genome.fa.s2.2.7.7.80.10.50.1000.7.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   30   31   

This is table  7  of  31  ( 3649 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)
3490381--3490416	2	18.0	2	100	0	72	50	0	0	50	1.00
3506906--3506955	14	3.6	14	80	0	64	14	8	12	66	1.45
3506901--3506955	28	2.0	28	100	0	110	14	7	10	67	1.41
3528979--3529007	12	2.5	12	94	5	51	82	0	0	17	0.66
3530862--3530917	22	2.4	23	82	8	69	21	21	5	51	1.67
3540206--3540239	17	2.0	17	88	0	50	41	0	0	58	0.98
3540205--3540248	24	1.9	22	86	9	61	38	0	0	61	0.96
3544073--3544168	32	3.0	32	70	19	92	17	31	13	37	1.89
3544036--3544168	64	2.1	64	82	6	157	17	32	13	36	1.89
3552625--3552729	36	2.9	36	82	0	129	28	40	18	13	1.88
3567835--3567871	18	2.1	18	100	0	74	27	27	24	21	1.99
3568040--3568409	91	4.1	91	96	0	677	33	11	13	41	1.81
3570080--3570134	23	2.5	21	83	16	60	27	3	1	67	1.17
3595275--3595304	15	2.0	15	100	0	60	40	13	6	40	1.71
3603156--3603180	2	12.5	2	100	0	50	52	0	48	0	1.00
3604764--3604806	22	1.9	23	85	4	61	53	4	6	34	1.49
3607640--3607668	8	3.6	8	100	0	58	37	0	0	62	0.96
3607633--3607676	16	2.8	16	86	13	72	43	0	0	56	0.99
3617220--3617245	2	13.0	2	100	0	52	50	0	0	50	1.00
3625730--3625766	2	18.5	2	94	0	65	0	45	2	51	1.15
3638515--3638545	2	15.5	2	100	0	62	51	0	48	0	1.00
3647700--3647860	60	2.7	60	93	1	261	25	49	10	14	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3676270--3676336	28	2.4	27	80	9	73	62	1	1	34	1.13
3676720--3676763	5	8.4	5	80	9	52	75	0	2	22	0.92
3676720--3676763	16	2.8	16	82	10	54	75	0	2	22	0.92
3676720--3676763	21	2.1	21	86	0	61	75	0	2	22	0.92
3682069--3682121	25	2.1	25	100	0	106	18	13	15	52	1.74
3702764--3702894	66	2.0	67	92	3	219	38	21	16	24	1.93
3707538--3707624	44	2.0	44	84	4	113	31	18	9	41	1.82
3714825--3714859	2	17.5	2	87	0	52	48	5	0	45	1.26
3716244--3716282	2	20.0	2	89	5	62	48	0	2	48	1.15
3725638--3725721	31	2.7	32	80	10	102	55	3	11	28	1.52
3727146--3727214	24	2.8	24	79	12	79	43	14	8	33	1.76
3727146--3727407	26	10.0	25	68	16	95	44	11	9	34	1.73
3727195--3727251	30	1.9	30	89	3	89	47	12	1	38	1.51
3727145--3727395	81	3.2	80	78	5	269	43	11	9	35	1.74
3727344--3727404	28	2.3	27	85	5	79	55	8	6	29	1.54
3727353--3727432	30	2.8	28	83	5	88	46	10	8	35	1.68
3752040--3752073	15	2.4	14	85	9	50	47	0	2	50	1.16
3776728--3776759	13	2.5	13	100	0	64	28	21	25	25	1.99
3779327--3779381	26	2.2	26	90	3	85	43	0	0	56	0.99
3779327--3779392	26	2.7	25	84	11	84	46	0	0	53	1.00
3779352--3779480	40	3.2	39	77	12	134	44	0	1	52	1.15
3779371--3779482	15	7.9	15	70	22	64	45	0	1	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3784035--3784126	45	2.0	45	81	8	107	44	1	3	51	1.25
3784381--3784429	22	2.2	23	85	3	64	51	0	0	48	1.00
3784369--3784492	40	3.1	40	77	12	137	53	0	0	45	1.06
3784378--3784507	39	3.3	39	75	14	122	53	0	0	45	1.05
3785668--3785701	17	2.0	17	88	0	50	47	0	2	50	1.16
3786144--3786183	15	2.5	17	84	15	59	47	2	0	50	1.14
3786522--3786598	29	2.7	29	84	4	86	45	7	7	38	1.62
3788886--3788913	3	9.3	3	100	0	56	32	0	0	67	0.91
3805904--3805928	2	12.5	2	100	0	50	52	0	0	48	1.00
3807204--3807234	2	16.0	2	93	6	55	0	48	0	51	1.00
3814809--3814844	12	2.9	12	88	8	54	47	0	0	52	1.00
3815908--3815947	20	2.0	20	90	0	62	32	32	7	27	1.85
3816413--3816507	21	4.4	20	76	10	82	50	21	0	28	1.49
3816549--3816587	21	1.9	20	89	5	60	51	30	0	17	1.46
3818529--3818566	19	2.0	19	89	0	58	42	23	5	28	1.76
