genome.fa.s15.2.7.7.80.10.50.1000.8.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1452 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)
4012877--4012902	2	13.0	2	100	0	52	50	0	0	50	1.00
4013059--4013087	15	1.9	15	100	0	58	41	0	37	20	1.53
4015562--4015603	21	2.0	21	100	0	84	28	9	23	38	1.86
4023893--4023930	19	2.1	19	85	9	53	55	5	2	36	1.37
4024288--4024349	30	2.1	30	82	11	74	30	3	1	64	1.19
4024306--4024379	30	2.6	28	80	16	73	33	0	1	64	1.02
4024318--4024367	23	2.2	22	79	10	57	32	0	0	68	0.90
4024318--4024380	25	2.6	25	75	12	67	34	0	0	65	0.93
4024405--4024469	33	2.0	33	84	0	85	49	4	9	36	1.56
4027289--4027326	18	2.1	18	90	9	60	42	15	2	39	1.61
4027289--4027326	9	4.2	9	83	12	51	42	15	2	39	1.61
4028656--4028764	8	14.1	8	66	14	50	49	3	43	3	1.38
4028642--4028741	31	3.2	31	84	2	121	47	6	42	5	1.50
4028719--4028763	15	3.0	14	84	12	54	55	2	42	0	1.12
4031340--4031427	36	2.4	36	81	7	88	6	36	9	47	1.62
4032011--4032049	7	5.9	7	85	8	55	25	0	2	71	0.98
4033184--4033350	72	2.3	72	97	0	316	44	1	14	39	1.56
4033243--4033344	23	4.3	23	62	16	64	42	0	14	42	1.52
4033214--4033390	72	2.7	61	79	17	219	45	1	15	37	1.57
4036270--4036305	18	2.0	18	88	0	54	13	11	0	75	1.06
4036425--4036462	18	2.2	17	95	4	67	71	2	5	21	1.19
4037764--4037847	19	4.2	19	66	16	53	45	1	14	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4037726--4037847	61	2.0	61	98	0	235	45	1	15	37	1.56
4039278--4039319	23	2.0	21	82	17	52	61	0	9	28	1.27
4048398--4048440	12	3.7	12	81	3	52	30	2	2	65	1.18
4053931--4053974	21	2.0	22	83	12	56	45	0	0	54	0.99
4056575--4056652	39	2.0	39	89	0	120	28	12	11	47	1.76
4069564--4069635	21	3.4	21	69	3	72	25	15	22	37	1.93
4069546--4069635	43	2.1	43	85	0	117	26	13	20	40	1.89
4069622--4069695	23	3.3	23	84	1	87	24	14	28	32	1.95
4069714--4069795	22	3.8	22	73	3	76	47	19	7	25	1.75
4072287--4072354	34	2.0	34	94	0	118	32	10	10	47	1.71
4072376--4072509	35	3.8	35	88	0	178	43	18	17	20	1.88
4072733--4072795	29	2.2	29	85	0	81	22	30	4	42	1.74
4072741--4072866	29	4.3	29	84	4	146	17	25	9	47	1.77
4076410--4076460	21	2.4	20	78	18	50	27	9	0	62	1.26
4077213--4077243	16	1.9	16	93	0	53	3	6	9	80	0.99
4077202--4077252	18	2.7	18	80	16	52	1	7	9	80	0.98
4078925--4079066	48	2.9	49	79	7	155	26	14	2	57	1.49
4078925--4079066	49	2.9	50	79	9	159	26	14	2	57	1.49
4079006--4079163	57	2.7	58	88	5	223	25	11	0	62	1.34
4079245--4079385	58	2.4	58	89	0	210	29	12	10	47	1.74
4086843--4086904	32	1.9	32	87	6	90	30	11	22	35	1.89
4087656--4087727	33	2.2	34	87	5	103	65	0	4	30	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087760--4087832	33	2.2	33	85	2	92	63	1	8	27	1.31
4089704--4089751	25	1.9	25	87	8	71	18	10	16	54	1.70
4093866--4093953	40	2.2	39	75	11	90	31	21	15	30	1.95
4100032--4100072	20	2.0	20	90	9	66	48	0	0	51	1.00
4100026--4100079	18	2.9	18	75	2	63	57	1	0	40	1.09
4100053--4100094	16	2.6	16	85	7	50	59	2	4	33	1.31
4104035--4104118	40	2.1	41	93	2	143	30	14	11	42	1.81
4104193--4104231	7	5.6	7	100	0	78	30	28	12	28	1.93
4104829--4104871	5	8.2	5	84	7	50	13	4	4	76	1.10
4120756--4120798	12	3.6	12	83	0	59	16	2	65	16	1.38
4120991--4121056	21	3.1	21	75	0	69	19	1	59	19	1.46
4121413--4121441	13	2.1	14	93	6	51	17	0	0	82	0.66
4148940--4148999	24	2.5	26	81	10	74	23	6	0	70	1.11
4169211--4169256	2	23.0	2	100	0	92	50	0	0	50	1.00
4171667--4171723	28	2.0	29	83	10	73	47	0	3	49	1.18
4171771--4171804	16	2.1	16	88	0	50	73	2	2	20	1.09
