genome.fa.s17.2.7.7.80.10.50.1000.1.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  1  of  10  ( 1158 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)
1100--1452	170	2.1	171	80	7	380	35	15	11	37	1.84
1307--2293	340	2.9	331	78	7	788	34	13	11	36	1.81
1653--2133	170	2.9	162	71	12	217	36	13	11	37	1.81
715--2504	171	10.5	169	72	5	936	34	14	10	36	1.81
4529--5532	171	5.9	170	74	5	677	36	12	12	34	1.82
14831--14892	21	2.8	22	83	14	74	41	4	17	35	1.71
22847--22928	25	3.2	26	79	8	87	29	34	18	18	1.94
24840--24882	22	2.0	22	86	9	61	9	6	11	72	1.29
29045--29207	77	2.1	76	90	1	254	41	7	11	39	1.71
40329--40475	72	2.0	72	96	0	267	34	8	31	24	1.86
52950--52989	21	1.9	21	84	0	53	37	10	12	40	1.77
52951--53129	80	2.2	81	84	2	243	35	13	13	36	1.85
58260--58364	54	1.9	54	90	0	165	48	4	9	37	1.57
58448--58486	19	2.1	19	90	0	60	58	0	2	38	1.12
67648--67677	15	2.0	15	93	0	51	50	0	0	50	1.00
67647--67704	21	2.7	21	75	17	57	48	0	0	51	1.00
68579--68609	16	1.9	16	100	0	62	48	0	6	45	1.28
69343--69392	24	2.0	24	85	11	66	48	4	0	48	1.20
73757--73792	12	2.9	13	88	12	58	41	16	41	0	1.48
75416--75608	35	5.5	35	80	3	235	33	9	14	43	1.77
97413--97455	21	2.0	21	86	8	61	2	37	0	60	1.10
103954--104064	31	3.5	31	84	6	118	50	6	18	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106480--106559	40	2.0	41	85	7	110	17	17	25	40	1.91
106855--106911	21	2.7	21	77	0	60	28	19	17	35	1.94
111521--111569	20	2.5	20	96	0	89	38	10	22	28	1.87
118004--118110	31	3.5	30	75	8	90	38	10	18	32	1.85
118004--118138	61	2.2	62	80	9	143	38	11	17	32	1.85
118056--118217	31	5.3	31	70	13	97	39	14	19	26	1.90
123076--123142	20	3.3	20	77	4	71	44	16	17	20	1.86
135596--135628	12	2.8	12	95	0	57	36	24	15	24	1.93
151782--151875	35	2.7	34	79	9	100	30	11	25	31	1.91
167422--167655	68	3.4	68	82	1	254	38	9	17	34	1.82
171450--171540	43	2.1	43	81	4	112	54	14	12	18	1.70
174451--174520	28	2.5	28	83	0	77	40	17	4	38	1.69
175658--175723	25	2.6	25	80	0	69	34	15	15	34	1.88
190022--190074	27	2.0	27	88	7	81	58	0	3	37	1.16
190269--190295	13	2.1	13	100	0	54	51	0	0	48	1.00
190325--190364	20	2.0	20	85	5	53	37	0	2	60	1.11
190433--190488	23	2.4	23	85	5	78	44	1	0	53	1.11
190438--190496	23	2.4	24	72	18	59	40	1	0	57	1.09
190302--190572	135	2.0	136	88	4	404	34	6	1	57	1.36
207531--207642	42	2.6	42	87	1	152	50	3	3	41	1.37
219311--219348	20	1.9	20	94	0	67	76	5	15	2	1.08
234347--234394	18	2.7	18	96	0	87	45	8	16	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
238004--238036	17	2.0	17	88	5	50	72	0	27	0	0.85
244715--244774	25	2.4	25	82	0	75	30	16	28	25	1.97
248256--248471	68	3.2	67	79	7	220	34	17	11	36	1.85
251291--251328	16	2.4	16	90	0	58	34	13	10	42	1.78
253735--253813	7	10.1	8	76	10	67	59	2	37	0	1.11
262955--263027	37	2.0	37	83	5	94	31	21	10	35	1.88
263057--263172	61	1.9	62	82	5	146	32	20	12	33	1.91
265979--266046	30	2.3	30	92	0	109	20	32	30	16	1.94
273571--273599	14	2.1	14	100	0	58	37	13	13	34	1.85
278516--278575	13	4.3	13	80	14	59	3	25	0	71	1.01
278514--278553	21	1.9	21	84	0	53	2	27	0	70	1.01
281035--281191	69	2.3	69	80	0	179	29	17	21	30	1.97
285731--285914	72	2.5	73	80	3	210	38	14	20	26	1.91
297822--297985	73	2.2	73	81	4	188	37	17	18	25	1.93
311555--311591	11	3.6	11	79	20	53	32	0	0	67	0.91
