genome.fa.s12.2.7.7.80.10.50.1000.10.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  10  of  18  ( 2130 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)
4187867--4187963	30	3.2	30	72	7	88	52	10	10	26	1.67
4190829--4190862	13	2.5	14	85	9	52	61	2	5	29	1.34
4197297--4197336	17	2.3	18	86	4	55	62	0	2	35	1.09
4207389--4207489	28	3.4	29	76	12	98	40	9	7	41	1.67
4207389--4207493	30	3.6	29	76	12	97	40	10	7	40	1.68
4217835--4217880	18	2.6	18	100	0	92	60	19	10	8	1.55
4219213--4219241	3	9.7	3	100	0	58	68	0	31	0	0.89
4219456--4219533	28	2.8	28	96	0	138	37	0	0	62	0.95
4219492--4219538	20	2.3	20	81	3	58	31	0	0	68	0.90
4225381--4225587	45	4.6	44	83	3	220	33	18	17	29	1.95
4225426--4225503	24	3.4	24	67	22	76	33	20	19	26	1.96
4225381--4225587	90	2.3	90	84	6	278	33	18	17	29	1.95
4225559--4225661	52	1.9	54	84	5	138	38	15	13	32	1.86
4225662--4225754	30	3.1	29	76	3	96	39	12	9	37	1.77
4225664--4225744	29	2.8	29	78	1	90	43	13	8	34	1.75
4227838--4227876	18	2.2	18	86	9	53	48	12	7	30	1.69
4227850--4227889	18	2.2	18	86	0	53	45	17	7	30	1.76
4234029--4234078	26	1.9	26	91	0	82	38	14	12	36	1.83
4234224--4234306	21	4.0	21	79	4	80	49	16	4	28	1.66
4234366--4234442	21	3.6	22	91	3	115	51	20	3	23	1.63
4242286--4242323	19	2.1	19	90	5	60	55	2	0	42	1.14
4250501--4250586	32	2.6	33	87	7	113	67	0	3	29	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250538--4250602	16	4.1	15	72	16	51	64	1	4	29	1.22
4250578--4250627	16	3.3	15	75	16	50	58	4	4	34	1.36
4250805--4250859	15	3.7	15	92	0	83	38	18	3	40	1.68
4254642--4254958	68	4.7	68	82	2	280	37	9	18	34	1.83
4254642--4254958	136	2.3	136	81	2	359	37	9	18	34	1.83
4258097--4258128	2	16.5	2	93	6	57	50	0	0	50	1.00
4268293--4268340	20	2.4	20	78	0	60	52	6	31	10	1.60
4269242--4269321	40	2.0	41	87	2	117	33	22	23	20	1.97
4272256--4272370	58	2.0	58	87	3	169	13	13	20	51	1.76
4274877--4274954	29	2.8	28	82	3	93	38	11	8	41	1.73
4278023--4278138	58	2.0	57	86	5	162	15	15	19	49	1.80
4281736--4281801	33	2.0	32	83	16	82	43	6	9	40	1.61
4281911--4281972	29	2.1	29	85	5	81	61	4	0	33	1.17
4286107--4286131	1	25.0	1	100	0	50	0	100	0	0	0.00
4299364--4299397	5	6.8	5	96	0	50	47	0	52	0	1.00
4305412--4305488	41	2.0	41	92	7	133	24	2	22	50	1.61
4305410--4305494	23	4.0	22	68	23	58	23	3	22	50	1.64
4305520--4305575	21	2.5	22	80	8	69	28	1	17	51	1.56
4305512--4305617	52	2.1	49	84	8	133	31	3	16	48	1.64
4307811--4307838	7	4.0	7	100	0	56	14	14	28	42	1.84
4309081--4309109	4	7.2	4	100	0	58	24	0	0	75	0.80
4309363--4309388	5	5.2	5	100	0	52	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313840--4313891	23	2.2	21	75	24	50	48	0	1	50	1.12
4314058--4314107	25	2.0	25	84	7	66	58	4	2	36	1.29
4315044--4315075	2	16.0	2	100	0	64	50	0	0	50	1.00
4322940--4322994	29	1.9	28	88	3	83	5	20	3	70	1.22
4323108--4323156	20	2.2	24	82	13	61	2	36	0	61	1.08
4332782--4332837	23	2.4	23	84	0	76	28	14	21	35	1.92
4332962--4333279	171	1.9	171	95	0	582	28	14	16	39	1.89
4334835--4334881	21	2.2	21	84	3	58	19	10	19	51	1.75
4338618--4338677	23	2.6	23	83	0	75	33	30	6	30	1.83
4340293--4340340	23	2.1	22	85	11	62	35	37	8	18	1.81
4340252--4340494	22	10.9	22	73	4	155	39	27	11	20	1.87
4340280--4340450	67	2.5	66	82	5	173	39	29	11	19	1.86
4340386--4340533	44	3.3	45	82	2	145	38	25	12	23	1.90
4349156--4349210	22	2.7	21	83	8	60	43	0	0	56	0.99
4349472--4349505	14	2.3	15	90	5	52	52	2	0	44	1.16
