genome.fa.s6.2.7.7.80.10.50.1000.9.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_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10737078

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  9  of  22  ( 2632 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)
3548637--3548675	13	3.1	13	88	3	62	15	0	41	43	1.46
3567395--3567626	117	2.0	117	97	0	437	28	12	21	37	1.90
3570844--3570869	2	13.0	2	100	0	52	0	0	50	50	1.00
3572004--3572044	7	6.0	7	86	13	59	2	12	14	70	1.26
3585037--3585091	26	2.1	26	83	6	67	60	0	0	40	0.97
3585035--3585081	19	2.4	20	78	7	60	57	0	0	42	0.98
3587114--3587151	2	19.0	2	100	0	76	50	0	0	50	1.00
3587412--3587441	2	15.0	2	100	0	60	50	0	0	50	1.00
3589189--3589227	2	20.0	2	89	5	62	48	0	0	51	1.00
3595624--3595667	21	2.0	22	86	8	63	70	0	27	2	0.99
3596479--3596505	2	13.5	2	100	0	54	51	0	0	48	1.00
3600455--3600560	14	7.3	14	64	8	59	29	30	6	33	1.83
3600456--3600560	43	2.4	44	95	3	185	29	30	6	33	1.83
3615407--3615745	167	2.0	166	92	1	563	15	25	14	43	1.86
3618153--3618258	53	2.0	53	98	0	203	38	12	16	32	1.86
3621496--3621557	27	2.4	27	83	5	83	61	0	0	38	0.96
3621503--3621561	15	4.3	15	71	16	56	62	0	0	37	0.95
3622046--3622095	17	3.1	17	83	11	61	50	0	0	50	1.00
3622050--3622095	15	2.9	16	84	15	60	50	0	0	50	1.00
3622702--3622727	12	2.2	12	100	0	52	30	26	7	34	1.85
3636978--3637043	33	2.0	33	100	0	132	18	15	21	45	1.85
3639825--3639911	28	3.1	27	71	19	70	34	1	0	64	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3639836--3639931	18	5.8	16	68	24	56	33	2	0	64	1.05
3639795--3639909	60	1.9	61	82	5	144	37	1	0	60	1.07
3639882--3639954	33	2.2	33	90	0	110	30	2	0	67	1.05
3640332--3640361	15	2.0	15	93	0	51	20	16	13	50	1.78
3651374--3651417	19	2.2	21	84	15	58	68	0	9	22	1.18
3651947--3652002	27	2.1	27	89	0	85	25	25	12	37	1.91
3664994--3665076	28	3.0	28	89	1	123	42	14	18	25	1.88
3680329--3680374	18	2.4	20	82	7	51	39	0	15	45	1.46
3680329--3680378	22	2.2	24	89	7	77	40	0	14	46	1.44
3680330--3680384	26	2.1	26	90	6	85	38	0	14	47	1.45
3680346--3680385	18	2.2	18	90	0	62	40	0	10	50	1.36
3681856--3681890	17	2.1	17	100	0	70	17	17	17	48	1.81
3684681--3684730	23	2.2	23	92	0	82	38	16	6	40	1.73
3684884--3684941	29	2.0	29	89	0	89	44	1	17	36	1.59
3684916--3684982	35	1.9	35	90	0	107	37	1	19	41	1.61
3684964--3685134	88	1.9	89	81	1	209	41	8	15	34	1.78
3700608--3700642	18	2.1	18	89	10	56	37	5	5	51	1.50
3724260--3724292	16	2.1	16	100	0	66	30	0	0	69	0.88
3724252--3724292	8	5.1	8	87	0	55	34	0	0	65	0.93
3725912--3725936	2	12.5	2	100	0	50	0	48	0	52	1.00
3726664--3726836	84	2.1	81	81	3	193	30	12	24	32	1.93
3730111--3730179	34	2.0	35	94	2	122	42	18	17	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3734486--3734535	23	2.3	21	83	10	57	58	4	6	32	1.41
3741566--3741595	15	2.0	15	100	0	60	46	13	0	40	1.43
3751481--3751520	18	2.2	18	86	0	53	37	0	7	55	1.29
3760416--3760453	17	2.1	19	85	9	53	68	7	15	7	1.37
3767890--3767931	6	7.0	6	88	0	66	16	33	28	21	1.95
3767890--3767931	12	3.5	12	96	0	75	16	33	28	21	1.95
3790231--3790268	20	2.0	20	89	5	60	55	0	23	21	1.44
3792086--3792180	29	3.3	28	85	4	127	40	6	9	44	1.62
3798031--3798210	94	1.9	91	86	5	254	43	11	5	39	1.65
3807189--3807222	13	2.7	12	83	16	50	41	0	0	58	0.98
3807187--3807223	14	2.8	13	88	8	56	40	0	0	59	0.97
3807192--3807227	14	2.6	14	90	0	63	36	0	0	63	0.94
3807386--3807444	21	2.8	22	69	23	54	44	1	13	40	1.54
3807364--3807444	42	1.9	42	92	0	135	44	3	11	40	1.58
