genome.fa.s30.2.7.7.80.10.50.1000.2.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_018397283.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_31.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1333793

Tables:   1   2   3   

This is table  2  of  3  ( 270 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)
599564--599599	2	18.0	2	94	0	63	2	47	0	50	1.15
606661--606699	16	2.4	16	91	8	62	51	7	41	0	1.31
608831--608870	21	1.9	22	85	10	57	7	7	12	72	1.27
611110--611243	67	2.0	68	94	1	234	36	13	26	23	1.92
611799--611946	48	3.0	49	85	4	208	14	29	7	48	1.71
613653--613686	15	2.3	15	100	0	68	5	20	32	41	1.76
616853--616885	2	16.5	2	100	0	66	51	0	0	48	1.00
629704--629741	2	19.0	2	100	0	76	50	0	0	50	1.00
635544--635588	2	23.0	2	95	4	83	51	0	48	0	1.00
635781--635814	15	2.4	14	95	5	59	85	0	8	5	0.75
642821--642864	21	2.1	21	83	8	54	56	13	20	9	1.64
652098--652240	39	3.6	39	71	17	105	33	6	18	41	1.75
658555--658620	32	2.1	32	94	0	114	28	6	21	43	1.76
662689--662728	21	1.9	21	85	10	55	32	7	32	27	1.85
681940--681980	21	1.9	22	85	5	57	7	34	24	34	1.83
687654--687679	13	2.0	13	100	0	52	92	7	0	0	0.39
693785--693848	31	2.0	31	82	8	76	48	0	6	45	1.27
697799--697833	2	17.5	2	100	0	70	48	0	0	51	1.00
705534--705617	43	2.0	43	87	0	123	45	20	16	17	1.86
712290--712318	15	1.9	15	100	0	58	62	0	6	31	1.22
719220--719257	18	2.1	18	95	0	67	36	13	23	26	1.91
720484--720518	16	2.1	17	89	5	54	25	31	2	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720347--720654	152	2.0	151	82	5	370	29	15	16	38	1.90
721279--721387	55	2.0	55	92	0	182	41	22	11	24	1.86
734818--734842	12	2.1	12	100	0	50	40	0	0	60	0.97
735452--735558	52	2.1	52	100	0	214	51	5	5	37	1.49
742812--742858	24	1.9	25	83	12	62	44	2	2	51	1.25
742817--742895	34	2.3	34	85	8	90	43	1	2	53	1.22
743375--743428	23	2.4	23	81	9	58	46	0	1	51	1.11
744497--744571	9	8.2	9	70	22	50	73	0	4	22	1.00
750514--750557	20	2.1	21	91	4	72	56	0	22	20	1.42
751959--752002	20	2.2	20	84	12	54	61	0	18	20	1.35
754313--754342	16	1.9	16	93	6	53	60	16	0	23	1.36
756865--756908	15	3.0	14	90	6	61	52	2	0	45	1.13
761907--761945	3	13.0	3	100	0	78	66	0	0	33	0.92
762292--762346	24	2.4	24	82	14	71	74	0	1	23	0.91
772620--772724	30	3.5	30	77	12	101	31	9	7	51	1.62
778288--778328	21	2.0	21	100	0	82	19	19	19	41	1.91
793064--793101	2	18.5	2	94	5	67	47	2	0	50	1.15
794186--794211	2	13.0	2	100	0	52	50	0	50	0	1.00
796730--796783	28	1.9	28	84	0	72	37	7	14	40	1.74
808936--809000	29	2.3	29	86	2	87	41	4	0	53	1.21
808979--809084	30	3.5	30	85	0	149	33	10	5	50	1.60
814152--814257	51	2.1	51	82	7	126	38	10	14	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
814616--814668	22	2.4	22	83	0	70	50	18	1	28	1.57
829960--829994	4	8.8	4	100	0	70	77	0	0	22	0.78
836053--836083	4	7.8	4	100	0	62	74	0	25	0	0.82
837358--837395	9	4.2	9	96	0	67	34	0	13	52	1.40
838829--838858	2	15.0	2	92	0	51	50	3	0	46	1.18
839096--839120	3	8.3	3	100	0	50	68	0	0	32	0.90
842161--842187	2	13.5	2	100	0	54	0	48	0	51	1.00
850076--850117	13	3.2	13	80	6	50	45	2	0	52	1.13
850161--850216	25	2.2	25	84	12	71	62	0	0	37	0.95
853079--853103	3	8.3	3	100	0	50	32	68	0	0	0.90
853510--853534	1	25.0	1	100	0	50	0	100	0	0	0.00
854094--854123	11	2.7	11	100	0	60	83	0	0	16	0.65
874201--874225	4	6.2	4	100	0	50	24	24	28	24	2.00
878272--878318	22	2.2	21	82	10	60	0	14	4	80	0.85
