genome.fa.s4.2.7.7.80.10.50.1000.14.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  14  of  26  ( 3073 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)
5127355--5127636	95	3.0	94	82	7	338	32	12	9	45	1.74
5127623--5127680	26	2.2	27	81	9	66	25	13	3	56	1.53
5127704--5127814	54	2.1	54	91	0	177	28	16	6	48	1.70
5129345--5129420	32	2.3	33	84	6	93	48	1	7	42	1.40
5133301--5133380	34	2.3	34	82	8	90	37	7	2	52	1.43
5150077--5150117	19	2.2	19	86	0	55	51	0	0	48	1.00
5150143--5150195	3	17.7	3	100	0	106	67	0	0	32	0.91
5154401--5154429	2	14.5	2	100	0	58	51	0	0	48	1.00
5154804--5154849	23	2.0	23	87	4	67	28	2	2	67	1.14
5158193--5158260	29	2.3	29	79	0	82	52	1	22	23	1.55
5159804--5159870	23	2.9	21	70	16	53	55	1	0	43	1.09
5160275--5160300	13	2.0	13	100	0	52	76	0	15	7	0.99
5164742--5164795	22	2.4	22	81	6	63	42	1	50	5	1.36
5164757--5164794	16	2.4	16	82	8	51	42	0	55	2	1.14
5179034--5179058	12	2.1	12	100	0	50	60	0	0	40	0.97
5183193--5183224	13	2.4	14	94	5	57	53	12	9	25	1.68
5186848--5186875	14	2.0	14	100	0	56	78	0	0	21	0.75
5202694--5202746	27	2.0	27	92	0	88	33	0	43	22	1.54
5216942--5217002	30	2.0	31	84	6	81	49	3	0	47	1.18
5221452--5221647	98	2.0	97	89	1	302	30	14	13	41	1.85
5221612--5221678	27	2.5	27	82	2	91	35	13	10	40	1.79
5221564--5221794	123	1.9	126	86	4	335	32	17	9	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221564--5221872	125	2.5	122	79	7	309	32	17	11	39	1.85
5223722--5223782	21	2.9	20	83	16	79	1	19	0	78	0.83
5223728--5223764	15	2.5	15	91	4	58	0	16	0	83	0.64
5224250--5224315	34	2.0	33	90	3	105	15	9	7	68	1.39
5237769--5237865	42	2.3	42	82	13	119	29	4	30	35	1.76
5243223--5243283	14	4.3	14	66	4	50	36	6	29	27	1.82
5243178--5243254	15	5.1	15	68	6	57	29	3	33	32	1.76
5243184--5243284	43	2.3	44	93	3	168	31	4	30	32	1.79
5243940--5243984	23	2.0	23	90	0	72	26	4	13	55	1.57
5256599--5256662	34	1.9	33	90	3	101	42	20	4	32	1.73
5262897--5263180	143	2.0	143	88	4	430	24	15	22	38	1.92
5272029--5272096	30	2.3	30	86	0	91	57	5	7	29	1.50
5281526--5281557	14	2.4	14	90	10	50	12	3	6	78	1.06
5283529--5283585	15	3.7	16	74	6	55	43	7	14	35	1.72
5290443--5290712	146	1.9	146	88	3	411	36	17	17	28	1.92
5291827--5291905	26	3.1	26	60	26	60	50	11	17	20	1.76
5291820--5291936	50	2.3	50	91	0	189	51	12	15	20	1.76
5295754--5295801	21	2.2	20	82	10	51	47	0	0	52	1.00
5324129--5324165	19	1.9	19	100	0	74	40	5	21	32	1.76
5327241--5327362	58	2.1	58	92	0	199	22	13	14	48	1.80
5330795--5330819	2	12.5	2	100	0	50	48	0	0	52	1.00
5335711--5335739	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5340732--5340758	14	1.9	14	100	0	54	22	3	7	66	1.33
5354771--5354809	20	2.0	20	85	10	53	43	5	10	41	1.61
5355429--5355487	29	2.0	29	86	0	82	44	20	11	23	1.85
5356148--5356174	14	1.9	14	100	0	54	51	25	0	22	1.48
5356946--5356987	17	2.5	17	84	0	57	16	28	11	42	1.84
5369406--5369465	30	2.1	28	85	11	79	16	16	8	58	1.61
5370647--5370682	18	2.0	18	88	0	54	69	0	16	13	1.19
5374450--5374498	21	2.3	21	96	0	89	44	6	24	24	1.76
5375674--5375852	46	3.9	45	78	5	171	36	19	10	33	1.85
5375699--5375772	22	3.3	22	70	12	69	43	20	8	28	1.80
5375853--5376047	66	3.0	66	86	3	259	32	17	16	32	1.93
5380176--5380248	38	1.9	37	88	2	110	47	4	8	39	1.52
5387863--5387933	32	2.5	27	79	20	74	63	0	0	36	0.95
5390316--5390350	16	2.1	17	89	5	54	54	2	2	40	1.30
5395926--5395955	14	2.1	14	100	0	60	50	0	36	13	1.42
