genome.fa.s1.2.7.7.80.10.50.1000.19.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  19  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)
10043865--10044260	180	2.2	181	84	2	530	44	9	15	30	1.77
10043865--10044319	179	2.5	179	81	5	524	42	9	15	32	1.79
10047790--10047853	32	2.0	32	90	0	101	43	14	7	34	1.74
10048123--10048152	15	2.1	15	93	6	53	13	0	3	83	0.77
10055830--10055906	34	2.3	34	77	4	84	29	6	19	44	1.76
10055872--10055919	22	2.3	20	78	7	51	25	10	14	50	1.74
10056234--10056278	20	2.2	20	84	7	56	40	4	2	53	1.33
10056254--10056312	29	2.0	30	86	3	84	44	1	6	47	1.39
10067458--10067715	136	1.9	136	90	3	412	32	10	8	47	1.69
10075015--10075042	4	7.0	4	100	0	56	50	25	0	25	1.50
10079344--10079373	15	1.9	16	93	6	53	43	0	0	56	0.99
10079387--10079449	22	2.8	23	79	13	69	44	0	4	50	1.23
10079378--10079434	20	2.6	21	81	13	62	45	0	5	49	1.24
10079339--10079495	27	5.9	26	67	19	92	45	1	2	50	1.23
10079468--10079509	22	1.9	22	85	0	57	50	2	2	45	1.27
10083540--10083586	24	2.0	24	83	8	60	36	2	2	59	1.21
10091189--10091248	31	1.9	31	86	6	86	63	6	1	28	1.29
10099165--10099205	3	13.7	3	100	0	82	65	0	0	34	0.93
10103435--10103462	6	4.7	6	100	0	56	0	32	17	50	1.47
10105883--10105907	2	12.5	2	100	0	50	52	0	0	48	1.00
10110047--10110072	2	13.0	2	100	0	52	0	50	0	50	1.00
10111131--10111155	3	8.3	3	100	0	50	0	32	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10115065--10115427	180	2.0	181	93	2	620	27	16	21	34	1.95
10122161--10122199	8	5.0	8	84	3	53	12	0	41	46	1.42
10122511--10122537	6	4.5	6	100	0	54	0	0	33	66	0.92
10129300--10129331	2	16.0	2	93	0	55	46	0	53	0	1.00
10134815--10134890	36	2.1	36	92	0	125	46	13	19	21	1.84
10136544--10136594	13	3.8	13	74	5	57	5	13	5	74	1.19
10138463--10138509	21	2.3	21	85	3	60	21	0	14	63	1.30
10160549--10160653	30	3.5	28	73	13	70	42	5	3	47	1.45
10160794--10160844	17	2.9	17	82	8	59	49	0	0	50	1.00
10168497--10169531	342	3.0	344	83	4	1239	29	16	20	33	1.95
10186410--10186484	36	2.1	37	85	7	100	29	14	0	56	1.39
10186871--10186904	17	2.0	17	88	0	50	50	2	2	44	1.32
10187291--10187355	20	3.2	20	71	16	62	52	3	3	41	1.32
10187280--10187371	40	2.3	41	86	5	134	50	2	2	45	1.26
10187253--10187416	15	11.2	15	65	24	66	49	1	1	46	1.23
10187281--10187412	55	2.4	54	75	17	139	48	1	2	47	1.23
10187741--10187766	3	8.7	3	100	0	52	69	0	0	30	0.89
10199907--10199947	21	2.0	21	86	9	59	36	4	12	46	1.63
10207478--10207693	106	2.0	107	98	0	416	38	9	22	29	1.86
10222333--10222410	29	2.7	29	80	5	88	43	11	28	16	1.83
10231251--10231282	2	16.0	2	100	0	64	50	0	50	0	1.00
10242456--10242480	11	2.3	11	100	0	50	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10243064--10243109	19	2.3	21	77	7	51	23	4	19	52	1.64
10243348--10243452	22	4.7	22	77	4	102	27	7	27	37	1.84
10243369--10243465	23	4.3	23	76	1	79	27	8	26	37	1.85
10243368--10243457	46	2.0	45	84	2	117	28	8	25	36	1.86
10253178--10253207	2	15.0	2	100	0	60	50	0	0	50	1.00
10270876--10271024	49	3.0	48	79	12	131	34	6	4	55	1.44
10270898--10271030	51	2.7	51	82	9	150	36	6	4	52	1.48
10271316--10271348	17	2.0	16	94	5	57	36	6	0	57	1.23
10271384--10271428	7	6.3	7	82	5	54	33	0	0	66	0.92
10271382--10271423	15	2.9	15	80	16	52	33	0	0	66	0.92
10271382--10271430	14	3.5	14	83	8	64	36	0	0	63	0.95
10271771--10271809	21	1.9	20	84	5	51	51	5	5	38	1.46
10280108--10280148	2	21.0	2	90	5	66	51	2	0	46	1.14
10284871--10284915	24	1.9	23	86	4	63	64	0	0	35	0.94
10284881--10284926	23	2.0	24	83	12	60	60	2	2	34	1.21
10292917--10293011	49	1.9	49	91	0	154	31	10	14	43	1.80
