genome.fa.s14.2.7.7.80.10.50.1000.5.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1406 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)
2992387--2992463	33	2.3	33	86	0	109	41	7	6	44	1.59
3002789--3002837	19	2.6	19	90	6	73	20	46	12	20	1.82
3010424--3010448	11	2.3	11	100	0	50	44	12	24	20	1.85
3015066--3015121	15	3.8	15	88	2	69	35	8	25	30	1.86
3015300--3015389	34	2.7	35	81	8	91	35	2	0	62	1.08
3015351--3015633	13	20.5	13	66	24	61	33	1	0	65	1.03
3015270--3015816	110	5.0	111	91	7	847	33	1	0	63	1.09
3015453--3015513	21	2.9	21	85	7	79	31	0	0	68	0.89
3015779--3015844	29	2.2	30	78	10	73	25	3	0	71	1.01
3015888--3015943	11	4.8	11	85	10	67	25	1	0	73	0.93
3015882--3015956	17	4.3	17	77	11	71	30	1	0	68	0.98
3022461--3022489	2	14.5	2	100	0	58	48	0	51	0	1.00
3033857--3033906	3	16.7	3	95	0	91	66	2	32	0	1.03
3052264--3052290	2	13.5	2	100	0	54	51	0	48	0	1.00
3073231--3073255	4	6.2	4	100	0	50	24	24	0	52	1.48
3075666--3075709	23	1.9	23	95	0	79	40	27	2	29	1.68
3081616--3081670	27	2.0	27	96	0	101	43	10	16	29	1.82
3085107--3085136	16	1.9	15	93	6	51	83	0	16	0	0.65
3121857--3121885	2	14.5	2	100	0	58	48	0	0	51	1.00
3142548--3142582	16	2.2	16	90	5	54	54	0	0	45	0.99
3142686--3142719	11	3.1	11	91	0	50	41	0	5	52	1.25
3142745--3142793	22	2.2	22	82	7	55	65	2	0	32	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142749--3142835	28	3.0	30	75	17	76	59	4	1	34	1.25
3142844--3142872	10	2.7	11	89	10	51	68	0	0	31	0.89
3145236--3145267	16	2.0	16	93	0	55	15	75	0	9	1.05
3148382--3148467	28	3.0	26	75	17	75	31	4	3	60	1.34
3148421--3148488	31	2.2	31	84	2	84	32	2	7	57	1.41
3152648--3152701	28	1.9	28	88	0	81	62	7	1	27	1.32
3153497--3153543	22	2.1	22	88	0	67	21	31	31	14	1.94
3177833--3177869	18	2.1	18	94	0	65	75	5	18	0	0.99
3193792--3193864	29	2.5	30	78	10	87	41	0	1	57	1.07
3193793--3193864	31	2.5	29	78	14	78	41	0	1	56	1.07
3209320--3209364	23	2.0	23	82	8	56	55	6	11	26	1.59
3225844--3225884	17	2.4	18	80	19	52	7	19	4	68	1.32
3227640--3227670	2	15.5	2	100	0	62	48	0	0	51	1.00
3238224--3238254	2	15.5	2	100	0	62	51	0	0	48	1.00
3249360--3249394	13	2.7	13	86	0	52	28	14	20	37	1.91
3252508--3252541	17	2.0	17	88	11	52	44	0	0	55	0.99
3252711--3252746	17	2.1	17	94	0	63	33	8	11	47	1.69
3258959--3258987	2	14.5	2	100	0	58	48	0	0	51	1.00
3283513--3283556	23	1.9	23	86	9	63	59	0	0	40	0.98
3304691--3304737	22	2.1	22	84	11	60	44	4	2	48	1.34
3304678--3304738	23	2.6	23	76	21	56	45	3	3	47	1.35
3316091--3316278	76	2.5	75	84	6	256	43	13	15	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3316609--3316661	20	2.7	20	90	0	88	39	11	26	22	1.88
3316669--3316738	30	2.4	28	78	4	77	37	12	28	21	1.90
3316993--3317066	29	2.5	29	77	2	76	40	8	22	28	1.83
3317342--3317416	38	2.0	38	91	0	123	24	26	18	30	1.98
3317415--3317452	19	1.9	19	89	5	58	34	21	13	31	1.91
3317726--3317772	20	2.3	20	96	0	85	57	6	17	19	1.60
3341706--3341730	4	6.2	4	100	0	50	24	0	24	52	1.48
3347682--3347716	2	17.5	2	100	0	70	51	0	0	48	1.00
3358227--3358252	2	13.0	2	100	0	52	50	0	0	50	1.00
3367428--3367453	2	13.0	2	100	0	52	50	0	50	0	1.00
3368792--3368817	2	13.0	2	100	0	52	50	0	0	50	1.00
3370409--3370463	25	2.1	27	83	9	71	56	0	3	40	1.17
3370399--3370486	39	2.3	39	80	7	90	54	0	2	43	1.12
3370438--3370489	23	2.3	23	83	9	70	46	0	1	51	1.12
3379625--3379651	2	13.5	2	100	0	54	48	0	0	51	1.00
