genome.fa.s8.2.7.7.80.10.50.1000.14.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  14  of  19  ( 2280 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)
5857383--5857443	24	2.5	24	94	0	104	45	18	16	19	1.85
5857506--5857535	12	2.5	12	88	0	51	90	0	10	0	0.47
5857603--5857628	3	8.7	3	100	0	52	0	65	0	34	0.93
5857585--5857647	9	7.0	9	87	0	63	0	49	1	49	1.10
5859426--5859488	3	21.0	3	86	0	81	7	33	0	58	1.27
5859426--5859488	12	5.2	12	92	0	90	7	33	0	58	1.27
5860025--5860073	20	2.5	19	81	18	57	32	4	0	63	1.13
5865706--5865756	4	12.8	4	100	0	102	50	23	0	25	1.49
5879792--5879826	6	5.8	6	96	0	61	31	0	20	48	1.50
5894513--5894573	30	2.0	30	90	0	95	49	13	9	27	1.73
5896614--5896672	22	2.6	22	89	5	82	44	23	6	25	1.78
5896614--5896680	22	3.0	22	86	4	71	38	22	10	28	1.87
5909696--5909752	27	2.1	27	84	12	73	52	0	1	45	1.11
5909807--5909843	16	2.4	16	86	13	51	51	2	2	43	1.30
5910133--5910166	16	2.2	15	89	5	50	58	0	0	41	0.98
5920782--5920878	21	4.6	21	75	0	95	17	5	53	23	1.64
5920782--5920878	42	2.3	42	92	0	158	17	5	53	23	1.64
5920844--5920910	30	2.3	29	86	2	89	13	2	61	22	1.46
5920875--5920973	23	4.5	21	72	11	74	17	4	57	21	1.56
5920874--5920992	21	5.6	21	73	6	78	17	4	56	21	1.58
5920961--5921126	27	7.1	24	69	21	102	18	5	54	22	1.64
5920899--5921083	21	8.6	21	71	13	81	18	4	54	21	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5920875--5921015	42	3.3	43	79	4	124	18	5	54	21	1.64
5920919--5921083	89	1.8	90	81	13	207	18	4	54	21	1.62
5920941--5921116	68	2.6	68	81	4	196	18	5	53	22	1.63
5921056--5921126	24	2.9	26	78	16	71	18	5	54	21	1.63
5921077--5921156	21	3.7	21	81	5	70	12	7	58	21	1.58
5921083--5921134	24	2.2	24	89	0	77	13	7	57	21	1.61
5926270--5926330	27	2.2	28	80	11	72	32	0	8	59	1.27
5932982--5933032	17	3.4	17	65	30	51	17	11	11	58	1.62
5932973--5933030	28	2.1	28	100	0	116	18	10	13	56	1.65
5943822--5943851	2	15.0	2	100	0	60	0	50	0	50	1.00
5944111--5944135	3	8.3	3	100	0	50	0	32	0	68	0.90
5948811--5949066	129	2.0	130	84	3	338	30	22	11	35	1.90
5961133--5961163	16	1.9	16	93	0	53	6	0	12	80	0.89
5962521--5962560	17	2.4	17	91	0	62	45	2	2	50	1.28
5962824--5962964	75	1.9	75	92	1	239	44	7	6	41	1.57
5963894--5963948	22	2.5	22	79	8	58	52	0	0	47	1.00
5965090--5965223	41	3.2	42	82	5	146	62	1	17	18	1.40
5977688--5977733	17	2.5	19	86	10	60	43	6	2	47	1.41
5979979--5980202	105	2.1	105	91	1	360	41	18	4	35	1.72
5996973--5997006	2	17.0	2	93	0	59	47	0	2	50	1.16
6000652--6000751	49	2.0	49	96	0	182	16	33	13	38	1.86
6001652--6001700	25	2.0	25	88	8	73	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6001666--6001722	19	2.9	20	82	10	64	49	0	0	50	1.00
6012609--6012689	26	3.1	26	89	0	126	41	27	14	16	1.87
6023213--6023437	121	1.9	120	88	0	342	31	21	16	31	1.95
6025332--6025362	16	1.9	16	93	0	53	6	12	3	77	1.08
6040957--6041161	36	5.7	36	84	4	225	20	35	19	24	1.96
6041026--6041184	72	2.2	72	85	2	212	20	37	16	25	1.93
6042886--6042927	21	2.0	21	95	0	75	38	14	7	40	1.73
6053809--6053846	16	2.2	18	90	9	62	60	18	15	5	1.53
6061247--6061566	171	1.9	171	84	5	441	36	14	12	36	1.84
6067671--6067709	15	2.6	15	84	8	53	51	0	41	7	1.31
6069017--6069107	46	2.0	46	93	0	155	35	18	23	23	1.96
6070415--6070464	2	25.0	2	100	0	100	50	0	50	0	1.00
6075379--6075548	86	2.0	86	88	4	254	30	12	13	43	1.82
6091599--6091632	6	5.7	6	92	0	59	0	20	29	50	1.49
6102622--6102659	16	2.6	14	84	15	58	73	0	26	0	0.83