4171792--4171832	21	1.9	21	85	5	55	51	4	2	41	1.36
4171687--4171980	141	2.0	150	80	11	331	57	3	7	32	1.41
4188070--4188144	36	2.1	35	90	2	114	60	4	4	32	1.34
4190506--4191125	47	13.3	47	76	9	504	26	17	30	24	1.97
4190518--4191201	139	4.9	140	78	8	596	27	18	30	23	1.98
4190491--4191125	186	3.4	183	81	5	672	26	17	30	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4191026--4191100	23	3.2	23	69	23	75	26	18	33	21	1.96
4192035--4192244	31	6.8	31	87	4	289	17	24	18	39	1.92
4193670--4194773	555	2.0	558	93	0	1901	34	11	19	34	1.88
4198748--4198882	71	1.9	70	86	3	191	42	10	10	37	1.73
4198741--4198900	71	2.3	69	76	3	167	46	8	10	34	1.70
4208313--4208379	15	4.8	15	72	23	65	49	0	2	47	1.16
4208326--4208376	25	2.0	25	92	7	86	47	0	1	50	1.12
4208296--4208412	40	2.9	40	81	7	119	50	0	2	47	1.15
4208577--4208682	43	2.5	43	96	0	194	27	20	2	49	1.63
4208579--4208682	22	4.9	21	65	19	63	26	20	2	50	1.62
4208829--4208861	18	1.9	17	88	11	50	42	0	27	30	1.56
4222126--4222217	46	2.0	46	93	0	157	36	13	14	35	1.84
4229408--4229443	12	3.0	12	87	0	54	55	5	36	2	1.38
4240755--4240804	19	2.6	19	90	0	82	32	30	6	32	1.82
4241502--4241824	161	2.0	161	98	0	628	36	14	17	31	1.90
4244013--4244063	26	2.0	26	92	0	84	23	29	9	37	1.87
4250316--4250354	18	2.2	18	86	9	53	64	0	0	35	0.94
4251710--4251863	64	2.5	64	82	7	165	35	13	9	41	1.78
4256372--4256519	29	5.1	28	78	5	152	46	12	27	14	1.79
4256372--4256518	58	2.6	58	90	3	226	46	12	27	14	1.80
4259435--4259671	128	1.9	126	83	5	307	26	11	7	54	1.62
4267142--4267997	285	3.0	285	95	0	1523	26	17	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4270318--4270344	13	2.1	13	100	0	54	55	14	7	22	1.64
4278393--4278436	10	4.2	10	83	11	61	6	40	0	52	1.28
4278395--4278436	22	1.9	22	95	0	75	7	40	0	52	1.29
4283853--4283887	18	2.1	17	89	10	54	51	0	0	48	1.00
4292956--4293003	24	2.0	25	84	12	64	47	0	0	52	1.00
4292986--4293058	30	2.6	29	82	8	87	58	1	2	36	1.21
4303583--4303624	10	4.3	10	75	6	50	57	0	0	42	0.99
4304100--4304162	27	2.4	27	83	2	74	30	28	23	17	1.97
4305426--4305456	2	15.5	2	100	0	62	51	0	0	48	1.00
4309259--4309310	19	2.8	18	82	5	59	55	0	3	40	1.18
4309274--4309310	18	2.0	19	89	5	58	54	0	5	40	1.24
4314484--4314536	26	2.0	26	92	0	88	54	9	24	11	1.65
4317556--4317581	3	8.7	3	100	0	52	69	0	0	30	0.89
4318293--4318323	2	15.5	2	100	0	62	48	0	0	51	1.00
4325173--4325226	24	2.3	23	83	3	63	35	11	18	35	1.86
4328988--4329192	107	1.9	108	89	1	322	36	15	3	44	1.65
4340928--4341010	30	2.8	30	96	1	150	55	2	1	40	1.21
4340949--4341000	16	3.4	16	68	10	54	57	1	0	40	1.10
4344298--4344344	22	2.1	22	96	0	85	42	0	0	57	0.98
4345320--4345393	29	2.6	30	81	12	86	51	4	12	32	1.58
4348264--4348618	169	2.1	170	86	2	491	39	3	14	43	1.61
4348265--4348618	85	4.2	85	86	2	462	39	3	13	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4350238--4350262	12	2.1	12	100	0	50	60	0	8	32	1.26
4362515--4362548	17	1.9	18	88	5	52	44	2	2	50	1.32
4362707--4362752	9	4.6	10	77	20	51	56	2	0	41	1.11
4362705--4362752	21	2.3	22	79	17	57	56	2	0	41	1.11
4363959--4364029	14	5.0	14	68	1	52	49	9	2	38	1.51
4366688--4366769	36	2.3	36	84	0	101	30	37	8	23	1.84
4372574--4372614	14	3.0	14	76	16	50	36	0	0	63	0.95
4376409--4376498	29	3.1	28	84	4	108	13	27	14	44	1.82
4378537--4378853	88	3.6	88	91	0	501	27	19	13	39	1.89
4378537--4378853	175	1.8	176	92	0	537	27	19	13	39	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13