3396709--3396774	29	2.2	29	84	7	80	33	1	4	60	1.26
3396920--3396954	18	1.9	18	88	0	52	54	0	2	42	1.15
3397311--3397353	23	1.9	22	95	4	77	55	2	0	41	1.12
3397817--3397876	26	2.3	26	94	0	102	21	11	35	31	1.90
3405908--3405933	3	8.7	3	100	0	52	0	34	34	30	1.58
3409021--3409078	16	3.1	19	74	25	61	56	5	0	37	1.21
3410182--3410207	2	13.0	2	100	0	52	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412037--3412083	21	2.3	20	89	7	76	48	0	2	48	1.13
3415456--3415490	12	2.8	13	82	8	54	65	0	0	34	0.93
3415648--3415691	11	4.1	12	72	27	53	25	0	0	75	0.81
3415647--3415731	31	2.6	31	82	10	91	28	3	0	68	1.06
3416407--3416443	2	18.5	2	91	0	56	45	0	2	51	1.15
3425104--3425147	2	22.0	2	95	0	79	50	0	2	47	1.13
3427625--3427664	20	2.0	20	85	4	55	27	10	0	62	1.27
3428133--3428173	2	20.5	2	100	0	82	48	0	0	51	1.00
3428363--3428412	23	2.2	23	85	0	64	18	2	2	78	0.95
3428805--3428851	20	2.2	22	77	7	53	34	4	4	57	1.38
3434285--3434343	29	2.0	30	83	3	75	40	10	10	38	1.73
3437270--3437314	15	3.0	15	83	9	65	42	6	28	22	1.79
3437898--3438513	253	2.5	248	80	8	644	33	10	7	48	1.65
3438469--3438509	19	2.2	18	86	4	55	26	4	0	68	1.10
3437626--3438967	248	5.4	246	76	10	1067	34	10	6	48	1.63
3439938--3439968	15	2.1	15	93	0	53	29	0	0	70	0.87
3443384--3443449	29	2.2	30	83	2	89	43	10	6	39	1.64
3448575--3448866	159	1.8	158	91	0	476	38	20	12	28	1.89
3470528--3470593	26	2.5	26	85	5	87	51	0	0	48	1.00
3470528--3470598	28	2.6	28	82	8	94	49	0	0	50	1.00
3470571--3470615	19	2.3	20	80	7	56	46	0	2	51	1.13
3483427--3483468	20	2.2	19	86	4	57	52	7	2	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3483296--3484565	250	5.2	240	78	9	1004	50	5	8	35	1.56
3483473--3484901	250	5.8	249	81	5	1419	49	5	9	35	1.58
3483470--3484901	500	2.9	493	82	5	1607	50	5	9	35	1.58
3483538--3484901	750	1.8	729	84	6	1830	50	5	9	35	1.58
3484320--3484901	234	2.4	235	82	5	659	49	6	10	34	1.61
3485818--3485872	28	2.0	28	92	0	92	43	20	5	30	1.74
3487164--3487188	13	1.9	13	100	0	50	80	0	16	4	0.87
3495015--3495058	18	2.4	19	88	3	63	54	0	0	45	0.99
3495015--3495069	18	2.9	19	75	20	53	50	0	0	49	1.00
3495169--3495220	18	2.8	19	82	8	63	55	0	0	44	0.99
3495124--3495284	84	1.9	84	86	5	227	51	0	4	42	1.28
3521630--3521688	18	3.3	18	81	9	66	8	20	32	38	1.83
3524936--3524968	2	16.5	2	93	0	57	54	0	45	0	0.99
3524940--3524975	10	3.6	10	88	0	54	52	0	44	2	1.15
3531402--3531441	22	1.9	20	85	10	53	27	2	5	65	1.27
3534651--3534706	21	2.7	21	85	0	76	7	7	51	33	1.56
3549041--3549066	2	13.0	2	100	0	52	50	0	0	50	1.00
3553298--3553380	26	3.2	26	71	18	75	60	0	1	38	1.05
3553396--3553452	28	2.0	28	80	16	64	47	0	3	49	1.18
3553459--3553585	58	2.2	59	78	5	141	51	0	2	46	1.14
3553467--3553567	42	2.5	43	79	20	112	50	0	2	46	1.16
3553510--3553552	16	2.8	15	82	6	59	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553434--3553577	80	1.9	75	82	7	180	52	0	2	45	1.12
3553428--3553595	80	2.2	75	77	9	176	51	0	1	46	1.11
3554509--3554574	27	2.4	27	82	5	71	54	1	0	43	1.09
3554584--3554648	30	2.1	30	83	11	78	47	1	3	47	1.27
3554691--3554755	25	2.5	26	85	7	87	52	3	0	44	1.16
3580876--3580922	2	23.5	2	100	0	94	51	0	0	48	1.00
3582803--3582857	28	2.0	26	82	6	65	58	5	10	25	1.53
3583051--3583096	16	2.9	16	75	18	51	69	0	28	2	1.00
3586878--3586936	2	30.5	2	83	6	77	47	3	0	49	1.18
3588144--3588179	2	18.0	2	94	0	63	50	0	2	47	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12