3826745--3826806	30	2.1	30	96	0	115	53	3	27	16	1.58
3848574--3848612	15	2.6	15	84	12	53	15	10	0	74	1.07
3848604--3848684	28	2.9	27	81	7	92	23	8	17	50	1.73
3849435--3849459	13	1.9	13	100	0	50	56	0	12	32	1.36
3854071--3854148	38	2.1	38	90	4	122	37	16	19	26	1.93
3857587--3857711	38	3.2	38	61	14	90	43	10	8	37	1.70
3857520--3857710	81	2.4	81	93	1	323	42	11	10	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3857717--3857821	57	1.9	56	84	9	144	43	5	7	42	1.56
3873760--3873808	25	1.9	26	91	4	82	12	8	12	67	1.42
3876444--3876521	32	2.4	32	81	14	81	38	2	11	47	1.54
3878084--3878122	2	19.5	2	89	0	60	48	5	0	46	1.24
3889501--3889707	113	1.8	113	90	0	333	45	10	21	22	1.82
3899216--3899240	13	1.9	13	100	0	50	56	4	0	40	1.18
3899257--3899318	22	2.8	22	79	13	56	14	14	0	70	1.16
3899257--3899324	24	3.0	22	80	8	64	14	13	1	70	1.24
3899279--3899333	24	2.2	24	81	15	60	18	9	3	69	1.30
3901253--3901318	31	2.1	31	83	5	80	36	6	0	57	1.23
3907777--3907841	32	2.0	32	85	5	87	16	7	36	38	1.78
3930071--3930101	11	2.8	11	100	0	62	35	19	19	25	1.95
3930779--3930860	40	2.0	40	100	0	164	24	17	29	29	1.97
3939983--3940014	16	2.0	16	100	0	64	37	25	25	12	1.91
3942441--3942468	2	14.0	2	100	0	56	50	0	0	50	1.00
3943820--3943890	28	2.3	32	71	23	73	40	1	1	56	1.17
3943894--3943941	25	1.9	25	87	8	71	45	0	2	52	1.12
3953164--3953192	14	2.1	14	100	0	58	44	6	34	13	1.71
3965258--3965309	24	2.3	22	80	6	59	55	1	0	42	1.10
3973038--3973637	231	2.6	228	79	7	543	35	13	28	23	1.92
3973251--3973808	231	2.4	231	79	4	563	36	13	27	22	1.92
3977753--3977792	3	13.3	3	94	0	71	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3992677--3992714	18	2.2	18	85	4	51	55	0	0	44	0.99
3997020--3997063	18	2.5	18	79	17	56	52	0	2	45	1.13
4013813--4013853	18	2.2	18	86	4	55	41	0	2	56	1.13
4019233--4019272	22	1.9	22	90	10	66	62	7	0	30	1.23
4019710--4019752	17	2.4	18	76	7	52	53	0	0	46	1.00
4022038--4022087	21	2.4	20	77	9	55	34	0	0	66	0.92
4041378--4041425	18	2.5	20	83	10	64	37	2	0	60	1.09
4064796--4064868	22	3.3	21	82	14	85	65	0	0	34	0.93
4064817--4064872	26	2.3	26	87	9	82	69	0	0	30	0.89
4072804--4072879	40	1.9	40	84	10	102	40	11	6	40	1.68
4073002--4073097	50	1.9	50	93	0	165	31	8	3	57	1.44
4073834--4073924	46	2.0	46	85	8	123	37	14	26	21	1.92
4074156--4074187	15	2.1	15	94	0	55	68	0	0	31	0.90
4074267--4074411	15	10.0	15	65	28	50	62	1	4	31	1.24
4074257--4074344	39	2.3	38	86	5	115	68	0	3	28	1.06
4074378--4074445	24	2.9	24	68	18	61	66	0	1	32	1.01
4074397--4074428	16	1.9	16	93	6	55	68	0	0	31	0.90
4074265--4074530	114	2.3	114	90	5	412	61	1	5	31	1.25
4079704--4079734	2	15.5	2	93	0	53	54	0	0	45	0.99
4080169--4080193	2	12.5	2	100	0	50	48	0	0	52	1.00
4096490--4096522	13	2.8	12	86	13	50	84	15	0	0	0.61
4098992--4099020	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4099031--4099056	2	13.0	2	100	0	52	50	0	0	50	1.00
4107900--4108460	279	2.0	277	86	4	772	31	17	20	30	1.96
4112625--4112717	46	2.0	46	87	4	134	47	19	13	19	1.82
4116484--4116519	3	12.0	3	93	0	63	33	2	0	63	1.08
4127000--4127024	10	2.5	10	100	0	50	16	16	0	68	1.22
4129540--4129571	6	5.3	6	92	0	55	50	0	50	0	1.00
4131293--4131330	17	2.2	17	90	0	58	0	34	0	65	0.93
4131468--4131516	21	2.2	22	79	17	57	20	28	6	44	1.75
4131475--4131515	21	1.9	22	85	14	59	24	26	7	41	1.81
4149130--4149167	19	2.0	19	94	0	67	28	5	0	65	1.14

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   30   31