genome.fa.s5.2.7.7.80.10.50.1000.7.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

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  7  of  22  ( 2636 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)
3398283--3398328	20	2.4	20	85	7	60	2	47	2	47	1.26
3401745--3401773	2	14.5	2	100	0	58	51	0	0	48	1.00
3401773--3401806	2	17.0	2	100	0	68	50	0	50	0	1.00
3411474--3411516	22	1.9	23	90	4	70	51	4	2	41	1.35
3414470--3414503	2	17.0	2	100	0	68	50	0	50	0	1.00
3427827--3427864	20	1.9	20	84	10	51	65	2	0	31	1.06
3427874--3428886	336	3.0	338	80	8	1112	45	6	6	42	1.54
3428257--3428296	21	1.9	21	84	0	53	52	2	2	42	1.28
3441388--3441437	23	2.2	23	85	3	66	54	16	6	24	1.64
3444277--3444306	15	2.1	15	93	6	53	40	0	16	43	1.48
3444464--3444605	74	1.9	74	88	0	212	46	7	5	40	1.56
3445201--3445239	3	13.0	3	83	0	51	61	2	5	30	1.31
3445201--3445239	12	3.2	12	88	0	60	61	2	5	30	1.31
3450476--3450620	47	3.1	47	98	0	281	39	24	11	24	1.88
3452266--3452340	36	2.1	34	80	14	80	30	10	2	56	1.48
3457486--3457557	27	2.7	27	95	0	126	34	19	20	25	1.96
3461937--3462043	47	2.3	47	95	0	187	31	17	27	23	1.97
3466387--3466411	2	12.5	2	100	0	50	0	0	48	52	1.00
3501064--3501327	132	2.0	132	94	0	465	30	14	22	32	1.93
3505127--3505231	42	2.5	42	95	0	183	17	36	20	25	1.94
3514851--3514886	2	18.0	2	94	0	63	52	0	0	47	1.00
3519506--3519669	82	2.0	81	80	10	183	39	3	3	54	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3519653--3519686	13	2.6	13	90	0	50	29	0	5	64	1.17
3519752--3519814	27	2.3	27	82	15	76	39	4	0	55	1.21
3519752--3519818	29	2.4	28	85	12	84	40	4	0	55	1.20
3519813--3519856	14	3.1	14	83	12	54	50	0	0	50	1.00
3519800--3519876	22	3.7	21	75	21	72	46	0	0	53	1.00
3519802--3519908	20	5.3	19	76	18	74	44	0	1	53	1.11
3561304--3561334	1	31.0	1	93	0	53	0	96	3	0	0.21
3569160--3569205	15	3.3	15	79	11	53	0	21	4	73	1.00
3598869--3598914	14	3.2	15	84	9	60	50	0	0	50	1.00
3598869--3598908	13	2.9	14	88	7	55	50	0	0	50	1.00
3598995--3599135	74	1.9	74	92	0	237	46	5	4	43	1.46
3607730--3607765	17	2.1	18	89	5	56	22	5	0	72	1.05
3623165--3623199	18	2.0	18	88	5	54	60	0	0	40	0.97
3623143--3623777	237	2.7	235	80	9	719	49	2	9	38	1.50
3624079--3624108	8	3.8	8	100	0	60	26	20	13	40	1.89
3637024--3637071	17	2.8	17	81	9	62	56	0	2	41	1.11
3637022--3637066	18	2.6	18	76	16	58	51	0	2	46	1.13
3638381--3638418	20	1.9	20	88	0	58	44	2	2	50	1.30
3638520--3638962	214	2.0	215	84	5	581	43	7	3	46	1.47
3638839--3638875	17	2.4	16	86	13	51	37	5	2	54	1.38
3646648--3646689	17	2.5	17	100	0	84	14	9	33	42	1.78
3657598--3657881	143	2.0	143	97	0	541	31	9	20	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3658471--3658523	26	1.9	26	85	11	70	35	3	7	52	1.48
3658467--3658531	29	2.4	26	79	7	76	36	6	6	50	1.52
3658785--3658862	30	2.7	29	84	5	97	58	0	0	41	0.98
3658803--3658847	21	2.1	21	84	8	56	64	0	0	35	0.94
3658799--3658864	27	2.5	27	81	13	84	60	0	0	39	0.97
3665695--3665729	2	17.5	2	100	0	70	48	0	0	51	1.00
3670150--3670202	15	3.5	15	97	0	97	35	5	24	33	1.79
3670565--3670657	28	3.1	28	81	10	105	26	3	1	68	1.11
3670980--3671011	2	16.0	2	100	0	64	50	0	0	50	1.00
3681344--3681374	15	2.0	15	93	6	53	74	0	12	12	1.08
3686994--3687040	14	3.4	14	73	5	51	44	4	4	46	1.42
3687055--3687086	16	2.0	17	88	11	50	62	3	9	25	1.40
3688429--3688467	12	3.1	12	85	7	51	56	0	5	38	1.22
3689791--3689829	17	2.2	18	86	4	53	46	2	2	48	1.29
3704775--3704835	32	1.9	32	93	0	104	27	31	0	40	1.57
