genome.fa.s3.2.7.7.80.10.50.1000.22.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  22  of  29  ( 3437 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)
8758383--8758433	17	2.9	17	80	8	50	45	5	1	47	1.38
8758109--8758785	301	2.2	296	79	10	753	39	6	7	46	1.56
8759042--8759081	19	2.1	19	85	0	53	45	7	2	45	1.45
8759104--8759141	15	2.4	16	80	20	53	55	2	0	42	1.14
8759304--8759363	28	2.1	29	81	3	68	33	1	10	55	1.43
8767364--8767407	21	2.0	22	82	4	54	56	0	0	43	0.99
8767390--8767425	18	2.0	18	88	0	54	38	0	2	58	1.13
8768781--8768819	13	3.2	13	82	10	55	51	0	7	41	1.31
8770124--8770161	2	19.0	2	100	0	76	50	0	0	50	1.00
8796247--8796277	2	15.5	2	100	0	62	48	0	0	51	1.00
8801653--8801776	27	4.6	27	78	2	115	40	10	12	36	1.78
8801734--8801801	27	2.5	26	79	9	64	35	11	13	39	1.81
8807670--8807701	2	16.0	2	100	0	64	50	0	0	50	1.00
8825979--8826003	9	2.8	9	100	0	50	12	32	24	32	1.91
8848062--8848099	18	2.1	18	100	0	76	26	10	34	28	1.90
8854538--8854562	2	12.5	2	100	0	50	48	0	0	52	1.00
8860536--8860589	26	2.2	25	79	20	62	48	11	0	40	1.39
8860704--8860797	30	3.1	29	80	11	109	58	2	0	39	1.10
8860736--8860788	28	2.0	28	85	14	76	64	1	0	33	1.05
8881339--8881498	45	3.5	45	76	16	150	39	3	12	45	1.58
8904888--8904968	42	1.9	42	87	5	119	29	23	13	33	1.93
8906496--8906545	25	2.0	24	81	11	57	20	0	44	36	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8908529--8908594	21	3.3	20	69	16	57	12	24	13	50	1.76
8908456--8908806	38	9.2	38	71	11	182	15	22	15	47	1.82
8908528--8908805	114	2.4	113	76	10	280	14	23	15	46	1.83
8908601--8908858	38	6.8	39	70	17	125	16	23	15	44	1.85
8908443--8908823	76	5.0	76	72	7	263	14	23	16	45	1.84
8922053--8922095	2	21.5	2	100	0	86	51	0	0	48	1.00
8927814--8927876	32	1.9	33	90	3	101	42	9	14	33	1.78
8934983--8935020	19	2.0	19	89	0	58	47	0	0	52	1.00
8960730--8960764	15	2.2	16	95	5	63	42	0	2	54	1.15
8961029--8961068	21	1.9	21	89	0	62	52	0	10	37	1.35
8961201--8961257	30	1.9	29	82	10	71	54	3	3	38	1.35
8961701--8961767	29	2.3	30	80	15	77	49	4	4	41	1.43
8969757--8969789	13	2.4	14	85	10	50	15	6	45	33	1.70
8971529--8971585	30	1.9	30	100	0	114	24	14	47	14	1.80
8977288--8977325	20	1.9	20	84	10	51	65	0	0	34	0.93
8977730--8977769	21	1.9	21	84	0	53	52	5	5	37	1.45
8978330--8978356	10	2.7	10	100	0	54	29	0	11	59	1.32
8987356--8987388	3	11.0	3	100	0	66	0	33	0	66	0.92
9002582--9002648	35	1.9	35	93	0	116	29	34	29	5	1.81
9005065--9005096	10	3.3	10	95	4	57	75	0	0	25	0.81
9031918--9032021	52	2.1	49	89	7	156	53	7	5	32	1.53
9032630--9032670	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9036429--9036465	2	18.5	2	100	0	74	51	0	0	48	1.00
9056395--9056421	9	3.0	9	100	0	54	77	0	22	0	0.76
9065581--9065652	28	2.5	28	84	8	92	26	5	1	66	1.21
9065765--9065813	21	2.2	22	78	10	55	42	6	10	40	1.63
9069457--9069491	18	1.9	18	94	0	61	20	2	5	71	1.19
9073431--9073560	45	2.9	47	73	11	119	68	0	2	29	1.02
9073493--9073633	66	2.2	62	79	16	155	67	0	1	30	1.04
9073493--9073638	33	4.6	31	72	18	104	67	0	1	30	1.04
9073562--9073601	12	3.1	14	82	17	50	62	0	2	35	1.09
9073822--9073846	13	1.9	13	100	0	50	44	0	0	56	0.99
9073816--9073850	18	1.9	18	94	0	61	45	2	0	51	1.16
9077356--9077399	21	2.1	21	95	0	79	13	22	4	59	1.53
9081810--9081915	53	2.0	53	87	3	151	32	11	24	32	1.91
9084416--9084461	14	3.0	16	75	18	53	36	6	4	52	1.47
9085823--9085856	2	17.0	2	87	0	50	0	55	0	44	0.99
