genome.fa.s4.2.7.7.80.10.50.1000.20.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  20  of  26  ( 3073 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)
8157981--8158018	2	19.0	2	88	0	58	52	2	0	44	1.14
8159204--8159285	33	2.5	33	82	6	94	68	0	3	28	1.06
8159229--8159298	33	2.3	29	76	19	72	67	1	2	28	1.14
8164916--8164976	29	2.2	29	88	5	90	37	8	14	39	1.76
8164916--8165086	26	6.1	27	71	16	102	33	9	13	42	1.77
8164916--8165011	31	3.3	29	82	5	97	37	11	12	38	1.79
8165128--8165231	45	2.3	45	81	0	127	30	14	17	37	1.89
8165367--8165400	2	17.0	2	100	0	68	50	0	0	50	1.00
8179755--8179783	2	14.5	2	100	0	58	51	0	0	48	1.00
8185538--8185566	12	2.5	12	94	5	51	0	0	6	93	0.36
8198183--8198282	45	2.2	45	85	5	132	49	10	6	35	1.61
8203920--8203966	2	23.5	2	100	0	94	48	0	0	51	1.00
8204621--8204656	3	12.0	3	87	0	54	0	38	0	61	0.96
8223069--8223272	108	1.9	104	84	9	270	60	1	6	31	1.31
8227681--8227734	27	2.0	27	85	0	72	38	1	0	59	1.08
8227848--8227942	30	3.3	29	73	12	70	51	1	3	44	1.24
8253292--8253321	1	30.0	1	100	0	60	0	0	100	0	0.00
8258100--8258156	23	2.5	21	76	18	51	54	0	1	43	1.10
8258152--8258217	31	2.2	29	83	5	78	25	4	6	63	1.37
8258873--8258928	15	3.7	15	77	15	62	46	5	0	48	1.25
8262726--8262759	17	2.0	17	94	0	59	32	11	11	44	1.77
8262997--8263060	27	2.4	27	84	5	85	35	12	23	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8263033--8263078	24	2.0	24	86	4	67	32	23	17	26	1.97
8277787--8277858	2	36.0	2	97	0	135	50	0	48	1	1.09
8279101--8279130	8	3.8	8	95	0	51	70	0	0	30	0.88
8279101--8279134	8	4.2	8	96	0	50	67	0	0	32	0.91
8279155--8279209	28	2.0	29	89	7	87	65	0	3	30	1.10
8281999--8282088	45	2.0	45	82	4	110	33	13	16	36	1.88
8286960--8286986	8	3.4	8	100	0	54	0	0	33	66	0.92
8290957--8291007	22	2.5	20	78	18	59	33	0	0	66	0.92
8290970--8291008	19	2.1	19	85	9	53	33	0	0	66	0.92
8299398--8299454	27	2.1	27	100	0	114	19	14	28	38	1.90
8301760--8301804	2	23.0	2	95	4	83	48	0	0	51	1.00
8310284--8310376	46	2.0	46	100	0	186	27	19	19	33	1.96
8313436--8313479	11	4.3	10	80	13	54	20	2	0	77	0.88
8313427--8313479	20	2.8	20	78	16	58	20	1	0	77	0.87
8313427--8313479	21	2.5	21	81	6	63	20	1	0	77	0.87
8313427--8313480	19	2.8	20	80	5	67	22	1	0	75	0.89
8326560--8326659	51	2.0	51	97	0	191	46	2	17	35	1.59
8345031--8345076	18	2.6	18	89	0	74	39	15	0	45	1.46
8349254--8349283	2	15.0	2	100	0	60	0	50	0	50	1.00
8379519--8379545	2	13.5	2	100	0	54	48	0	51	0	1.00
8394808--8394833	2	13.0	2	100	0	52	50	0	0	50	1.00
8409864--8409899	3	12.0	3	87	0	54	2	2	33	61	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8413588--8413617	3	10.0	3	92	0	51	3	0	63	33	1.11
8434866--8434907	15	2.8	16	82	10	54	80	0	14	4	0.86
8434871--8434907	19	2.0	18	94	5	65	81	0	16	2	0.81
8434871--8434907	18	2.0	19	89	5	58	81	0	16	2	0.81
8434924--8434988	34	2.0	33	85	8	89	47	1	0	50	1.10
8435531--8435571	18	2.2	19	83	12	50	60	2	4	31	1.30
8444201--8444301	52	1.9	52	93	0	175	39	22	13	23	1.90
8450638--8450680	2	21.5	2	87	0	59	53	0	44	2	1.13
8466532--8466587	29	1.9	29	92	0	94	33	28	16	21	1.95
8468877--8468995	63	1.9	63	89	3	186	29	21	23	26	1.99
8479802--8479861	30	2.0	29	81	15	70	53	8	21	16	1.69
8487334--8487503	89	1.9	89	90	0	268	34	23	25	17	1.96
8488421--8488466	2	23.0	2	90	0	74	0	47	2	50	1.13
8492415--8492484	30	2.3	32	80	9	83	51	0	1	47	1.09
8494108--8494150	22	1.9	22	85	4	59	27	4	2	65	1.25
8496027--8496070	2	22.5	2	95	4	81	47	0	0	52	1.00