3704820--3704867	25	1.9	25	100	0	96	41	25	8	25	1.83
3710977--3711026	7	7.6	7	87	12	63	76	0	0	24	0.80
3710976--3711033	19	3.0	20	83	14	68	75	1	0	22	0.89
3710983--3711034	7	7.3	7	91	2	59	76	1	0	21	0.87
3718593--3718636	19	2.4	18	88	3	61	81	0	18	0	0.68
3718924--3719013	24	3.8	24	66	8	67	46	0	5	47	1.25
3727479--3727519	3	13.7	3	94	0	73	31	0	2	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3740142--3740222	44	1.9	41	82	7	99	1	32	65	1	1.08
3740167--3740246	39	2.1	39	83	9	101	1	35	60	3	1.23
3762880--3762950	35	2.0	35	88	0	106	47	12	12	26	1.77
3763992--3764028	2	18.5	2	94	0	65	45	0	2	51	1.15
3770619--3770654	18	2.0	18	88	0	54	16	16	38	27	1.90
3771559--3771597	19	2.1	19	100	0	78	48	15	20	15	1.81
3776081--3776125	22	2.0	22	91	0	72	0	2	24	73	0.95
3776087--3776130	22	2.0	22	90	0	70	0	0	27	72	0.85
3790137--3790208	36	2.1	34	84	5	90	55	2	16	25	1.55
3795067--3795097	2	15.5	2	93	0	53	51	3	0	45	1.17
3807052--3807107	2	28.5	2	78	3	60	39	0	1	58	1.08
3807052--3807108	8	7.0	8	90	9	89	38	0	1	59	1.08
3807075--3807136	16	3.6	16	72	19	52	33	1	4	59	1.28
3808857--3808921	30	2.2	30	85	0	85	38	1	3	56	1.24
3827958--3827989	15	2.1	15	94	0	55	12	50	3	34	1.56
3837132--3837207	37	2.1	37	100	0	152	53	10	7	27	1.62
3842486--3842512	2	13.5	2	100	0	54	48	0	51	0	1.00
3842876--3842914	2	19.0	2	84	5	51	48	2	48	0	1.15
3852614--3852639	2	13.0	2	100	0	52	50	0	0	50	1.00
3854237--3854263	2	13.5	2	100	0	54	0	48	0	51	1.00
3858936--3859023	41	2.1	41	91	4	142	36	12	32	18	1.88
3876102--3876434	144	2.3	145	87	1	472	33	16	17	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3881283--3881318	2	18.0	2	100	0	72	50	0	0	50	1.00
3889597--3889634	13	2.9	13	84	0	58	52	0	15	31	1.43
3890677--3890750	29	2.5	31	82	10	91	37	1	2	58	1.21
3890910--3890958	22	2.1	25	85	11	68	46	0	8	44	1.33
3901566--3901600	2	17.5	2	93	0	61	0	48	0	51	1.00
3906047--3906119	29	2.5	29	76	22	73	57	4	8	30	1.47
3906863--3907481	252	2.5	250	82	5	678	37	9	4	47	1.56
3907303--3907689	211	1.8	211	86	4	557	39	10	3	46	1.55
3910748--3910790	17	2.7	15	82	10	50	32	0	4	62	1.15
3910787--3910834	19	2.5	19	83	6	62	25	0	4	70	1.04
3926614--3926681	29	2.3	31	78	16	81	36	5	1	55	1.33
3926953--3927014	30	2.1	30	90	0	97	45	4	11	38	1.61
3939609--3939660	26	2.0	25	85	10	70	11	13	28	46	1.78
3943578--3943707	65	2.0	65	89	0	197	43	16	11	28	1.82
3945729--3945758	3	10.0	3	100	0	60	0	33	0	66	0.92
3952681--3952750	29	2.5	28	82	13	74	34	1	4	60	1.25
3960368--3960425	25	2.3	26	80	14	68	37	3	1	56	1.26
3960343--3960478	63	2.2	63	90	0	209	42	1	0	55	1.14
3996424--3996478	28	1.9	29	89	10	87	32	1	0	65	1.03
4010453--4010499	9	4.9	9	82	12	58	87	0	8	4	0.67
4010452--4010500	10	4.9	10	82	7	64	87	0	8	4	0.65
4011563--4011595	16	2.1	16	94	0	57	57	3	12	27	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4019167--4019273	55	1.9	56	83	11	139	63	2	6	27	1.33
4019251--4019341	16	5.6	16	69	19	53	70	0	1	28	0.95
4019286--4019320	7	5.3	7	93	6	56	85	0	0	14	0.59
4019282--4019320	6	6.3	6	86	13	53	84	0	0	15	0.62
4019241--4019320	26	3.0	26	80	5	81	75	0	0	25	0.81
4020649--4020723	11	7.0	11	77	19	63	72	0	0	28	0.86
4020649--4020708	12	5.1	13	72	25	53	71	0	0	28	0.86
4020647--4020713	35	2.0	32	86	13	91	71	0	0	28	0.86
4020661--4020704	18	2.4	18	88	0	61	72	0	0	27	0.85
4020741--4020775	16	2.3	15	90	5	52	31	0	2	65	1.07

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