3807387--3807553	91	1.9	88	80	8	194	40	7	13	38	1.74
3807385--3807553	46	3.8	45	83	8	188	40	8	13	37	1.75
3815012--3815067	13	4.2	13	73	15	51	32	0	0	67	0.91
3815017--3815085	28	2.5	29	75	15	74	34	1	0	63	1.03
3815028--3815061	17	1.9	18	88	5	52	38	0	0	61	0.96
3814986--3815080	30	3.2	29	77	7	84	37	1	1	60	1.11
3816555--3816631	31	2.5	30	87	8	102	35	6	6	51	1.53
3822933--3822976	23	2.0	23	90	4	72	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3822934--3822974	19	2.1	20	86	4	57	26	0	0	73	0.84
3823377--3823416	20	2.0	20	85	4	55	32	0	5	62	1.17
3823965--3824032	32	2.2	30	82	7	84	7	11	13	67	1.41
3837625--3837656	7	4.6	7	96	0	55	46	34	0	18	1.49
3837676--3837725	22	2.3	22	82	6	66	66	0	0	34	0.92
3837767--3837814	16	3.1	15	79	5	51	45	2	2	50	1.25
3837768--3837800	16	2.1	16	94	0	57	51	0	3	45	1.16
3840762--3840846	18	4.7	18	69	13	59	41	4	49	4	1.44
3840762--3840846	36	2.4	36	83	0	98	41	4	49	4	1.44
3853193--3853218	2	13.0	2	100	0	52	50	0	0	50	1.00
3854306--3854379	29	2.5	29	86	2	103	37	2	10	48	1.52
3854306--3854388	29	2.8	29	83	5	85	37	3	12	46	1.58
3854374--3854424	26	1.9	26	84	11	68	29	11	13	45	1.79
3865648--3865697	15	3.3	15	88	0	64	38	16	4	42	1.66
3868290--3868327	16	2.4	16	82	8	51	0	15	2	81	0.80
3868289--3868338	16	3.3	15	81	13	50	0	16	2	82	0.77
3868362--3868404	21	2.0	21	82	8	52	18	27	13	39	1.89
3882173--3882226	20	2.8	19	77	11	56	40	12	9	37	1.76
3890578--3890628	16	3.2	16	75	13	52	56	1	0	41	1.10
3892418--3892455	2	19.0	2	100	0	76	50	0	0	50	1.00
3893884--3893933	15	3.3	15	80	0	55	6	24	4	66	1.32
3894843--3894898	28	2.0	29	92	3	96	7	33	3	55	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895384--3895447	28	2.2	31	86	8	89	9	35	1	53	1.43
3895438--3895483	15	3.1	15	81	3	58	0	28	10	60	1.30
3895796--3895952	76	2.0	77	90	6	244	27	21	10	40	1.86
3897092--3897135	22	2.0	22	100	0	88	4	22	22	50	1.67
3898422--3898479	22	2.6	22	97	2	107	44	0	0	55	0.99
3907162--3907188	2	13.5	2	100	0	54	51	0	0	48	1.00
3923848--3923976	67	1.9	67	91	0	213	47	7	7	37	1.61
3924374--3924410	15	2.4	16	82	17	51	48	2	5	43	1.40
3925106--3925155	25	2.0	25	84	11	66	54	4	0	42	1.19
3929970--3930024	24	2.3	25	84	6	69	58	0	3	38	1.16
3934191--3934240	2	25.0	2	100	0	100	50	0	50	0	1.00
3935027--3935065	18	2.2	18	95	0	69	25	5	2	66	1.25
3951819--3951956	5	28.4	5	71	12	65	69	0	0	28	0.99
3951820--3951991	26	7.0	24	68	19	88	69	0	1	29	1.00
3951823--3952059	33	6.9	33	73	18	134	66	0	1	31	1.05
3951847--3951956	49	2.2	49	80	7	134	70	0	0	29	0.94
3951825--3951961	54	2.7	49	74	16	125	69	0	0	29	0.99
3951868--3952008	72	1.9	74	85	7	198	65	0	1	31	1.06
3951816--3952054	87	2.7	88	79	11	235	67	0	1	30	1.04
3951868--3952056	72	2.6	72	80	9	188	65	0	1	32	1.06
3956816--3956840	2	12.5	2	100	0	50	52	0	0	48	1.00
3957830--3957859	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961883--3961968	33	2.6	33	81	1	82	25	6	2	65	1.30
3961993--3962059	31	2.1	33	86	10	95	29	5	0	64	1.17
3964339--3964374	6	6.0	6	100	0	72	50	0	16	33	1.46
3968409--3968440	3	10.7	3	100	0	64	68	31	0	0	0.90
3975357--3975390	2	17.0	2	93	0	59	50	2	0	47	1.16
3976406--3976436	16	1.9	16	93	0	53	77	0	6	16	0.97
3989397--3989527	55	2.3	54	76	13	124	68	0	3	27	1.09
3989481--3989563	32	2.5	33	84	7	116	71	0	2	26	0.99
3989519--3989862	113	3.0	114	93	3	604	63	0	2	33	1.11
3989607--3989792	50	3.5	49	71	25	153	64	0	1	33	1.03

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22