genome.fa.s2.2.7.7.80.10.50.1000.22.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   27   28   29   30   31   

This is table  22  of  31  ( 3649 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)
10539482--10539545	27	2.4	26	76	5	65	39	12	7	40	1.72
10539611--10539689	27	3.0	26	79	1	86	37	12	10	39	1.77
10539611--10539719	52	2.1	52	79	8	114	38	11	10	39	1.76
10544763--10544941	89	2.0	86	89	3	268	37	13	17	31	1.88
10548150--10548177	2	14.0	2	100	0	56	50	0	50	0	1.00
10551773--10552298	263	2.0	263	87	0	748	38	13	24	23	1.90
10561823--10561877	21	2.6	21	88	0	83	23	10	20	45	1.82
10569718--10569742	2	12.5	2	100	0	50	48	0	0	52	1.00
10573743--10573776	15	2.2	16	89	5	52	58	2	0	38	1.13
10575595--10575661	29	2.3	29	84	0	80	41	1	0	56	1.08
10575608--10575663	29	1.9	29	88	0	85	37	1	0	60	1.07
10579762--10579797	18	2.1	18	89	5	56	63	2	0	33	1.08
10584122--10584243	60	2.0	62	91	3	203	31	4	19	44	1.72
10584967--10585311	52	6.5	51	74	11	232	32	16	11	40	1.83
10586098--10586124	2	13.5	2	100	0	54	48	0	0	51	1.00
10586418--10586470	24	2.2	25	83	6	65	22	11	1	64	1.36
10594329--10594454	63	2.0	63	81	3	146	24	11	16	46	1.81
10597978--10598061	42	2.0	42	100	0	168	40	14	14	30	1.85
10599104--10599196	46	2.0	46	93	0	159	30	10	15	44	1.80
10603088--10603143	24	2.4	24	87	3	78	73	1	21	3	1.08
10603611--10603651	20	2.0	20	90	0	64	19	29	7	43	1.78
10616001--10616232	116	2.0	116	94	0	410	39	10	29	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10617000--10617077	38	2.1	38	95	0	138	28	12	25	33	1.93
10619679--10619732	28	1.9	28	85	14	76	46	1	9	42	1.46
10621687--10621727	21	2.0	20	85	4	55	68	0	2	29	1.03
10621701--10621750	19	2.8	18	85	8	59	68	4	0	28	1.08
10621720--10621757	17	2.2	17	86	9	51	65	7	0	26	1.19
10622170--10622252	32	2.6	32	82	1	87	60	6	3	30	1.38
10638234--10638412	7	23.0	8	64	27	50	29	1	1	68	1.03
10638234--10638415	71	2.4	76	83	9	221	29	1	1	68	1.04
10638236--10638409	64	2.6	69	82	10	198	29	1	1	68	1.04
10638355--10638410	28	2.0	27	83	10	69	30	0	0	69	0.89
10638374--10638415	15	2.9	15	85	3	59	28	0	0	71	0.86
10639403--10639468	14	4.7	14	71	14	55	46	3	1	48	1.26
10641523--10641710	101	1.9	98	85	3	259	53	10	7	28	1.62
10652974--10653012	20	2.0	20	100	0	78	35	0	15	48	1.45
10658228--10658292	24	2.7	24	77	17	64	4	47	47	0	1.22
10658265--10658304	15	2.7	16	85	11	50	2	50	47	0	1.14
10658427--10658477	3	16.3	3	76	15	50	0	41	58	0	0.98
10658408--10658477	16	4.4	16	76	18	67	1	41	57	0	1.08
10658427--10658477	9	5.4	10	81	9	63	0	41	58	0	0.98
10658419--10658513	43	2.4	39	79	13	95	1	43	53	2	1.19
10658508--10658539	16	2.0	16	93	0	55	0	53	46	0	1.00
10658557--10658597	17	2.4	17	87	0	55	0	39	60	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10661182--10661224	16	2.6	17	81	7	52	72	4	13	9	1.26
10663169--10663228	27	2.2	26	80	8	66	51	0	1	46	1.10
10666865--10666893	3	9.7	3	100	0	58	34	31	0	34	1.58
10667998--10668022	12	2.1	12	100	0	50	40	24	16	20	1.91
10670229--10670521	82	3.6	81	75	10	249	43	10	13	32	1.78
10670199--10670521	160	2.0	161	89	3	490	42	11	13	32	1.80
10687268--10687302	18	1.9	18	94	0	61	48	40	0	11	1.39
10695813--10695837	13	1.9	13	100	0	50	88	0	0	12	0.53
10712549--10712641	47	2.0	47	84	0	123	39	10	7	41	1.68
10712710--10712749	20	2.0	21	90	5	64	45	2	0	52	1.14
10717015--10717084	35	2.0	35	94	0	122	42	12	18	25	1.86
10731524--10731559	2	18.0	2	100	0	72	50	0	0	50	1.00
10734553--10734589	2	18.5	2	100	0	74	51	0	0	48	1.00
10735725--10735749	2	12.5	2	100	0	50	48	0	0	52	1.00
10745684--10745731	20	2.5	20	83	12	64	0	16	4	79	0.89