5396373--5396428	27	2.1	27	89	0	85	35	28	12	23	1.91
5406589--5406675	44	2.0	45	90	2	140	36	8	28	26	1.85
5408047--5408096	21	2.4	21	80	6	57	54	0	0	46	1.00
5415585--5415728	75	1.9	75	86	0	207	37	14	13	34	1.85
5415783--5415853	30	2.4	30	77	13	74	63	1	1	33	1.12
5415802--5415857	29	2.0	29	89	6	89	71	0	0	28	0.86
5424422--5424447	2	13.0	2	100	0	52	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)
5425051--5425100	22	2.3	22	89	6	75	34	0	2	64	1.05
5434256--5434283	2	14.0	2	100	0	56	50	0	0	50	1.00
5438885--5438933	24	2.0	24	88	7	73	55	0	0	44	0.99
5439618--5439656	19	2.1	19	85	0	51	30	0	2	66	1.05
5441153--5441183	3	10.3	3	92	0	53	0	32	3	64	1.09
5446416--5446462	24	2.0	24	95	0	85	46	12	10	29	1.76
5449647--5449692	8	5.5	8	82	17	58	76	0	0	23	0.79
5449646--5449692	17	2.8	16	81	9	58	76	0	0	23	0.78
5451062--5451088	2	13.5	2	100	0	54	48	0	0	51	1.00
5451323--5451380	29	2.0	29	90	6	91	37	0	1	60	1.07
5451327--5451400	29	2.5	28	79	10	69	40	0	1	58	1.07
5460897--5460938	4	10.5	4	100	0	84	50	26	0	23	1.50
5465017--5465048	13	2.4	14	85	15	50	34	15	0	50	1.45
5472335--5472360	13	2.0	13	100	0	52	0	15	0	84	0.62
5475391--5475417	2	13.5	2	100	0	54	48	0	0	51	1.00
5476194--5476368	79	2.2	79	93	1	298	36	9	8	45	1.67
5476535--5476574	20	2.0	20	95	0	71	45	10	2	42	1.51
5479469--5479516	26	2.0	22	81	18	53	43	14	14	27	1.84
5482604--5482628	2	12.5	2	100	0	50	48	0	0	52	1.00
5483022--5483063	13	3.0	14	86	6	50	54	2	0	42	1.13
5488088--5488403	151	2.1	153	82	7	372	24	13	24	37	1.92
5495736--5495809	38	1.9	38	89	5	114	44	27	9	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5504824--5504848	3	8.3	3	100	0	50	0	32	0	68	0.90
5505237--5505293	28	2.0	30	86	13	84	54	0	1	43	1.10
5505366--5505394	9	3.2	9	100	0	58	10	0	0	89	0.48
5508167--5508201	2	17.5	2	100	0	70	51	0	0	48	1.00
5516724--5516753	7	4.3	7	95	0	51	10	26	16	46	1.78
5523513--5523557	21	2.1	21	83	0	54	33	0	48	17	1.48
5531678--5531794	60	2.0	60	96	0	216	43	11	19	24	1.85
5536852--5536893	20	2.0	20	86	4	57	4	19	0	76	0.96
5537277--5537306	13	2.2	14	94	5	53	66	0	0	33	0.92
5537290--5537334	22	2.0	23	82	4	56	64	2	0	33	1.06
5537772--5537805	5	6.8	5	100	0	68	20	20	38	20	1.94
5552123--5552156	14	2.4	14	90	5	50	61	0	0	38	0.96
5552128--5552156	13	2.1	14	93	6	51	65	0	0	34	0.93
5555437--5555461	6	4.2	6	100	0	50	16	0	68	16	1.22
5559531--5559598	2	34.0	2	96	0	127	50	1	48	0	1.10
5566659--5566721	32	2.0	32	93	0	108	39	15	22	22	1.92
5575856--5575920	30	2.2	30	85	0	85	36	3	6	53	1.41
5576143--5576182	20	2.0	19	90	9	62	52	2	0	45	1.14
5583820--5583844	2	12.5	2	100	0	50	48	0	0	52	1.00
5583709--5583932	114	2.0	114	92	0	376	38	17	8	34	1.82
5601176--5601227	17	3.1	16	77	2	50	46	7	1	44	1.43
5610531--5610570	13	2.9	13	88	7	53	72	0	25	2	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5611282--5612381	301	3.7	300	81	6	1243	32	14	12	39	1.84
5614437--5614461	2	12.5	2	100	0	50	48	0	0	52	1.00
5615630--5615820	97	2.0	90	91	6	301	27	19	13	38	1.90
5615998--5616371	87	4.3	87	96	0	642	27	24	14	33	1.94
5625772--5625796	2	12.5	2	100	0	50	48	0	0	52	1.00
5626369--5626461	27	3.3	29	76	7	93	45	15	7	32	1.74
5626248--5626584	155	2.2	154	81	5	376	44	10	10	34	1.73
5626639--5626704	27	2.4	27	80	5	71	43	12	13	30	1.80
5626528--5626752	120	1.9	121	87	0	335	44	11	12	31	1.77
5626533--5626807	120	2.3	116	82	8	275	46	11	12	30	1.76

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