6102612--6102663	20	2.6	20	85	11	63	73	0	26	0	0.84
6102619--6102663	5	9.2	5	88	7	58	75	0	24	0	0.80
6102622--6102663	15	2.8	15	89	10	68	73	0	26	0	0.83
6116883--6116938	26	2.2	25	90	6	87	44	0	1	53	1.11
6117016--6117057	16	2.5	17	84	11	59	54	0	0	45	0.99
6117505--6117547	20	2.1	21	91	4	70	48	2	9	39	1.48
6122189--6122214	8	3.2	8	100	0	52	50	26	23	0	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6138776--6138822	21	2.2	21	78	14	53	46	12	31	8	1.72
6140435--6140483	21	2.2	23	78	10	57	55	6	0	38	1.25
6145249--6147439	439	5.0	438	91	1	3386	31	11	25	32	1.91
6145249--6147439	877	2.5	874	90	2	3386	31	11	25	32	1.91
6156157--6156231	18	3.9	19	84	7	98	73	0	0	26	0.84
6158530--6158562	2	16.5	2	100	0	66	0	48	0	51	1.00
6176517--6176546	15	2.0	15	100	0	60	20	20	13	46	1.83
6180924--6180954	2	15.5	2	93	0	53	45	0	3	51	1.17
6183468--6183642	93	1.9	92	87	5	255	57	2	5	34	1.35
6183824--6183859	18	1.9	19	94	5	65	44	0	0	55	0.99
6184419--6184447	7	4.1	7	100	0	58	13	0	44	41	1.44
6184577--6184623	19	2.4	20	79	13	53	44	8	0	46	1.33
6200135--6200216	44	1.9	42	90	5	128	56	7	2	34	1.40
6203147--6203175	12	2.3	13	94	5	51	44	3	0	51	1.18
6203248--6203316	20	3.5	19	80	9	68	18	0	5	75	1.00
6203266--6203311	21	2.2	21	88	7	67	19	0	2	78	0.86
6203265--6203309	24	1.9	23	86	4	63	20	0	2	77	0.87
6204142--6204178	2	18.5	2	100	0	74	51	0	0	48	1.00
6208937--6209513	78	7.4	78	82	4	587	28	19	23	27	1.99
6210148--6210184	14	2.6	14	91	0	56	48	8	2	40	1.47
6210144--6210184	12	3.4	12	86	0	55	48	7	2	41	1.44
6212115--6212141	2	13.5	2	100	0	54	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)
6212163--6212203	19	2.2	19	86	0	55	48	0	0	51	1.00
6213638--6213866	45	5.2	45	78	4	225	31	16	20	31	1.95
6213656--6213864	90	2.4	88	86	3	285	31	14	21	32	1.94
6226653--6226739	33	2.6	33	83	3	104	22	45	3	27	1.68
6226653--6226754	39	2.7	38	81	4	118	22	48	3	25	1.68
6257817--6257866	24	2.1	24	88	0	73	44	0	0	56	0.99
6257811--6257869	26	2.3	25	80	14	66	45	0	0	54	0.99
6260094--6260134	17	2.4	18	88	8	59	43	2	0	53	1.13
6292835--6292860	2	13.0	2	100	0	52	0	50	0	50	1.00
6301811--6301899	40	2.3	38	81	7	99	11	38	3	47	1.56
6302792--6302829	20	1.9	20	89	10	60	42	0	0	57	0.98
6304695--6304733	15	2.6	15	91	0	60	25	0	2	71	0.98
6304947--6305065	27	4.3	27	67	14	73	19	10	50	20	1.76
6317297--6317323	3	9.0	3	100	0	54	66	0	33	0	0.92
6322826--6322859	18	1.9	18	88	5	52	50	2	0	47	1.16
6322823--6322868	19	2.5	18	83	13	58	47	2	0	50	1.13
6325337--6325391	28	2.0	28	100	0	110	25	32	7	34	1.83
6333503--6333537	16	2.2	16	90	5	54	60	0	0	40	0.97
6343115--6343193	30	2.7	29	81	12	83	10	37	1	50	1.44
6343104--6343187	12	6.8	12	71	12	53	11	35	1	51	1.47
6343132--6343187	18	3.1	18	84	0	67	12	37	0	50	1.41
6353247--6353306	28	2.1	28	84	3	75	35	1	1	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6361663--6361731	33	2.1	33	81	10	88	72	1	1	24	1.01
6361686--6361815	50	2.5	51	75	10	131	67	0	2	30	1.03
6361705--6361815	55	2.0	55	81	6	127	68	0	1	29	1.00
6361765--6361851	33	2.6	33	87	5	113	68	0	1	29	0.96
6361760--6361846	40	2.2	39	81	6	95	70	0	1	28	0.95
6364116--6364201	39	2.2	39	85	0	109	55	6	1	36	1.34
6369217--6369340	59	2.1	59	95	0	230	30	11	16	41	1.83
6369635--6369735	25	4.0	26	70	6	82	36	16	6	39	1.76
6369852--6369989	53	2.5	54	76	5	143	32	13	13	41	1.82
6370509--6370550	18	2.4	18	84	4	50	64	0	0	35	0.94

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