90
3798649--3798713	21	3.1	21	76	14	71	49	15	4	30	1.65
3798788--3798842	21	2.6	21	80	5	58	49	18	5	27	1.69
3801956--3802002	23	2.0	23	84	8	60	55	2	40	2	1.24
3811328--3811369	2	21.0	2	100	0	84	50	0	0	50	1.00
3812347--3812420	38	1.9	38	86	5	105	36	13	5	44	1.67
3832355--3832383	10	2.9	10	100	0	58	51	0	37	10	1.36
3832589--3832800	110	2.0	105	88	6	311	23	7	15	53	1.67
3832620--3832822	110	1.9	109	89	5	320	25	7	15	52	1.68
3838306--3838828	261	2.0	264	97	1	998	31	18	21	29	1.97
3842426--3842480	22	2.3	24	81	9	69	80	9	5	5	1.03
3842429--3842477	25	2.0	25	84	8	64	77	10	6	6	1.11
3842429--3842484	17	3.2	17	76	5	58	78	8	7	5	1.08
3844484--3844526	21	2.0	21	90	0	68	27	2	4	65	1.25
3847468--3847516	21	2.3	21	82	6	64	44	22	14	18	1.85
3858546--3858666	62	2.0	62	96	0	224	33	20	9	36	1.84
3860277--3860304	2	14.0	2	100	0	56	50	0	0	50	1.00
3860924--3861143	53	4.2	53	70	19	149	64	0	10	24	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3860924--3861143	54	4.2	52	73	17	152	64	0	10	24	1.32
3861007--3861130	52	2.4	51	81	13	128	62	1	12	23	1.38
3868756--3868794	3	12.7	3	89	5	60	64	2	33	0	1.08
3873962--3873989	2	14.0	2	100	0	56	50	0	0	50	1.00
3877834--3877860	4	6.8	4	100	0	54	0	22	0	77	0.76
3878947--3878977	14	2.2	14	94	0	53	35	19	12	32	1.90
3887776--3887804	2	14.5	2	100	0	58	51	0	0	48	1.00
3890107--3890162	25	2.2	24	81	9	67	53	1	0	44	1.11
3891533--3891572	20	2.0	20	85	9	55	50	0	5	45	1.23
3891533--3891571	21	1.9	21	89	5	62	51	0	5	43	1.24
3897386--3897422	18	2.1	18	94	0	65	35	8	10	45	1.69
3911529--3911564	17	2.1	18	89	5	56	47	0	5	47	1.25
3912209--3912233	3	8.3	3	100	0	50	68	0	32	0	0.90
3913348--3913423	25	3.0	25	77	12	75	47	2	1	48	1.24
3913394--3913427	17	2.1	16	88	5	50	55	0	0	44	0.99
3913424--3913464	19	2.2	19	100	0	82	56	0	0	43	0.99
3915035--3915068	3	11.3	3	100	0	68	67	0	0	32	0.91
3921787--3921857	33	2.1	34	85	12	94	67	1	2	28	1.13
3921795--3921912	15	8.0	15	69	11	66	66	0	4	28	1.16
3922721--3922753	16	2.0	17	88	5	50	33	0	0	66	0.92
3922935--3922962	1	28.0	1	100	0	56	0	100	0	0	0.00
3932538--3932581	21	2.0	22	86	4	63	29	0	9	61	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3955044--3955073	10	3.0	10	95	0	51	43	0	0	56	0.99
3955226--3955286	27	2.3	27	79	0	68	31	14	16	37	1.89
3960322--3960392	22	3.2	22	95	0	133	28	18	25	28	1.98
3963269--3964457	296	4.0	296	81	4	1231	31	15	20	32	1.93
3966624--3966775	22	7.0	22	74	10	116	27	17	22	32	1.97
3966640--3966775	65	2.1	66	95	1	247	26	17	22	33	1.96
3969344--3969426	42	2.0	42	82	0	103	31	16	16	34	1.92
3970320--3970396	22	3.5	22	72	13	77	36	22	11	29	1.89
3970313--3970396	44	1.9	44	90	0	132	35	22	11	29	1.90
3971862--3971907	19	2.4	19	88	0	74	17	32	0	50	1.47

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