genome.fa.s1.2.7.7.80.10.50.1000.20.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  20  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)
10617189--10617217	8	3.6	8	100	0	58	0	44	0	55	0.99
10623920--10624174	127	2.0	127	96	0	465	24	48	14	12	1.79
10624162--10624254	36	2.6	36	78	10	100	16	31	2	50	1.57
10629892--10629949	11	5.4	11	70	4	55	72	0	8	18	1.10
10629881--10629957	32	2.4	32	86	0	100	68	0	6	24	1.13
10629899--10629959	32	1.9	32	96	0	113	67	0	6	26	1.15
10639268--10639347	32	2.5	33	80	10	94	55	1	2	41	1.21
10639427--10639647	118	1.9	118	88	1	336	32	23	21	23	1.98
10640348--10640433	42	2.0	42	88	0	127	33	3	38	24	1.72
10644205--10644236	2	16.0	2	100	0	64	0	50	0	50	1.00
10656036--10656176	59	2.4	60	80	4	169	35	14	14	35	1.87
10658647--10658697	9	5.7	9	80	0	66	37	0	0	62	0.95
10658648--10658697	18	2.8	18	100	0	100	36	0	0	64	0.94
10659133--10659180	21	2.2	22	82	10	55	39	0	16	43	1.48
10666329--10666387	30	2.0	29	83	9	75	37	0	1	61	1.07
10666637--10666696	29	2.1	28	81	12	68	51	1	3	43	1.28
10669060--10669088	13	2.2	13	100	0	58	65	0	20	13	1.26
10671390--10671445	24	2.3	24	78	6	60	19	8	41	30	1.82
10695032--10695080	19	2.6	19	96	0	89	26	10	28	34	1.89
10698292--10698347	15	3.7	15	75	0	67	41	14	1	42	1.56
10698294--10698351	30	1.9	30	89	0	89	43	17	1	37	1.59
10707093--10707130	19	2.1	19	85	9	53	42	10	5	42	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10707361--10707484	29	4.4	28	75	7	115	37	12	8	42	1.72
10707350--10707494	28	5.1	28	74	15	109	34	12	8	44	1.72
10711474--10711564	30	3.1	29	83	1	110	56	5	4	34	1.43
10725279--10725308	4	7.5	4	92	0	51	73	0	26	0	0.84
10729071--10729170	21	4.8	21	83	2	121	23	23	27	27	2.00
10729975--10730076	39	2.6	39	81	6	125	16	49	1	32	1.57
10730393--10730433	12	3.4	12	82	0	55	0	17	39	43	1.49
10732830--10732883	28	1.9	28	88	7	83	29	1	5	62	1.28
10734030--10734105	40	1.9	40	86	10	111	48	3	2	44	1.35
10735646--10735684	20	2.0	20	85	10	53	25	5	17	51	1.66
10744331--10744379	18	2.7	18	80	3	62	44	0	4	51	1.20
10754067--10754134	33	2.1	33	97	0	127	23	20	19	36	1.95
10758839--10758904	34	1.9	34	93	0	114	27	19	25	27	1.99
10766192--10766221	2	15.0	2	100	0	60	50	0	0	50	1.00
10767473--10767512	14	2.9	14	80	0	53	42	2	7	47	1.45
10768033--10768065	17	1.9	17	93	0	57	18	0	0	81	0.68
10778950--10778989	17	2.4	16	84	8	53	52	2	0	45	1.14
10779673--10779746	9	8.1	9	72	8	51	28	2	1	67	1.12
10781303--10781342	17	2.3	18	91	4	64	45	2	0	52	1.14
10783331--10783370	21	1.9	21	85	10	55	37	0	0	62	0.95
10783911--10784043	60	2.2	60	81	2	142	45	11	6	36	1.65
10797301--10797350	23	2.2	23	88	0	73	26	16	26	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10798055--10798096	17	2.4	17	85	14	59	42	11	2	42	1.54
10798237--10798384	29	5.0	29	79	10	140	37	10	7	44	1.66
10798247--10798403	29	5.4	29	78	9	133	41	8	7	42	1.65
10798237--10798403	88	1.9	88	83	4	221	38	9	7	43	1.66
10801276--10801380	29	3.6	29	75	13	99	40	11	1	45	1.51
10801448--10801521	33	2.2	33	80	0	85	40	4	13	41	1.63
10803735--10803778	18	2.4	18	84	0	61	43	6	2	47	1.42
10803744--10803785	18	2.3	18	84	8	50	42	2	2	52	1.27
10807393--10807433	15	2.7	15	96	0	73	34	2	12	51	1.52
10812096--10812191	18	5.3	18	67	25	53	67	0	2	30	1.02
10812111--10812191	30	2.8	29	78	7	85	66	0	2	30	1.05
10812086--10812234	69	2.1	70	84	7	187	65	0	2	31	1.12
10812170--10812231	16	4.3	15	75	17	51	61	0	4	33	1.17
10815762--10815953	96	2.0	96	82	6	237	44	13	8	33	1.74
10817353--10817438	33	2.6	32	85	3	100	29	4	1	65	1.20
10817676--10817700	13	1.9	13	100	0	50	40	0	0	60	0.97
