genome.fa.s4.2.7.7.80.10.50.1000.11.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  11  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)
3946249--3946313	29	2.4	28	87	10	91	30	12	12	44	1.79
3946264--3946321	29	2.1	27	93	6	98	29	12	13	44	1.80
3948944--3948982	18	2.1	19	85	4	53	53	2	5	38	1.37
3963645--3963738	48	2.0	48	82	4	118	26	11	26	35	1.91
3971059--3971257	27	7.3	27	72	8	134	41	10	9	39	1.71
3971061--3971257	55	3.6	53	78	9	175	41	9	9	39	1.71
3971048--3971257	82	2.5	82	79	0	213	40	9	9	40	1.70
3971791--3971833	2	21.5	2	100	0	86	51	0	0	48	1.00
3976858--3976951	46	2.0	46	97	0	179	41	12	6	39	1.69
3979947--3979980	15	2.3	15	90	10	52	55	0	0	44	0.99
3982226--3982321	48	2.0	47	90	8	149	43	14	11	30	1.81
3983390--3983429	21	1.9	21	94	0	71	42	25	7	25	1.80
3996691--3996759	26	2.7	26	80	6	79	37	4	14	43	1.65
3996745--3996783	21	1.9	19	90	10	60	43	5	2	48	1.38
3996807--3996858	18	3.0	18	91	5	81	48	0	3	48	1.20
4003575--4003610	18	2.0	18	94	0	63	27	0	2	69	1.02
4009729--4009761	2	16.5	2	100	0	66	48	0	0	51	1.00
4011065--4011097	15	2.1	16	88	11	50	12	0	6	81	0.85
4014294--4014369	39	1.9	40	86	2	109	46	18	11	23	1.82
4015282--4015306	13	1.9	13	100	0	50	32	16	16	36	1.90
4023581--4023634	28	1.9	28	88	0	81	29	3	7	59	1.42
4025829--4025859	12	2.5	12	94	5	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4029025--4029049	2	12.5	2	100	0	50	52	48	0	0	1.00
4034855--4034898	20	2.3	19	84	4	52	20	4	2	72	1.13
4038988--4039098	54	2.1	54	98	0	213	40	8	23	27	1.83
4041884--4042044	84	1.9	84	89	0	250	27	15	14	42	1.86
4047284--4047340	26	2.2	25	75	9	60	59	1	3	35	1.25
4047515--4047539	3	8.3	3	100	0	50	68	0	0	32	0.90
4048370--4048411	21	2.1	20	82	8	50	54	7	0	38	1.28
4052339--4052386	22	2.2	22	84	0	60	29	4	10	56	1.52
4052441--4052471	2	15.5	2	93	0	53	48	3	0	48	1.17
4056164--4056251	45	2.0	45	93	0	149	36	27	19	17	1.94
4058766--4058790	3	8.3	3	100	0	50	36	0	0	64	0.94
4059119--4059174	29	1.9	29	88	0	85	58	0	3	37	1.15
4059174--4059219	23	2.0	23	83	8	58	43	0	2	54	1.12
4059215--4059242	3	9.3	3	100	0	56	67	0	0	32	0.91
4059273--4059597	161	2.0	163	98	1	636	33	11	16	38	1.84
4062094--4062122	2	14.5	2	100	0	58	51	0	0	48	1.00
4064531--4064665	67	2.0	66	82	1	162	28	9	16	45	1.78
4074987--4075020	5	7.2	5	93	6	54	79	0	0	20	0.73
4074987--4075029	18	2.4	18	88	11	63	81	0	0	18	0.69
4074987--4075025	13	2.9	14	88	7	55	79	0	0	20	0.73
4078860--4078891	5	6.8	5	92	7	50	81	0	0	18	0.70
4081428--4081686	138	1.9	138	86	3	378	47	4	7	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4085228--4085260	2	16.5	2	100	0	66	48	0	0	51	1.00
4086300--4086337	17	2.3	17	86	4	51	55	2	5	36	1.37
4105333--4105366	17	2.0	17	88	0	50	14	26	17	41	1.88
4109381--4109410	16	1.9	16	93	6	53	13	23	3	60	1.48
4123886--4124012	49	2.6	49	89	2	182	28	18	13	39	1.89
4124386--4124683	81	3.7	81	90	1	458	41	6	10	42	1.64
4124386--4124683	162	1.9	160	92	2	508	41	6	10	42	1.64
4124536--4124660	38	3.2	38	61	10	88	41	5	9	43	1.61
4125452--4125530	39	2.0	39	90	4	124	32	26	12	27	1.93
4125833--4126084	76	3.3	75	82	2	227	26	16	17	38	1.91
4129549--4129675	64	2.0	64	85	3	175	20	14	10	54	1.69
4138011--4138044	15	2.3	15	90	10	52	73	0	5	20	1.04
4138064--4138102	20	2.0	20	90	10	62	58	2	0	38	1.12
4144951--4144997	23	2.0	23	91	0	76	21	8	6	63	1.44
4145578--4145727	26	5.8	26	66	9	92	39	12	14	33	1.84
