genome.fa.s1.2.7.7.80.10.50.1000.23.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  23  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)
11662712--11662742	3	10.3	3	100	0	62	67	0	0	32	0.91
11663820--11664107	153	1.8	155	85	9	406	27	16	17	38	1.91
11665751--11665798	22	2.2	22	85	10	64	20	16	20	41	1.90
11668886--11668933	15	3.2	15	90	0	78	29	8	27	35	1.86
11670327--11670384	31	1.9	30	82	10	73	67	1	3	27	1.17
11670374--11670415	12	3.4	12	78	18	50	80	2	2	14	0.90
11670359--11670421	25	2.4	25	77	12	65	74	3	1	20	1.04
11683236--11683291	27	2.1	27	86	6	78	51	10	21	16	1.74
11708623--11708742	18	7.1	17	70	19	65	68	6	6	18	1.35
11710857--11710886	16	1.9	16	93	6	53	83	0	6	10	0.81
11733061--11733144	28	3.1	27	85	8	75	47	8	8	35	1.64
11733073--11733145	28	2.6	28	89	4	103	47	6	8	36	1.60
11746960--11747034	7	10.3	7	78	7	60	74	0	0	25	0.82
11746957--11747035	15	5.5	15	74	17	71	72	0	0	27	0.85
11746956--11747036	36	2.3	36	80	2	101	71	0	0	28	0.86
11746963--11747086	14	8.6	14	68	11	63	67	0	2	29	1.03
11747062--11747147	33	2.5	32	83	7	91	67	0	3	29	1.07
11748395--11748475	20	4.1	21	71	17	57	65	1	1	32	1.08
11748417--11748479	33	1.9	32	87	9	92	71	1	0	26	0.95
11748451--11748540	25	3.3	25	72	17	81	66	1	2	30	1.11
11748527--11748599	33	2.2	33	85	2	92	67	0	4	28	1.09
11748812--11748860	15	3.3	15	83	11	64	32	20	10	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11758427--11758472	19	2.6	18	80	12	60	6	21	2	69	1.22
11765297--11765330	18	1.9	18	88	5	52	41	32	8	17	1.80
11765487--11765542	29	1.9	29	85	0	76	17	25	12	44	1.84
11769652--11769992	174	2.0	174	88	2	515	26	16	17	39	1.91
11792113--11792143	3	10.3	3	92	0	53	70	0	29	0	0.87
11801495--11801535	21	1.9	22	85	14	59	46	0	12	41	1.41
11801508--11801537	16	1.9	15	93	6	51	50	0	13	36	1.42
11801756--11801934	93	1.9	93	80	8	204	26	9	15	48	1.76
11806783--11806838	25	2.2	25	87	0	76	44	12	3	39	1.60
11806794--11806844	25	2.0	25	96	0	93	41	11	7	39	1.71
11814294--11814469	33	5.7	31	71	16	109	66	0	3	29	1.12
11814384--11814471	33	2.6	33	87	1	113	68	1	2	28	1.09
11824459--11824486	2	14.0	2	100	0	56	50	0	0	50	1.00
11833501--11833563	31	2.0	31	100	0	126	34	12	15	36	1.86
11834092--11834132	15	2.9	15	82	7	50	34	36	0	29	1.58
11834354--11834414	14	4.1	15	76	18	65	9	40	24	24	1.85
11834413--11834809	71	5.6	69	72	9	264	8	38	32	20	1.82
11834430--11834809	141	2.7	141	85	0	463	7	38	33	20	1.82
11842537--11842592	28	1.9	30	82	7	71	32	1	1	64	1.14
11844514--11844541	2	14.0	2	100	0	56	50	0	0	50	1.00
11845435--11845484	19	2.5	20	80	9	66	46	8	10	36	1.67
11845974--11846060	33	2.6	32	82	10	86	29	4	2	63	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11846010--11846163	48	3.0	49	85	9	177	29	1	0	68	1.02
11846038--11846163	53	2.4	51	87	12	166	29	0	0	70	0.87
11846041--11846148	43	2.5	42	81	8	112	29	0	0	70	0.88
11846051--11846163	5	22.4	5	72	15	90	29	0	0	70	0.87
11846011--11846166	53	3.1	50	80	14	160	29	1	0	68	1.02
11846276--11846326	27	1.9	26	84	11	68	45	1	0	52	1.12
11846564--11846604	21	2.0	21	90	0	64	29	0	4	65	1.13
11860486--11860518	17	1.9	17	88	11	50	9	12	3	75	1.14
11862864--11862915	22	2.4	22	75	18	54	21	9	5	63	1.45
11865451--11865488	19	2.0	19	89	0	58	2	23	7	65	1.32
11874525--11874612	32	2.6	35	82	7	101	37	21	11	29	1.88
11876609--11876644	17	2.1	17	90	10	56	66	5	8	19	1.38
11879951--11880032	30	2.8	29	73	12	80	40	7	0	52	1.29
11882232--11882295	5	12.4	5	77	12	58	70	1	1	26	1.05
11882349--11882488	29	5.0	27	72	18	108	64	0	2	32	1.11