8498662--8498696	4	8.8	4	100	0	70	25	0	22	51	1.48
8502473--8502553	30	2.7	30	82	3	92	41	19	18	19	1.90
8512635--8512678	22	2.0	22	81	0	52	79	9	6	4	1.04
8523575--8523604	15	2.1	14	93	6	51	76	0	23	0	0.78
8548080--8548160	26	3.1	26	75	8	83	49	0	2	48	1.14
8548079--8548199	52	2.3	51	79	13	122	47	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8550998--8551035	14	2.6	16	80	20	55	42	0	2	55	1.14
8552584--8552617	10	3.8	9	88	11	52	79	2	0	17	0.86
8556486--8556560	29	2.5	31	85	10	111	36	0	1	62	1.04
8558430--8559044	190	3.2	190	81	3	704	38	8	13	39	1.75
8558434--8559033	126	4.8	126	84	4	715	38	8	12	40	1.74
8558422--8559163	64	11.7	64	80	5	639	38	8	12	40	1.74
8559591--8559644	23	2.2	25	87	12	78	48	0	0	51	1.00
8565565--8565603	20	2.0	20	89	0	60	53	0	0	46	1.00
8565627--8565667	21	2.0	20	85	4	55	39	2	4	53	1.35
8569676--8569746	26	2.7	26	83	14	92	39	8	7	45	1.62
8570749--8570775	6	4.5	6	100	0	54	37	29	18	14	1.91
8577803--8577828	2	13.0	2	100	0	52	0	50	0	50	1.00
8580034--8580093	21	2.9	21	75	5	59	45	18	10	26	1.81
8580127--8580176	22	2.3	22	85	0	73	50	14	8	28	1.70
8581402--8581426	2	12.5	2	100	0	50	52	0	0	48	1.00
8585133--8585192	31	1.9	31	89	0	93	46	13	8	31	1.72
8585394--8585450	24	2.4	24	82	11	64	68	1	5	24	1.20
8588393--8588431	21	1.9	21	89	5	62	0	7	7	84	0.77
8598519--8598606	39	2.3	39	82	4	106	6	20	25	47	1.74
8598540--8598624	39	2.2	39	87	8	120	3	16	28	51	1.61
8601134--8601174	21	2.0	21	86	9	59	65	0	0	34	0.93
8614153--8614182	15	2.0	15	93	0	51	43	6	6	43	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8618742--8618773	2	16.0	2	100	0	64	50	0	0	50	1.00
8620075--8620135	28	2.2	28	87	0	86	39	4	8	47	1.55
8620133--8620180	24	2.0	25	88	8	73	33	8	10	47	1.68
8620089--8620155	30	2.3	30	87	5	93	38	4	11	44	1.62
8620356--8620406	15	3.6	14	80	19	61	43	1	1	52	1.23
8621795--8621823	2	14.5	2	100	0	58	48	0	0	51	1.00
8624525--8624584	18	3.3	18	76	6	68	31	5	36	26	1.78
8624533--8624595	18	3.5	18	80	4	74	30	6	34	28	1.82
8626277--8626452	27	6.7	26	71	19	107	32	0	1	65	1.03
8626246--8626341	33	2.9	33	71	10	81	35	0	1	63	1.01
8626212--8626357	64	2.2	67	80	11	162	34	0	1	63	1.03
8626273--8626367	17	5.3	19	69	17	62	33	0	0	66	0.92
8626318--8626453	54	2.5	53	77	16	129	35	0	2	62	1.08
8636182--8636208	14	1.9	14	100	0	54	22	3	7	66	1.33
8636381--8636411	16	1.9	16	100	0	62	51	0	3	45	1.17
8655906--8656078	86	2.0	86	93	0	292	44	8	15	31	1.77
8660166--8660243	5	15.2	5	72	19	54	71	1	1	25	1.01
8660181--8660351	30	5.6	30	68	18	79	66	1	3	28	1.18
8660264--8660367	34	2.9	36	73	11	106	66	0	3	28	1.16
8660328--8660519	57	3.4	56	72	17	193	60	1	5	32	1.28
8660399--8660462	15	4.0	16	74	20	62	67	0	1	31	1.00
8660307--8660531	110	2.0	113	92	5	381	61	1	4	32	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8660681--8660734	15	3.6	15	97	0	99	33	25	7	33	1.84
8661213--8661256	22	2.0	22	82	8	54	15	11	0	72	1.11
8661263--8661413	27	5.4	27	76	9	122	30	13	15	40	1.86
8661280--8661422	27	5.0	29	75	10	125	29	13	16	41	1.86
8661285--8661418	57	2.3	57	82	8	166	29	14	16	39	1.88
8661434--8661511	30	2.6	30	78	6	86	38	19	7	34	1.80
8662460--8662507	17	2.8	17	75	12	53	60	0	6	33	1.22
8663367--8663398	4	7.8	4	96	3	55	0	21	0	78	0.76
8666823--8666854	2	15.5	2	93	6	55	50	3	0	46	1.17
8685846--8686052	107	2.0	103	84	7	274	41	17	11	29	1.84

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