312431--312468	20	1.9	20	88	0	58	42	2	0	55	1.14
336657--336704	7	6.9	7	77	17	55	68	0	31	0	0.90
336659--336701	21	2.0	22	90	4	70	65	0	34	0	0.93
337593--337617	13	1.9	13	100	0	50	56	4	0	40	1.18
338013--338074	25	2.6	26	75	14	62	27	12	30	29	1.93
346688--346727	16	2.5	17	84	15	59	2	27	0	70	1.01
347868--347935	17	3.8	17	72	11	64	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347867--347930	20	3.3	20	67	20	64	45	0	0	54	0.99
347858--347933	37	2.1	36	97	2	143	43	0	0	56	0.99
348723--348760	18	2.1	18	90	9	60	36	0	5	57	1.21
348937--349004	22	3.1	21	76	23	77	17	20	13	48	1.80
348925--349026	44	2.3	43	86	3	150	19	17	14	48	1.82
351440--351889	240	1.9	240	96	0	837	38	17	12	31	1.87
354885--354942	27	2.2	26	84	6	73	27	32	17	22	1.96
360567--360611	24	1.9	23	95	4	81	64	2	33	0	1.06
364610--364651	20	2.1	20	83	16	52	64	7	0	28	1.20
367743--367796	6	8.8	6	85	4	63	18	3	1	75	1.03
367749--367796	19	2.6	18	83	6	60	18	4	0	77	0.93
367744--367796	25	2.1	25	85	0	70	16	3	1	77	1.01
368376--368423	25	1.9	25	83	8	62	64	6	14	14	1.47
375365--375406	20	2.0	21	86	4	59	64	0	33	2	1.07
380836--380867	12	2.5	13	95	5	57	37	0	15	46	1.46
387695--387746	21	2.4	22	80	3	61	30	21	11	36	1.89
387834--387910	22	3.5	22	78	3	84	33	20	7	37	1.82
387832--387931	22	4.6	22	77	6	80	33	24	8	35	1.84
387832--387931	43	2.3	42	82	3	128	33	24	8	35	1.84
387611--387909	162	1.8	162	85	5	424	30	18	12	39	1.87
387834--387932	21	4.6	21	77	6	83	33	23	9	34	1.86
387901--387957	22	2.6	22	83	2	71	38	29	8	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387943--388171	120	1.9	120	89	0	352	31	18	11	37	1.87
388020--388069	22	2.3	22	83	10	59	36	26	10	28	1.88
388041--388266	99	2.3	97	78	8	251	32	20	10	35	1.87
388238--388275	20	1.9	20	84	10	51	39	23	7	28	1.83
388259--388308	21	2.3	22	82	3	57	38	22	8	32	1.83
388420--388569	51	2.9	51	87	6	189	24	12	24	39	1.90
388721--388768	18	2.8	17	84	12	62	18	12	2	66	1.33
389931--389972	19	2.2	20	87	12	61	9	0	40	50	1.35
396057--396115	25	2.4	25	82	0	73	25	15	35	23	1.94
412726--412825	44	2.3	43	81	6	112	24	20	15	41	1.90
416174--416249	20	3.8	20	98	0	143	40	15	14	28	1.87
416544--416620	37	2.1	38	90	7	122	44	18	6	31	1.75
421257--421318	33	1.9	32	83	9	81	40	3	0	56	1.15
420339--421466	572	2.0	572	91	1	1821	30	19	7	42	1.78
421976--422018	22	2.0	22	95	0	77	34	16	11	37	1.85
422854--422888	18	1.9	18	94	0	61	20	2	0	77	0.90
427238--427316	21	3.7	22	84	3	108	31	3	12	51	1.57
427356--427403	21	2.3	21	88	0	78	33	4	16	45	1.67
427567--427646	20	4.0	20	85	8	99	41	8	12	37	1.74
430615--430728	57	2.0	57	96	0	210	28	7	23	40	1.82
432070--432094	13	1.9	13	100	0	50	32	16	16	36	1.90
435767--435815	4	13.0	4	76	20	52	77	0	22	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435767--435811	16	2.6	17	89	6	65	77	0	22	0	0.76
435772--435815	21	2.0	21	87	12	63	79	0	20	0	0.73
436780--436827	21	2.3	21	82	7	62	25	10	25	39	1.87
436943--436983	21	2.0	21	90	0	64	26	4	17	51	1.65
436969--437026	22	2.7	22	84	7	66	24	1	15	58	1.46
437073--437113	21	2.0	21	90	0	64	24	7	24	43	1.79
437108--437158	21	2.4	21	90	6	77	31	5	7	54	1.53
437704--437771	32	2.2	31	83	2	82	30	8	23	36	1.85
446000--446074	21	3.6	21	85	3	98	41	17	16	25	1.89
446254--446278	12	2.1	12	100	0	50	68	0	16	16	1.22

Tables:   1   2   3   4   5   6   7   8   9   10