11882349--11882486	58	2.4	58	75	11	142	64	0	2	32	1.11
11882445--11882490	21	2.2	20	88	11	67	67	0	0	32	0.91
11882445--11882503	21	2.9	21	76	16	52	64	1	1	32	1.13
11885335--11885399	20	3.2	20	70	12	60	46	4	0	49	1.22
11885411--11885476	28	2.3	29	79	5	73	42	1	3	53	1.25
11885484--11885641	76	2.1	76	86	9	220	29	1	5	63	1.23
11885484--11885584	36	2.8	37	68	14	93	31	0	4	63	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11885773--11885824	27	1.9	27	96	0	95	46	0	3	50	1.20
11885799--11885842	22	2.0	23	86	4	63	40	2	4	52	1.34
11885605--11885908	160	1.9	160	83	2	396	40	3	3	52	1.35
11897396--11897439	19	2.2	19	84	12	52	70	2	0	27	0.99
11911592--11911637	15	3.1	15	80	0	65	32	10	28	28	1.91
11911772--11912109	56	5.8	59	74	16	305	34	2	0	62	1.13
11911781--11912158	30	13.5	27	70	22	166	33	1	0	63	1.09
11911837--11911978	25	6.4	21	66	22	58	32	2	0	64	1.13
11911855--11911929	6	12.0	6	75	10	53	29	0	0	70	0.87
11911781--11912165	113	3.4	113	93	3	674	33	2	0	63	1.11
11911971--11912153	21	8.5	20	70	24	92	33	0	0	65	1.01
11911963--11912142	8	20.8	9	63	25	59	33	0	0	65	1.01
11911979--11912154	23	7.9	24	70	22	102	34	0	0	64	1.02
11915229--11915432	49	4.2	49	90	3	333	7	57	20	15	1.62
11915201--11915432	96	2.4	97	87	6	337	7	58	19	14	1.61
11915705--11915764	20	2.9	20	85	9	77	33	0	0	66	0.92
11915697--11915852	27	5.7	27	71	23	107	32	1	0	64	1.09
11915712--11915887	13	12.1	14	67	19	62	31	2	0	65	1.09
11915808--11915891	32	2.6	34	83	11	104	26	1	0	72	0.92
11915698--11915990	12	24.0	12	66	24	75	30	2	1	66	1.11
11915924--11915990	6	10.7	6	72	15	55	26	1	0	71	0.94
11918947--11919030	35	2.5	34	87	11	113	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)
11919040--11919104	5	14.2	5	72	23	54	56	0	0	43	0.99
11919045--11919103	13	4.2	14	76	20	61	55	0	0	44	0.99
11919039--11919104	18	3.7	18	72	22	59	56	0	0	43	0.99
11919039--11919104	13	5.0	13	73	20	57	56	0	0	43	0.99
11921986--11922042	29	2.0	29	82	6	71	42	7	17	33	1.76
11928905--11928935	2	15.5	2	100	0	62	0	48	0	51	1.00
11947439--11947474	18	2.0	18	94	0	63	50	16	8	25	1.73
11953421--11953454	17	2.0	17	100	0	68	35	23	11	29	1.90
11954365--11954436	18	4.1	18	82	8	94	44	6	2	45	1.45
11954370--11954452	6	13.8	6	76	0	67	44	7	3	44	1.49
11954370--11954452	34	2.4	34	97	0	157	44	7	3	44	1.49
11954370--11954450	24	3.4	24	82	0	81	44	7	3	44	1.49
11954388--11954454	16	4.1	16	81	7	80	46	8	2	41	1.50
11954370--11954448	18	4.5	18	80	6	90	44	7	3	44	1.50
11959955--11960001	17	2.8	16	87	6	58	0	27	2	70	0.99
11970045--11970109	32	2.0	32	85	8	87	55	1	0	43	1.09
11975705--11975741	19	1.9	19	88	0	56	37	2	0	59	1.12
11977331--11977364	15	2.3	15	94	0	59	47	2	35	14	1.60
11980718--11980761	4	10.5	4	80	9	52	65	0	34	0	0.93
11980718--11980761	17	2.6	17	85	3	63	65	0	34	0	0.93
11990260--11990309	26	1.9	26	95	0	91	24	10	14	52	1.71
11998393--11998457	32	2.0	32	93	0	112	13	13	20	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12001744--12001769	2	13.0	2	100	0	52	50	0	0	50	1.00
12002772--12002820	6	8.2	6	88	0	53	42	0	0	57	0.99
12002772--12002820	10	4.9	10	84	0	53	42	0	0	57	0.99
12004784--12004825	22	1.9	22	85	0	57	35	19	14	30	1.91
12009640--12009664	2	12.5	2	100	0	50	52	0	0	48	1.00
12014890--12014966	37	2.1	37	100	0	154	48	25	10	15	1.77
12018473--12018683	105	2.0	105	95	0	377	44	12	19	23	1.85
12039009--12039543	282	1.9	281	87	3	781	34	20	10	34	1.87
12041403--12041468	30	2.2	30	83	2	80	33	3	6	57	1.38
12047271--12047324	25	2.2	25	93	0	90	42	7	31	18	1.78

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