878922--878955	5	7.0	5	90	6	52	85	0	14	0	0.60
885069--885098	2	15.0	2	100	0	60	50	0	0	50	1.00
885152--885439	96	3.0	96	99	0	567	36	7	8	48	1.61
886606--886645	17	2.3	18	86	4	55	0	10	2	87	0.63
892002--892045	22	2.0	23	90	4	72	36	6	6	50	1.56
893702--893733	5	6.6	5	96	3	57	62	0	37	0	0.95
899159--899243	42	2.0	42	82	8	102	37	25	10	25	1.88
901692--901719	12	2.3	12	100	0	56	0	60	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
912816--912905	45	2.0	45	95	0	162	24	20	15	40	1.91
914112--914159	22	2.0	25	84	11	66	43	0	2	54	1.12
914297--914344	22	2.2	22	100	0	96	41	6	16	35	1.74
914554--914594	15	2.8	15	85	10	50	53	2	0	43	1.13
924583--924620	19	2.0	20	84	5	51	60	2	2	34	1.24
925268--925377	55	2.0	55	87	0	157	36	13	20	30	1.91
927009--927043	2	17.5	2	100	0	70	48	0	0	51	1.00
942883--942933	22	2.4	19	79	20	57	60	3	7	27	1.42
942889--942931	21	1.9	24	86	13	65	58	4	9	27	1.49
942763--943194	214	2.0	219	85	4	590	46	2	7	43	1.45
943451--943483	15	2.1	16	88	5	50	45	0	3	51	1.16
943429--943481	26	2.0	27	82	10	65	50	0	1	47	1.12
943484--943522	21	1.9	20	85	15	53	53	0	0	46	1.00
945268--945298	2	15.5	2	100	0	62	48	0	0	51	1.00
946470--946512	20	2.0	22	86	8	63	41	0	4	53	1.21
959979--960011	2	16.5	2	100	0	66	51	0	0	48	1.00
963423--963456	2	17.0	2	87	0	50	50	5	0	44	1.26
964650--964674	2	12.5	2	100	0	50	52	0	0	48	1.00
973280--973306	2	13.5	2	100	0	54	48	0	0	51	1.00
997828--997878	24	2.1	24	100	0	102	25	7	11	54	1.63
998789--998821	17	1.9	17	93	0	57	39	3	6	51	1.42
1019462--1019525	29	2.1	31	88	5	96	43	1	7	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019559--1019591	16	2.1	16	100	0	66	36	0	6	57	1.23
1065702--1065753	25	2.0	26	81	3	61	50	1	3	44	1.31
1085848--1085900	2	26.5	2	96	0	97	49	0	0	50	1.00
1093212--1093270	29	2.1	29	84	9	77	67	8	11	11	1.41
1093734--1093789	29	1.9	29	92	0	94	35	1	0	62	1.06
1097706--1097890	59	3.1	57	75	11	167	38	7	12	41	1.71
1097706--1097940	119	2.0	119	81	5	278	37	7	14	41	1.73
1101825--1101879	23	2.4	23	100	0	110	29	18	20	32	1.96
1111981--1112014	2	17.0	2	100	0	68	50	0	0	50	1.00
1117915--1117943	2	14.5	2	100	0	58	48	0	0	51	1.00
1127971--1128159	16	12.3	15	66	21	74	66	1	2	30	1.10
1127954--1128072	25	4.8	25	73	13	86	67	0	1	30	1.06
1127971--1128086	31	3.9	29	72	15	85	66	0	2	30	1.11
1127958--1128098	75	1.9	73	81	11	169	68	0	2	29	1.06
1128015--1128170	65	2.4	63	81	8	170	65	1	1	31	1.12
1128033--1128156	27	4.7	28	74	18	106	66	0	1	30	1.06
1128255--1128308	16	3.2	16	78	5	63	40	0	0	59	0.98
1128245--1128291	21	2.3	21	89	7	71	36	0	2	61	1.08
1128256--1128306	15	3.3	15	83	8	66	41	0	0	58	0.98
1128259--1128323	15	4.2	16	80	7	55	44	1	0	53	1.09
1142120--1142146	2	13.5	2	100	0	54	51	0	0	48	1.00
1143970--1144019	21	2.4	21	76	10	57	58	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146010--1146052	10	4.0	10	84	9	50	55	2	0	41	1.12
1168516--1168635	55	2.3	52	84	11	149	45	6	15	32	1.73
1168516--1168666	49	3.0	49	77	12	142	41	8	16	33	1.79
1176739--1176853	57	2.0	57	94	0	203	33	26	13	27	1.93
1182713--1182745	12	2.8	12	90	4	50	45	0	54	0	0.99
1182703--1182740	20	1.9	19	85	15	51	42	2	55	0	1.14
1196884--1197022	54	2.6	54	87	5	192	40	5	46	7	1.55
1196944--1197022	24	3.0	24	68	25	70	41	5	48	5	1.47
1196887--1197070	54	3.4	51	80	10	165	40	5	46	7	1.55
1204239--1204324	39	2.2	40	82	15	101	37	1	4	56	1.27

Tables:   1   2   3