9105634--9105660	3	9.0	3	100	0	54	33	0	0	66	0.92
9123721--9123858	74	1.9	74	90	3	224	35	10	8	44	1.70
9125689--9125722	10	3.3	10	87	4	50	5	0	8	85	0.75
9140859--9140911	18	2.7	19	74	11	54	26	0	1	71	0.96
9140893--9140933	15	2.8	15	88	3	57	39	0	4	56	1.21
9141099--9141309	108	2.0	108	91	1	343	46	3	11	37	1.57
9148605--9148670	31	2.1	31	85	0	87	36	3	16	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9158292--9158331	21	2.0	20	85	5	53	0	20	15	65	1.28
9175907--9175955	25	2.0	25	87	0	71	8	12	20	59	1.58
9181408--9181442	2	17.5	2	100	0	70	0	51	0	48	1.00
9202227--9202324	29	3.2	29	72	22	78	58	1	1	39	1.12
9202227--9202337	28	3.9	29	72	19	90	55	0	0	42	1.12
9202225--9202334	57	1.9	58	85	10	154	56	0	0	41	1.12
9202237--9202361	58	2.1	59	81	11	150	55	1	0	43	1.09
9212442--9212479	2	19.0	2	100	0	76	50	0	0	50	1.00
9226762--9226804	16	2.7	16	74	0	50	55	0	9	34	1.32
9247016--9247042	2	13.5	2	100	0	54	51	0	0	48	1.00
9253149--9253196	2	24.0	2	82	0	60	47	2	4	45	1.33
9260404--9260452	24	2.0	24	96	0	89	32	14	20	32	1.92
9270276--9270348	27	3.0	23	71	22	69	46	0	1	52	1.09
9270275--9270351	13	6.1	13	68	17	54	46	0	1	51	1.09
9270296--9270385	29	3.1	29	82	7	85	42	3	0	54	1.17
9270688--9270731	22	2.0	22	82	8	54	50	2	0	47	1.13
9270772--9270810	9	4.1	10	87	9	55	58	0	0	41	0.98
9270779--9270817	19	2.0	20	90	5	62	58	0	0	41	0.98
9271005--9271096	20	4.8	20	73	24	90	47	2	1	48	1.20
9282784--9282808	12	2.1	12	100	0	50	16	0	0	84	0.63
9289785--9289827	22	2.0	22	86	9	61	48	2	6	41	1.43
9295891--9295937	23	2.0	23	84	15	62	34	2	0	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9295912--9295946	17	2.1	17	88	0	52	37	0	0	62	0.95
9295979--9296012	14	2.4	14	85	0	50	20	0	2	76	0.92
9296029--9296062	15	2.3	15	85	14	52	50	0	0	50	1.00
9296030--9296064	16	2.2	16	95	5	63	48	0	0	51	1.00
9296619--9296685	30	2.2	30	86	5	91	55	0	13	31	1.39
9296831--9297805	196	5.0	196	90	3	1486	29	14	10	44	1.80
9296865--9297805	384	2.4	388	90	2	1469	29	14	10	44	1.80
9300403--9300478	34	2.2	34	81	4	91	43	11	10	34	1.76
9327862--9327942	34	2.4	34	75	4	83	28	12	18	40	1.87
9355566--9355592	13	2.1	13	100	0	54	7	48	14	29	1.71
9360156--9360185	2	15.5	2	93	6	53	50	0	0	50	1.00
9368779--9368849	35	2.1	33	84	5	88	39	25	9	25	1.86
9427790--9427823	3	11.3	3	100	0	68	0	32	0	67	0.91
9436791--9436817	2	13.5	2	100	0	54	51	0	0	48	1.00
9448555--9448594	18	2.2	18	95	0	71	12	2	0	85	0.71
9448750--9448788	18	2.2	17	86	4	51	30	2	12	53	1.52
9456220--9456275	22	2.5	22	77	8	60	46	0	1	51	1.11
9457054--9457093	18	2.2	19	86	4	55	22	0	0	77	0.77
9457752--9457830	31	2.6	30	80	7	81	32	12	2	51	1.53
9459051--9459083	17	2.0	17	94	5	59	54	0	3	42	1.15
9459050--9459092	17	2.5	17	81	11	52	55	0	2	41	1.12
9465676--9465738	32	2.0	32	90	0	99	44	19	7	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9472682--9472760	38	2.1	38	100	0	158	30	17	30	21	1.96
9477106--9477165	28	2.1	28	81	9	68	56	10	3	30	1.48
9479578--9479608	2	16.0	2	93	6	55	51	0	48	0	1.00
9487121--9487176	27	2.1	27	82	0	67	37	8	5	48	1.58
9502311--9502382	31	2.4	30	79	9	85	44	0	0	55	0.99
9503150--9503190	21	2.1	18	86	13	55	29	2	7	60	1.36
9506769--9506909	69	2.0	69	98	0	273	31	7	21	39	1.82
9522149--9522186	2	19.0	2	88	0	58	0	44	0	55	0.99
9529850--9529890	3	13.7	3	100	0	82	65	0	0	34	0.93
9530807--9530851	22	2.0	22	100	0	90	37	4	17	40	1.70

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