genome.fa.s5.2.7.7.80.10.50.1000.2.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  2  of  22  ( 2636 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)
614917--615042	64	2.0	64	81	9	150	27	27	15	28	1.96
617178--617337	80	2.0	81	91	1	259	31	18	15	35	1.92
619394--619421	2	14.0	2	100	0	56	50	0	0	50	1.00
622271--622492	120	1.8	121	86	4	324	30	6	2	60	1.35
625501--625571	15	4.6	16	74	6	58	25	0	5	69	1.10
678943--678990	22	2.1	23	84	3	62	22	16	8	52	1.71
683385--683437	27	2.0	27	85	7	72	41	1	5	50	1.36
690788--690821	18	1.9	18	94	5	61	11	5	29	52	1.61
695564--695594	14	2.2	14	100	0	62	29	6	41	22	1.78
714447--714527	29	2.8	29	87	9	119	34	7	12	45	1.70
714479--714619	55	2.6	55	83	4	171	35	7	9	46	1.66
716398--716433	16	2.2	16	90	9	56	36	2	5	55	1.38
722356--722398	15	2.7	16	82	17	54	53	4	0	41	1.21
723186--723215	9	3.3	9	90	0	51	53	0	0	46	1.00
723188--723223	13	2.8	13	91	0	54	55	0	0	44	0.99
729543--730590	336	3.1	333	78	9	1028	42	5	5	45	1.50
729649--730488	347	2.5	324	80	9	827	42	5	5	45	1.50
730555--730587	16	2.1	17	88	11	52	51	0	0	48	1.00
737631--737689	31	1.9	31	82	6	75	42	6	3	47	1.46
737714--737754	21	1.9	22	90	5	66	53	0	4	41	1.22
737750--737783	17	2.0	17	88	11	52	47	0	2	50	1.16
746715--746769	25	2.2	24	87	12	76	45	3	1	49	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
747812--747845	2	17.0	2	100	0	68	50	0	0	50	1.00
748534--748580	24	2.0	24	95	0	85	36	14	6	42	1.72
766048--766079	7	4.6	7	100	0	64	40	12	31	15	1.85
770196--770246	22	2.3	22	93	0	84	43	11	5	39	1.66
782338--782370	11	2.8	12	86	13	50	33	3	0	63	1.10
782796--782859	26	2.4	26	82	12	76	46	3	0	50	1.17
782814--782867	24	2.2	26	83	6	67	55	3	0	40	1.17
793086--793118	13	2.7	13	86	13	52	6	42	0	51	1.26
796757--796931	45	3.9	45	87	3	217	41	15	12	30	1.84
796844--796921	24	3.4	24	67	16	74	46	16	10	26	1.79
796816--796955	45	3.1	45	88	2	147	45	15	11	27	1.80
796792--796955	90	1.8	90	80	2	195	42	15	12	29	1.83
797637--797667	10	3.1	10	90	0	53	61	0	0	38	0.96
805046--805138	31	3.0	30	72	10	89	17	19	7	55	1.65
806731--806791	22	2.6	22	75	17	61	40	0	0	59	0.98
811195--811468	138	2.0	138	87	0	395	33	16	20	29	1.95
819856--820042	100	1.9	100	87	2	277	35	20	20	22	1.96
825068--825092	3	8.3	3	100	0	50	68	0	0	32	0.90
831362--831413	19	2.7	19	85	8	70	32	11	32	23	1.90
831362--831497	38	3.5	38	70	21	109	36	11	29	22	1.90
831443--831497	19	2.8	20	81	5	69	32	9	36	21	1.85
831361--831553	80	2.4	80	93	0	323	36	12	27	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
838683--838791	29	3.9	29	72	19	106	66	0	0	31	1.04
838680--839127	27	17.4	24	64	22	82	63	0	2	33	1.11
838683--838789	28	3.8	29	75	14	116	66	0	0	31	1.04
838735--838837	36	2.8	37	76	8	104	66	0	1	31	1.09
838809--839077	53	5.0	53	71	21	200	63	0	2	33	1.12
838771--839132	29	13.1	28	68	23	139	63	0	2	33	1.12
838870--838944	5	15.8	5	72	15	52	62	0	1	36	1.04
838888--838958	22	2.9	25	79	14	85	66	0	0	33	0.92
838771--839132	108	3.3	110	86	11	501	63	0	2	33	1.12
838987--839049	22	2.9	20	77	13	63	65	0	0	34	0.93
838988--839065	6	11.7	7	74	20	69	66	0	0	33	0.92
839012--839089	32	2.5	32	81	8	97	64	0	1	34	1.02
839057--839105	14	3.4	15	78	18	50	57	0	4	38	1.18
839285--839338	15	3.6	15	92	0	81	33	25	7	33	1.84
842746--842784	21	1.9	19	85	10	51	10	15	5	69	1.34
