genome.fa.s1.2.7.7.80.10.50.1000.7.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   32   

This is table  7  of  32  ( 3821 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)
3243526--3243576	26	2.0	25	88	3	75	45	0	1	52	1.12
3243759--3243809	26	2.0	25	84	3	66	43	0	1	54	1.11
3243441--3243896	233	2.0	234	93	2	792	44	3	4	47	1.41
3243828--3243872	19	2.4	19	85	3	56	46	0	0	53	1.00
3244049--3244104	16	3.1	18	78	17	55	50	0	7	42	1.30
3244077--3244123	23	2.0	23	83	8	58	48	4	2	44	1.34
3246083--3246112	7	4.3	7	100	0	60	43	0	56	0	0.99
3262694--3262742	18	2.7	18	87	0	62	55	0	0	44	0.99
3262692--3262747	21	2.8	20	80	17	62	55	0	0	44	0.99
3276138--3276187	3	17.3	3	91	8	86	30	0	0	70	0.88
3306571--3306670	50	2.0	50	92	0	164	46	23	11	20	1.82
3312905--3312930	2	13.0	2	100	0	52	50	0	0	50	1.00
3315655--3316005	51	7.0	51	75	10	258	34	12	17	35	1.88
3315659--3316079	98	4.2	97	77	8	346	33	12	17	36	1.88
3315904--3316008	47	2.2	47	86	0	138	30	11	20	37	1.88
3378923--3378953	15	2.1	15	93	0	53	67	0	0	32	0.91
3385225--3385275	21	2.5	20	76	17	59	47	0	1	50	1.12
3385456--3385501	20	2.3	20	85	7	58	52	0	0	47	1.00
3398131--3398308	44	4.1	44	92	2	306	33	19	18	28	1.96
3398131--3398308	86	2.0	87	93	2	304	33	19	18	28	1.96
3399305--3399457	78	2.0	78	97	2	290	40	23	10	25	1.86
3412648--3412688	21	1.9	21	85	5	55	63	9	2	24	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414488--3414535	24	2.0	25	84	12	64	81	2	8	8	0.96
3414489--3414534	16	2.8	16	83	3	56	82	2	6	8	0.91
3414918--3414995	38	2.1	38	100	0	156	51	5	5	38	1.46
3419188--3419246	1	59.0	1	89	0	91	1	94	3	0	0.34
3425672--3425696	2	12.5	2	100	0	50	48	0	0	52	1.00
3428797--3428842	22	2.0	22	87	8	65	43	0	4	52	1.21
3428969--3429037	23	3.0	22	79	14	59	46	1	2	49	1.25
3461046--3461082	17	2.2	17	95	0	65	21	16	24	37	1.93
3461307--3461336	2	15.0	2	100	0	60	50	0	0	50	1.00
3483726--3483764	21	1.9	21	89	5	62	56	5	12	25	1.57
3504242--3504266	11	2.3	11	100	0	50	92	8	0	0	0.40
3505225--3505252	3	9.3	3	100	0	56	0	35	0	64	0.94
3508778--3508807	12	2.6	12	94	5	53	66	0	0	33	0.92
3509035--3509072	17	2.3	17	86	4	51	50	5	0	44	1.24
3509045--3509124	35	2.2	35	84	13	99	52	3	0	43	1.19
3509039--3509124	36	2.3	35	84	13	111	54	4	0	40	1.21
3512169--3512203	2	17.5	2	100	0	70	0	48	0	51	1.00
3514900--3514942	13	3.3	13	77	9	52	51	0	2	46	1.13
3527895--3527947	16	3.3	15	77	15	52	47	0	0	52	1.00
3531045--3531110	15	4.5	14	74	12	53	30	1	0	68	0.99
3531485--3531541	23	2.3	23	80	14	62	50	0	0	49	1.00
3550000--3550499	277	1.8	276	82	6	654	37	20	10	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3549996--3550585	277	2.1	280	79	6	623	37	19	10	32	1.86
3551210--3551790	277	2.1	275	86	2	779	38	19	9	32	1.84
3551478--3552587	341	3.3	338	79	8	1130	38	19	10	31	1.86
3557705--3557729	9	2.8	9	100	0	50	0	0	8	92	0.40
3558296--3558321	2	13.0	2	100	0	52	50	0	0	50	1.00
3564620--3565031	204	2.0	203	94	0	716	42	17	14	25	1.87
3569454--3569501	19	2.7	18	84	9	64	60	2	0	37	1.09
3575228--3575288	26	2.3	26	88	0	95	13	24	8	54	1.66
3578869--3578989	61	2.0	62	85	4	165	21	30	18	29	1.97
3596589--3596615	2	13.5	2	100	0	54	48	0	0	51	1.00
3622060--3622084	2	12.5	2	100	0	50	48	0	0	52	1.00
3630231--3630270	20	2.0	20	85	9	55	35	0	5	60	1.19
3630431--3630496	22	2.9	23	77	8	64	43	6	0	50	1.27
3630427--3631053	207	2.9	218	81	6	733	40	8	4	45	1.55
3637637--3637700	33	1.9	33	84	12	87	53	3	1	42	1.26