10301024--10301055	6	5.3	6	100	0	64	68	0	0	31	0.90
10301906--10301938	15	2.1	16	88	5	50	27	0	9	63	1.24
10302148--10302175	14	2.0	14	100	0	56	35	35	7	21	1.81
10304374--10304425	19	2.5	20	78	12	61	30	21	17	30	1.96
10318987--10319014	5	5.6	5	100	0	56	0	17	0	82	0.68
10319450--10319487	3	12.7	3	94	0	67	68	0	31	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10320286--10320367	31	2.6	31	92	3	130	24	15	14	45	1.84
10331559--10331605	24	1.9	25	83	12	62	61	2	0	36	1.08
10337486--10337526	21	2.0	21	85	0	55	17	4	2	75	1.08
10339656--10339692	19	1.9	20	88	5	58	13	2	8	75	1.13
10348506--10348574	27	2.6	27	95	0	129	53	8	17	20	1.69
10367923--10367953	4	7.8	4	100	0	62	0	51	0	48	1.00
10368192--10368230	21	1.9	21	85	15	55	0	10	7	82	0.86
10368344--10368648	152	2.0	151	87	3	443	22	12	21	43	1.85
10384208--10384255	17	2.8	17	81	15	55	39	0	6	54	1.26
10391392--10391467	15	5.2	15	76	17	88	32	3	3	59	1.34
10391383--10391448	29	2.5	24	78	21	87	34	3	3	59	1.28
10391402--10391453	14	3.6	14	80	14	70	36	1	1	59	1.19
10391392--10391467	29	2.6	29	100	0	152	32	3	3	59	1.34
10391596--10391634	2	19.5	2	89	0	51	56	2	41	0	1.13
10424786--10424822	18	2.0	19	89	5	58	59	13	18	8	1.58
10424787--10424831	18	2.4	18	85	3	54	57	13	24	4	1.54
10429440--10429467	2	14.0	2	100	0	56	50	0	0	50	1.00
10434540--10434653	57	2.0	56	88	5	167	50	19	15	14	1.77
10446521--10446607	30	2.9	29	79	6	93	34	14	9	41	1.78
10461370--10461470	29	3.5	30	71	19	88	41	10	10	36	1.75
10461476--10461554	29	2.7	30	80	4	106	40	7	8	43	1.64
10467679--10467734	12	4.7	12	84	4	60	14	62	1	21	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10467671--10467734	24	2.7	24	79	13	62	15	62	1	20	1.40
10470782--10470842	26	2.3	26	85	0	77	21	31	13	34	1.91
10474558--10474594	3	12.3	3	100	0	74	35	0	0	64	0.94
10482628--10482685	30	1.9	30	89	10	91	53	1	1	43	1.21
10483912--10483975	29	2.3	27	79	12	67	45	1	0	53	1.10
10485684--10485709	9	2.9	9	100	0	52	23	0	7	69	1.14
10488845--10488885	20	2.1	20	90	4	66	7	9	4	78	1.10
10496847--10496874	1	28.0	1	100	0	56	0	0	100	0	0.00
10498444--10498477	18	2.0	18	88	11	54	29	2	55	11	1.50
10499823--10500001	88	2.0	87	96	1	331	30	16	16	36	1.90
10509493--10509522	12	2.4	13	94	5	53	83	13	0	3	0.77
10510163--10510223	3	21.0	3	90	6	99	67	1	31	0	1.01
10523489--10523557	32	2.2	32	84	5	86	8	13	8	69	1.36
10537333--10537378	9	5.2	9	80	15	60	86	2	10	0	0.64
10537327--10537378	8	6.1	8	76	12	50	84	1	13	0	0.70
10541629--10541655	2	13.5	2	100	0	54	48	0	0	51	1.00
10551352--10551406	2	27.5	2	84	0	74	50	5	0	43	1.25
10562163--10562218	26	2.1	26	83	6	67	62	5	0	32	1.18
10563439--10563477	20	1.9	20	89	5	60	51	0	2	46	1.14
10563455--10563501	13	3.5	13	77	11	51	51	0	2	46	1.13
10585500--10585563	18	3.3	18	68	16	56	50	25	7	17	1.72
10585498--10585578	40	2.0	40	100	0	162	46	22	11	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10586760--10586841	43	1.9	43	92	0	137	17	31	2	48	1.60
10589807--10589841	18	1.9	18	88	0	52	62	0	0	37	0.95
10590704--10590743	2	20.5	2	84	5	55	57	0	42	0	0.98
10591072--10591121	16	3.2	16	81	16	68	50	0	2	48	1.12
10591078--10591122	23	2.0	23	82	8	56	46	0	2	51	1.13
10591112--10591218	34	3.2	34	70	19	82	56	2	0	41	1.14
10591729--10591759	16	1.9	16	100	0	62	19	22	0	58	1.40
10592424--10592460	10	3.5	11	82	10	51	0	16	0	83	0.64
10592424--10592460	16	2.4	15	90	4	56	0	16	0	83	0.64
10598769--10598796	10	2.8	10	100	0	56	0	46	10	42	1.38

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