4145579--4145724	51	2.9	51	83	2	195	40	13	13	33	1.82
4152202--4152235	18	1.9	18	88	5	52	17	5	5	70	1.28
4152818--4152870	26	2.0	27	88	3	81	45	7	11	35	1.69
4152942--4153004	27	2.3	27	89	8	92	49	11	7	31	1.67
4152934--4153002	27	2.4	29	83	11	90	46	11	8	33	1.71
4153033--4153338	125	2.4	128	78	5	309	45	8	12	33	1.72
4153121--4153346	126	1.8	125	80	6	278	46	7	10	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4154220--4155113	228	3.9	227	81	1	831	28	25	25	19	1.99
4156274--4156430	14	11.1	14	63	15	54	68	1	2	27	1.10
4156336--4156436	27	3.7	25	71	21	55	69	0	2	27	1.03
4156296--4156406	27	4.1	28	77	18	94	66	0	2	29	1.11
4156325--4156435	49	2.3	48	78	9	118	70	0	2	27	1.01
4156309--4156463	54	2.9	52	77	11	138	67	0	3	28	1.10
4156597--4156657	31	2.0	31	87	6	88	36	8	1	54	1.40
4184004--4184033	1	30.0	1	100	0	60	100	0	0	0	0.00
4186710--4186742	2	16.5	2	93	0	57	45	0	3	51	1.16
4187061--4187094	14	2.5	14	90	4	52	58	0	2	38	1.13
4189173--4189227	30	1.9	30	88	7	87	32	12	20	34	1.90
4191455--4191479	2	12.5	2	100	0	50	48	0	0	52	1.00
4209168--4209212	18	2.4	19	81	3	56	4	6	8	80	1.03
4212354--4212416	33	1.9	33	96	0	117	33	25	17	23	1.96
4218416--4218457	2	21.5	2	95	4	77	50	0	0	50	1.00
4223813--4223860	19	2.5	18	77	12	51	45	10	2	41	1.50
4228954--4229024	33	2.2	33	81	0	79	38	15	7	39	1.75
4228975--4229044	33	2.1	33	86	0	95	40	15	7	37	1.75
4243018--4243088	33	2.2	31	82	5	79	64	0	5	29	1.16
4243308--4243347	15	2.7	15	84	0	53	37	22	2	37	1.68
4246260--4246332	20	3.8	21	75	18	86	41	1	2	54	1.23
4250881--4250936	13	4.3	13	75	20	55	58	7	3	30	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250881--4250936	26	2.2	26	90	6	87	58	7	3	30	1.42
4251447--4251482	19	1.9	19	88	5	56	22	16	11	50	1.77
4251491--4251570	26	3.1	26	83	1	99	32	12	10	45	1.75
4255571--4255600	2	15.0	2	100	0	60	50	0	0	50	1.00
4272803--4272845	2	22.0	2	90	4	70	48	0	0	51	1.00
4276566--4276674	6	17.0	6	71	13	58	24	2	2	69	1.15
4277326--4277350	10	2.5	10	100	0	50	20	0	0	80	0.72
4277262--4277349	13	5.9	15	71	15	51	25	3	1	70	1.10
4294076--4294230	79	2.0	79	92	2	258	21	25	23	29	1.99
4295473--4295504	2	16.0	2	100	0	64	50	0	0	50	1.00
4299964--4300004	11	3.8	11	83	6	57	80	0	19	0	0.71
4301712--4301747	18	2.0	18	100	0	72	38	16	22	22	1.93
4308538--4308586	25	2.0	25	84	8	64	55	18	2	24	1.53
4309520--4309572	28	1.9	27	81	11	63	50	0	18	30	1.47
4309670--4309708	17	2.3	17	86	8	53	51	2	2	43	1.29
4311302--4311335	2	17.0	2	93	0	59	52	47	0	0	1.00
4316067--4316098	13	2.4	14	85	15	50	25	15	0	59	1.36
4319933--4320017	29	3.0	29	86	5	111	35	1	2	61	1.17
4325100--4325129	5	6.0	5	100	0	60	0	20	0	80	0.72
4332948--4332988	3	13.7	3	94	0	73	31	2	0	65	1.05
4333640--4333667	2	14.0	2	100	0	56	50	0	0	50	1.00
4337397--4337437	19	2.2	19	90	0	64	58	12	0	29	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4337600--4337639	20	2.0	20	90	0	62	65	0	0	35	0.93
4337587--4337650	28	2.4	26	89	5	92	60	0	0	39	0.97
4338863--4338894	2	16.0	2	93	0	55	46	0	0	53	1.00
4345639--4345671	2	17.0	2	93	6	59	48	0	0	51	1.00
4346274--4346319	2	23.5	2	86	4	67	52	0	45	2	1.13
4348322--4348378	17	3.5	17	80	9	82	8	10	8	71	1.30
4348329--4348379	15	3.3	15	78	10	57	9	9	7	72	1.28
4351645--4351677	3	11.0	3	100	0	66	33	0	0	66	0.92
4354333--4354389	30	1.9	30	82	7	71	66	3	1	28	1.18
4356244--4356281	13	2.7	14	88	8	51	26	0	2	71	1.00

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