3638974--3639000	13	2.1	13	100	0	54	33	7	0	59	1.25
3648985--3649152	85	2.0	85	82	11	209	33	17	15	33	1.91
3660630--3660693	25	2.6	25	80	7	78	62	0	4	32	1.16
3660634--3660737	50	2.1	49	82	12	124	60	0	6	32	1.23
3664800--3664838	16	2.4	16	91	4	60	71	2	10	15	1.23
3664879--3664944	27	2.5	28	85	9	77	43	0	1	54	1.09
3664923--3665318	152	2.6	152	87	1	571	44	2	2	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669723--3669757	2	17.5	2	100	0	70	48	0	0	51	1.00
3670596--3670665	37	1.9	35	91	5	113	31	10	4	54	1.53
3681891--3681946	26	2.2	25	83	3	67	71	0	0	28	0.86
3681900--3681982	32	2.5	33	84	1	96	68	1	2	27	1.09
3683062--3683209	74	2.1	70	87	6	208	44	8	8	39	1.64
3683868--3683952	44	1.9	44	90	0	134	38	3	11	45	1.58
3683932--3683965	16	2.3	14	90	10	50	32	0	5	61	1.20
3684214--3684239	2	13.0	2	100	0	52	50	0	0	50	1.00
3686480--3686620	70	2.0	70	97	0	264	21	24	20	33	1.97
3692612--3692682	26	2.4	31	73	22	80	59	0	4	36	1.17
3692609--3692684	30	2.6	29	80	12	84	59	0	3	36	1.16
3696088--3696151	28	2.2	29	83	2	85	40	23	10	25	1.87
3698578--3698620	13	3.3	12	81	12	50	41	13	2	41	1.57
3698699--3698753	29	1.9	29	88	3	85	61	3	0	34	1.13
3698690--3698754	29	2.5	26	77	18	80	56	4	0	38	1.20
3707756--3707798	23	2.0	21	90	9	68	46	0	0	53	1.00
3707761--3707822	18	3.1	19	82	13	63	51	3	1	43	1.27
3710205--3710245	20	2.0	20	100	0	82	24	14	19	41	1.89
3723405--3723695	27	10.7	27	73	6	210	45	3	5	45	1.42
3723407--3723704	82	3.6	83	79	5	241	45	4	5	44	1.46
3723405--3723629	55	4.1	55	83	1	247	44	3	6	45	1.44
3726932--3726976	2	22.5	2	100	0	90	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)
3737161--3737447	142	2.0	142	95	0	520	31	11	11	44	1.77
3737630--3737686	24	2.4	24	100	0	114	12	12	57	17	1.64
3737630--3737689	12	5.0	12	77	0	66	11	11	58	18	1.63
3746013--3746042	15	2.1	15	93	6	53	70	6	6	16	1.31
3754262--3754295	17	2.0	17	88	0	50	50	2	0	47	1.16
3754655--3754758	34	2.9	34	82	7	109	49	3	1	45	1.31
3754712--3754762	22	2.2	22	82	6	57	41	5	1	50	1.37
3766418--3766492	27	2.8	27	81	0	78	17	14	44	24	1.86
3795902--3796053	51	3.0	51	64	0	133	39	17	19	11	1.80
3796702--3796735	16	2.1	16	89	10	52	55	0	0	44	0.99
3799475--3799532	15	3.9	15	91	8	100	32	5	36	25	1.78
3799476--3799532	30	1.9	30	100	0	114	33	5	36	24	1.78
3803375--3803432	13	4.5	13	76	4	64	55	1	0	43	1.10
3803375--3803432	26	2.3	25	84	3	71	55	1	0	43	1.10
3805208--3805238	15	2.1	15	93	0	53	12	29	35	22	1.91
3810027--3810057	15	2.1	15	100	0	62	0	25	0	74	0.82
3819473--3819519	24	2.0	25	83	8	62	42	4	0	53	1.20
3821094--3821128	16	2.2	16	89	0	52	71	0	0	28	0.86
3837950--3838037	34	2.6	32	78	20	83	51	1	9	38	1.41
3842646--3842729	42	2.0	42	90	0	132	36	20	14	28	1.91
3848572--3848666	46	2.1	46	97	0	181	22	26	24	27	2.00
3895992--3896085	44	2.1	44	92	0	161	45	22	13	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928651--3928685	17	2.1	17	89	5	54	28	0	57	14	1.38
3953569--3953606	16	2.3	16	83	16	51	78	5	0	15	0.91
3964388--3964471	39	2.2	39	88	0	123	45	19	11	23	1.83
3969783--3969810	2	14.0	2	100	0	56	50	0	0	50	1.00
3971440--3971492	23	2.3	23	87	9	74	66	0	0	33	0.92
3972311--3972363	27	2.0	27	84	0	70	37	1	5	54	1.35
3976288--3976404	29	4.0	27	69	22	78	41	0	1	56	1.09
3979084--3979132	14	2.9	18	74	25	61	42	0	0	57	0.99
3982034--3982071	3	12.7	3	100	0	76	65	34	0	0	0.93
3987903--3987946	3	14.7	3	80	0	52	56	0	43	0	0.99

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   32