4350937--4351007	30	2.4	29	82	11	83	69	0	0	30	0.89
4350937--4351017	29	2.8	28	80	10	92	66	0	1	32	0.99
4357790--4357815	6	4.3	6	100	0	52	19	46	19	15	1.85
4358302--4358335	17	2.0	17	100	0	68	52	5	0	41	1.25
4362176--4362200	2	12.5	2	100	0	50	52	0	0	48	1.00
4363437--4363476	19	2.1	19	85	0	53	52	0	5	42	1.23
4365032--4365080	25	2.0	25	88	4	73	22	16	12	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4366502--4366561	22	2.7	21	78	19	68	66	0	3	30	1.07
4370639--4370802	77	2.1	77	83	4	206	38	12	5	43	1.66
4381195--4381267	33	2.3	32	83	6	87	13	27	4	54	1.57
4383674--4383712	20	2.0	20	89	0	60	76	10	2	10	1.10
4386455--4386513	25	2.4	24	78	16	66	79	6	10	3	1.03
4399985--4400157	33	5.5	31	71	17	108	31	1	0	67	1.01
4400019--4400172	7	23.3	7	69	19	84	31	0	0	68	0.95
4399945--4400169	30	8.4	27	69	21	84	31	3	0	65	1.08
4399968--4400103	73	1.9	70	83	7	175	33	2	0	63	1.06
4400061--4400172	5	21.4	5	70	12	57	30	0	0	68	0.95
4400052--4400172	53	2.3	51	84	9	145	31	0	0	67	0.96
4402462--4402503	20	2.0	21	86	13	61	45	7	2	45	1.44
4406330--4406369	6	6.5	6	88	5	53	25	0	10	65	1.24
4406329--4406366	13	3.0	13	84	3	51	26	0	10	63	1.27
4408671--4408701	15	2.1	15	93	0	53	38	9	12	38	1.77
4415430--4415675	28	8.6	28	79	5	251	41	8	11	38	1.73
4415430--4415675	59	4.3	58	84	6	272	41	8	11	38	1.73
4418945--4418997	21	2.8	20	78	18	53	28	0	3	67	1.07
4420737--4420795	22	2.7	22	84	5	66	49	3	5	42	1.41
4435478--4435508	2	15.5	2	100	0	62	0	48	0	51	1.00
4436090--4436118	15	1.9	15	100	0	58	20	0	10	68	1.18
4437672--4437697	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4437455--4438342	437	2.0	444	91	4	1438	21	15	17	46	1.84
4438757--4438884	64	2.0	64	96	0	238	35	16	21	27	1.94
4445455--4445560	50	2.1	50	82	3	124	35	3	21	38	1.72
4445982--4446036	19	2.9	19	78	10	58	5	18	1	74	1.10
4449743--4449777	18	2.0	17	88	5	52	68	8	17	5	1.35
4454471--4454561	36	2.5	36	81	1	92	34	10	20	34	1.88
4455206--4455604	209	1.9	210	89	1	613	31	14	17	37	1.89
4457615--4457643	3	9.7	3	100	0	58	65	0	0	34	0.93
4468675--4468712	7	5.4	7	81	12	51	0	15	0	84	0.63
4480288--4480343	26	2.1	26	81	15	62	30	3	3	62	1.29
4484291--4484440	63	2.4	63	84	2	185	28	14	17	40	1.89
4487134--4487171	2	19.0	2	88	0	58	50	0	0	50	1.00
4491815--4491871	25	2.3	26	82	11	66	38	1	1	57	1.19
4491823--4491872	25	2.0	25	85	14	68	40	2	0	58	1.10
4501312--4501340	14	2.1	14	93	6	51	79	0	20	0	0.74
4507234--4507279	22	2.0	23	87	8	67	67	8	2	21	1.29
4512348--4512432	43	2.0	42	88	2	125	48	17	7	27	1.73
4512841--4512911	30	2.4	29	81	9	81	33	2	0	63	1.09
4514228--4514284	28	2.0	29	89	3	89	66	0	0	33	0.92
4515103--4515136	2	17.0	2	100	0	68	0	50	0	50	1.00
4522202--4522245	23	1.9	23	85	0	61	29	13	27	29	1.94
4522268--4522314	21	2.2	22	96	3	87	21	17	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4523607--4523676	25	2.8	25	95	0	122	34	22	11	31	1.90
4531332--4531390	19	3.2	18	76	13	66	59	0	6	33	1.24
4531120--4531552	227	1.9	226	92	3	726	44	8	7	39	1.62
4532847--4532891	2	23.0	2	81	4	56	46	4	2	46	1.35
4538850--4538891	21	2.0	22	85	4	59	30	19	4	45	1.71
4545746--4545794	10	4.8	10	79	2	53	55	2	0	42	1.11
4546738--4546828	33	2.8	33	87	0	119	45	10	10	32	1.75
4547415--4547455	20	2.0	20	90	0	64	36	9	21	31	1.86
4550083--4550113	2	15.5	2	100	0	62	0	48	0	51	1.00
4551865--4552454	295	2.0	296	95	3	1075	27	24	15	31	1.96

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