10745677--10745734	19	3.0	19	77	20	66	0	18	3	77	0.91
10746910--10746972	16	3.9	16	70	13	58	0	36	61	1	1.05
10746937--10746997	24	2.7	23	80	12	72	0	34	63	1	1.04
10747062--10747229	91	1.8	91	81	12	211	0	34	60	4	1.18
10747156--10747208	24	2.2	24	86	3	70	0	37	60	1	1.08
10748455--10748539	33	2.6	32	78	14	93	0	43	52	3	1.18
10748655--10748698	16	2.9	15	83	9	63	0	43	52	4	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10748715--10748783	24	2.9	24	82	6	70	1	49	42	7	1.39
10748775--10748826	7	7.3	7	79	12	52	1	42	55	0	1.10
10748808--10748894	35	2.6	34	81	12	92	0	47	50	2	1.13
10760080--10760127	8	5.8	9	79	20	52	68	0	0	31	0.90
10760074--10760125	25	2.0	26	82	17	65	65	0	0	34	0.93
10760080--10760127	17	2.9	17	79	14	64	68	0	0	31	0.90
10760121--10760185	21	3.0	21	70	28	55	46	6	0	47	1.27
10760946--10760976	4	7.8	4	100	0	62	51	22	0	25	1.48
10772386--10772473	18	4.7	19	65	20	51	35	2	4	57	1.31
10775176--10775202	2	13.5	2	100	0	54	51	0	0	48	1.00
10786394--10786467	30	2.6	27	76	14	76	36	4	2	56	1.32
10789357--10789494	61	2.2	62	81	2	161	26	17	16	39	1.90
10791477--10791557	36	2.2	37	91	6	130	51	9	16	22	1.73
10792603--10792790	101	1.9	98	86	3	268	29	8	12	49	1.70
10800589--10800626	16	2.4	17	78	13	53	39	2	0	57	1.12
10806964--10807080	58	2.0	58	93	0	198	42	17	11	29	1.83
10808029--10808066	20	2.0	20	89	5	60	0	23	0	76	0.79
10815558--10815626	22	3.2	21	70	11	59	44	0	1	53	1.09
10815572--10815627	14	3.9	14	76	4	58	50	0	1	48	1.11
10815588--10815646	26	2.1	29	81	9	70	49	1	1	47	1.21
10816177--10816233	23	2.8	20	71	12	53	63	0	0	36	0.95
10817553--10817581	2	14.5	2	100	0	58	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)
10819197--10819226	2	15.0	2	100	0	60	50	0	0	50	1.00
10825353--10825510	85	1.9	85	87	2	237	34	13	8	43	1.75
10826284--10826319	16	2.2	16	100	0	72	61	5	11	22	1.50
10828058--10828116	24	2.5	24	85	0	73	42	3	16	37	1.66
10832921--10832964	21	2.1	21	91	0	70	45	15	2	36	1.59
10832941--10832991	26	2.0	26	96	0	93	47	15	0	37	1.46
10833668--10833725	16	3.6	16	73	2	53	48	8	12	31	1.70
10842009--10842037	2	14.5	2	100	0	58	0	51	0	48	1.00
10852081--10852153	14	5.5	13	77	18	62	71	2	2	23	1.12
10852082--10852144	6	9.5	6	77	17	54	74	3	1	20	1.04
10852096--10852153	20	2.9	18	85	14	71	72	1	1	24	1.03
10852078--10852153	33	2.3	35	84	11	106	71	2	2	23	1.12
10852124--10852236	46	2.6	41	81	6	127	65	0	3	30	1.15
10852478--10852549	15	4.8	15	78	0	72	33	25	9	31	1.88
10852493--10852549	30	1.9	30	88	0	87	35	26	7	31	1.83
10854759--10854795	18	2.1	18	100	0	74	10	5	18	64	1.43
10855265--10855299	5	6.8	5	96	3	61	2	77	0	20	0.90
10858924--10858975	24	2.1	26	82	13	65	48	7	5	38	1.56
10862321--10862393	32	2.3	32	100	0	146	36	16	6	39	1.75
10863311--10863464	67	2.3	68	80	3	168	38	14	18	29	1.90
10866475--10866509	17	1.9	19	88	11	56	51	11	8	28	1.67
10866852--10866890	19	2.1	19	90	0	60	28	10	15	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10872003--10872031	4	7.2	4	100	0	58	24	24	0	51	1.48
10872029--10872055	2	13.5	2	100	0	54	0	48	0	51	1.00
10872055--10872087	2	16.5	2	100	0	66	48	0	0	51	1.00
10874463--10874497	18	1.9	18	100	0	70	11	60	22	5	1.52
10875557--10875583	6	4.5	6	100	0	54	14	0	48	37	1.45
10876862--10876922	18	3.4	18	79	0	77	39	26	1	32	1.66
10877030--10877078	18	2.7	18	80	0	53	38	28	0	32	1.57
10876844--10877142	156	1.9	156	90	0	472	35	21	11	31	1.89
10877363--10877421	29	2.0	29	90	0	91	25	13	22	38	1.90
10879380--10879423	16	2.8	16	89	0	61	25	2	13	59	1.46

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   27   28   29   30   31