10817690--10817751	27	2.4	25	80	15	72	53	0	0	46	1.00
10825345--10825395	21	2.4	21	100	0	102	49	13	9	27	1.74
10828849--10828891	16	2.7	16	89	7	61	53	0	9	37	1.33
10829193--10829289	49	2.0	49	82	8	117	52	6	9	31	1.58
10837571--10837597	4	6.8	4	100	0	54	25	0	22	51	1.48
10846152--10846190	12	3.2	12	89	7	53	30	2	5	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10846156--10846191	12	2.9	12	91	4	54	30	2	5	61	1.33
10846710--10846773	30	2.1	30	88	0	92	48	12	15	23	1.79
10847813--10847870	30	1.9	30	96	0	107	56	8	12	22	1.62
10848875--10849025	27	5.8	27	70	16	104	54	1	1	42	1.16
10848950--10848998	22	2.2	23	81	3	55	51	2	4	42	1.32
10848837--10849043	105	2.0	105	89	3	319	56	2	1	39	1.21
10849343--10849374	16	2.0	16	93	0	55	21	15	0	62	1.32
10869380--10869492	56	2.0	57	98	1	219	23	18	14	44	1.86
10871948--10872005	25	2.3	25	87	3	80	62	18	5	13	1.50
10872180--10872230	21	2.5	21	84	9	61	31	0	7	60	1.25
10874924--10874962	21	1.9	21	94	5	71	53	15	7	23	1.67
10878875--10878908	16	2.2	16	89	5	52	61	0	0	38	0.96
10881628--10881661	13	2.8	12	82	8	50	79	5	0	14	0.91
10887422--10888083	47	14.2	47	77	8	577	26	17	31	24	1.97
10887422--10888082	139	4.7	138	79	7	624	26	17	31	24	1.97
10887422--10888011	186	3.2	184	81	8	570	26	17	31	24	1.97
10887632--10887758	23	5.4	23	69	10	78	25	15	33	25	1.95
10887422--10888016	277	2.1	280	88	1	854	26	17	31	24	1.97
10887866--10887942	23	3.3	23	71	10	66	25	16	32	24	1.96
10888612--10888704	31	3.0	31	85	1	123	19	18	21	40	1.91
10891101--10891143	20	2.1	21	87	12	63	27	0	0	72	0.85
10891285--10891349	33	2.0	33	84	0	85	40	15	6	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10891413--10891483	30	2.4	30	80	0	97	54	0	4	40	1.20
10891465--10891519	29	1.9	28	85	10	76	61	0	3	34	1.13
10895780--10895809	2	15.0	2	100	0	60	50	0	0	50	1.00
10898759--10898800	3	14.0	3	100	0	84	66	0	0	33	0.92
10906407--10906433	2	13.5	2	100	0	54	51	0	0	48	1.00
10907912--10908021	57	1.9	57	84	14	147	37	12	8	41	1.73
10907912--10908021	28	3.9	28	82	12	143	37	12	8	41	1.73
10917774--10917815	22	1.9	22	85	0	57	23	4	26	45	1.73
10917864--10917922	23	2.6	23	75	5	57	44	27	6	22	1.78
10917910--10918023	43	2.7	42	79	4	129	43	20	8	27	1.81
10918135--10918260	59	2.1	60	82	1	146	42	14	7	35	1.75
10926606--10926682	35	2.2	35	83	2	93	19	22	23	35	1.96
10926624--10926694	35	2.0	35	91	0	115	14	21	23	40	1.89
10935136--10935186	22	2.3	22	86	0	75	9	49	19	21	1.77
10937191--10937358	84	2.0	84	85	0	228	24	19	23	32	1.98
10937618--10937684	32	2.0	35	85	8	95	16	2	14	65	1.39
10949370--10949415	18	2.7	16	84	15	65	50	2	2	45	1.26
10949370--10949416	17	2.7	17	87	12	69	51	2	2	44	1.25
10949375--10949417	18	2.3	19	88	4	70	58	2	2	37	1.24
10961482--10961508	2	13.5	2	100	0	54	51	0	0	48	1.00
10961511--10962183	365	1.8	365	92	0	1150	38	8	14	38	1.77
10973910--10973952	17	2.6	17	82	7	54	51	0	6	41	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10980364--10980401	11	3.5	11	96	0	67	0	2	18	78	0.86
10980363--10980400	17	2.2	17	90	9	60	0	2	15	81	0.80
10981228--10981277	26	1.9	26	87	0	73	40	2	2	56	1.22
10989992--10990025	11	3.0	12	83	16	54	41	0	0	58	0.98
10990593--10990630	15	2.5	15	84	12	51	55	5	0	39	1.23
10996487--10996542	27	2.1	26	83	9	69	78	3	16	1	0.97
10997587--10998682	61	17.9	61	76	7	688	34	17	17	30	1.93
10997639--10997741	31	3.4	31	66	14	88	33	15	18	32	1.92
10997661--10997757	31	3.2	31	63	14	83	31	16	18	32	1.93
10997638--10998658	365	2.8	362	80	6	1087	35	17	16	30	1.92

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