845417--845460	21	2.0	22	83	12	56	29	13	4	52	1.60
848109--848142	17	2.0	17	88	11	52	55	0	0	44	0.99
848098--848142	17	2.9	16	81	18	51	60	0	0	40	0.97
848301--848356	19	3.1	18	72	10	51	44	0	0	55	0.99
861230--861266	19	1.9	19	88	0	56	48	10	10	29	1.72
862014--862043	2	14.5	2	93	6	51	50	0	3	46	1.18
867143--867171	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
871257--871614	98	3.7	98	88	1	470	38	12	9	39	1.76
883515--883550	3	12.0	3	100	0	72	33	66	0	0	0.92
887979--888003	7	3.6	7	100	0	50	76	0	0	24	0.80
889548--889684	71	1.9	71	98	0	265	45	3	21	29	1.69
894837--894875	2	19.5	2	100	0	78	51	0	48	0	1.00
897800--897844	24	1.9	24	86	4	65	24	8	17	48	1.75
900424--900476	27	1.9	28	84	3	72	28	1	62	7	1.33
908945--909806	213	4.0	213	92	1	1370	36	19	12	31	1.89
910532--910584	23	2.5	20	81	9	61	45	0	0	54	0.99
910534--910582	20	2.3	23	82	10	59	48	0	0	51	1.00
916403--916442	20	2.0	21	85	5	55	20	17	27	35	1.95
917479--917550	31	2.4	30	90	2	108	41	5	0	52	1.24
933875--933909	16	2.1	17	94	5	63	62	0	0	37	0.95
934893--934939	23	2.0	25	87	8	71	40	14	0	44	1.46
942699--942751	12	4.4	12	74	9	54	71	3	3	20	1.17
962787--962828	15	2.7	16	88	3	59	50	0	0	50	1.00
962790--962828	16	2.5	16	87	4	53	51	0	0	48	1.00
965444--965475	2	16.0	2	93	0	55	50	3	0	46	1.17
965958--965994	17	2.1	18	85	14	51	51	0	5	43	1.24
966370--966423	18	2.9	18	86	5	63	48	0	1	50	1.11
991800--991984	14	13.8	13	68	19	62	69	1	1	28	1.05
991787--991824	20	1.9	20	88	0	58	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991826--991991	25	6.5	26	67	15	71	68	1	1	28	1.07
991963--992145	28	6.5	28	73	16	112	61	0	2	35	1.10
992023--992096	21	3.5	22	82	14	93	67	0	0	32	0.91
992037--992103	6	11.0	6	73	20	50	68	0	0	31	0.90
992022--992090	23	3.1	23	71	25	67	65	0	0	34	0.93
991999--992172	57	3.0	60	69	25	174	63	0	2	34	1.07
991916--992167	16	17.9	14	64	24	52	65	0	1	32	1.04
991947--992172	112	2.0	112	93	5	386	64	0	2	33	1.06
992316--992382	15	4.4	15	86	1	89	31	20	10	37	1.87
993611--993650	20	2.0	20	85	9	55	52	5	0	42	1.23
994308--994358	21	2.4	22	76	6	59	52	0	3	43	1.19
1006111--1006192	36	2.3	36	89	0	119	31	10	26	30	1.91
1007695--1007771	31	2.5	31	91	4	120	45	6	20	27	1.76
1012193--1012254	27	2.4	25	73	10	61	41	0	1	56	1.09
1019630--1019670	21	2.0	21	95	0	73	24	4	26	43	1.74
1027430--1027481	23	2.3	23	81	15	63	51	0	0	48	1.00
1036358--1036416	26	2.3	25	77	8	64	32	0	1	66	1.02
1036393--1036503	31	3.5	31	73	13	118	36	0	3	59	1.15
1036371--1036434	26	2.4	25	77	10	65	34	0	3	62	1.11
1036356--1036559	64	3.0	66	82	15	242	36	0	3	60	1.14
1036454--1036547	46	2.0	47	81	8	111	40	0	2	57	1.11
1036665--1036706	15	2.7	16	85	3	59	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038981--1039005	2	12.5	2	100	0	50	52	0	0	48	1.00
1057929--1057971	12	3.6	12	90	0	68	16	48	25	9	1.75
1057929--1057987	18	3.3	18	78	0	64	18	47	25	8	1.77
1057930--1057971	6	7.0	6	94	0	57	16	50	23	9	1.75
1058115--1058316	101	2.0	101	89	1	309	31	8	34	25	1.86
1067304--1067431	61	2.1	61	98	0	247	41	18	19	20	1.91
1068904--1069066	81	2.0	81	92	0	272	31	16	23	27	1.96
1073697--1073728	16	2.0	16	93	0	55	31	3	43	21	1.68
1075002--1075049	14	3.5	13	81	13	51	64	2	0	33	1.05
1075252--1075295	20	2.3	18	88	7	61	77	4	11	6	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22