genome.fa.s7.2.7.7.80.10.50.1000.15.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_018397260.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_51.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10072460

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  15  of  20  ( 2374 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)
6098273--6098333	14	4.5	13	77	8	50	45	3	8	42	1.50
6098266--6098322	27	2.1	27	83	0	69	47	3	7	42	1.47
6103161--6103195	15	2.3	15	90	0	52	20	62	0	17	1.32
6105711--6105794	42	2.0	42	90	4	136	50	0	7	42	1.30
6105732--6105804	20	3.5	20	70	14	67	47	1	6	43	1.38
6105723--6105810	42	2.1	42	91	0	140	48	1	5	44	1.33
6105928--6105968	18	2.3	18	83	4	57	46	0	0	53	1.00
6105939--6105966	9	3.1	9	100	0	56	46	0	0	53	1.00
6105968--6106007	17	2.2	19	86	8	57	50	0	2	47	1.14
6117634--6117711	39	2.0	39	100	0	156	30	12	17	38	1.88
6149580--6149640	31	2.0	30	87	3	86	57	1	0	40	1.08
6179573--6179597	13	1.9	13	100	0	50	12	0	0	88	0.53
6191909--6191950	15	2.6	16	82	14	50	66	4	26	2	1.23
6198452--6198943	261	1.9	262	81	7	606	31	6	11	49	1.65
6209139--6209167	2	14.5	2	100	0	58	48	0	0	51	1.00
6228723--6228752	2	15.0	2	100	0	60	50	0	0	50	1.00
6239607--6239639	2	17.0	2	93	6	59	51	0	0	48	1.00
6240024--6240058	17	2.1	17	89	5	54	0	17	0	82	0.66
6240684--6240722	19	2.2	18	86	13	55	43	0	0	56	0.99
6240945--6240993	18	2.4	21	77	19	59	67	0	2	30	1.02
6240941--6241006	27	2.5	26	80	7	80	60	0	1	37	1.06
6240989--6241029	21	2.0	21	90	0	64	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6246828--6246852	2	12.5	2	100	0	50	0	48	0	52	1.00
6255633--6255677	14	3.1	15	84	12	58	40	0	0	60	0.97
6255674--6255725	20	2.5	21	78	9	61	65	1	0	32	1.04
6267467--6267512	22	2.1	22	84	8	58	45	2	4	47	1.34
6267659--6267691	16	2.1	15	94	5	57	39	6	12	42	1.67
6267769--6267843	37	2.0	39	84	10	102	48	0	1	50	1.09
6281764--6281799	16	2.2	16	90	0	54	27	0	0	72	0.85
6285872--6286056	63	3.0	63	89	2	275	23	20	19	37	1.94
6315395--6315459	24	2.8	24	81	11	73	58	3	0	38	1.14
6315395--6315459	23	2.8	24	84	11	73	58	3	0	38	1.14
6315793--6315818	2	13.0	2	100	0	52	50	0	0	50	1.00
6317419--6317446	2	14.0	2	100	0	56	50	50	0	0	1.00
6330039--6330071	2	16.5	2	87	12	50	48	3	48	0	1.17
6338423--6338454	2	16.0	2	100	0	64	50	0	0	50	1.00
6355897--6355934	2	19.5	2	83	5	51	50	5	44	0	1.24
6358355--6358382	7	4.0	7	100	0	56	14	0	0	85	0.59
6383167--6383204	18	2.1	18	85	9	51	55	5	0	39	1.23
6392306--6392340	16	2.2	16	94	0	61	37	5	20	37	1.76
6402956--6402993	11	3.5	11	83	16	53	84	0	15	0	0.63
6411588--6411675	36	2.4	36	98	0	167	27	30	17	25	1.97
6418906--6418971	31	2.1	30	83	8	78	56	6	12	25	1.59
6431305--6431570	133	2.0	131	91	1	433	21	15	25	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6432420--6432450	2	15.5	2	100	0	62	51	0	0	48	1.00
6446650--6446711	32	1.9	32	90	0	97	40	4	24	30	1.76
6450434--6450489	26	2.2	26	86	0	76	58	16	8	16	1.61
6453029--6453164	72	1.9	74	87	3	204	38	16	11	32	1.85
6453522--6453559	2	19.0	2	100	0	76	50	0	0	50	1.00
6457820--6457865	24	1.9	24	95	0	83	47	13	6	32	1.68
6459498--6459550	21	2.6	21	81	3	63	43	1	0	54	1.11
6459658--6459700	18	2.2	18	84	12	50	27	0	2	69	1.00
6460782--6460819	18	2.1	18	100	0	76	26	15	21	36	1.93
6463491--6463518	4	7.0	4	100	0	56	25	0	0	75	0.81
6463646--6463705	20	3.2	18	82	13	68	30	6	1	61	1.31
6474627--6474661	2	17.5	2	100	0	70	51	0	0	48	1.00
6493305--6493340	6	6.0	6	100	0	72	50	33	0	16	1.46
6502352--6502409	27	2.1	27	90	0	89	20	27	18	32	1.97
6517014--6517073	27	2.4	24	83	10	68	60	0	0	40	0.97
6523159--6523185	13	2.1	13	100	0	54	40	29	7	22	1.81
6525471--6525504	15	2.2	16	89	5	52	47	0	0	52	1.00
6525542--6525577	18	2.1	17	89	5	54	41	0	0	58	0.98
6525537--6525593	10	5.6	10	79	10	62	47	0	0	52	1.00
6525548--6525586	18	2.2	18	86	9	53	46	0	0	53	1.00
6525576--6525649	25	2.8	25	78	13	69	59	1	0	39	1.06
6530962--6531006	23	1.9	24	86	4	65	48	0	6	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6530961--6531012	23	2.2	24	79	3	61	48	0	5	46	1.26
6532003--6532029	10	2.7	10	100	0	54	55	0	0	44	0.99
6548715--6548790	38	2.0	38	89	0	116	30	5	13	51	1.62
6548806--6548851	24	2.0	23	86	4	65	43	0	4	52	1.21
6549851--6549900	14	3.5	15	76	13	52	38	0	2	60	1.09
6550114--6550158	21	2.1	21	84	8	56	64	0	0	35	0.94
6555492--6555607	58	2.0	58	100	0	232	36	12	20	31	1.89
6558186--6558218	2	16.5	2	100	0	66	0	0	48	51	1.00
6581683--6581950	13	18.9	14	62	20	51	65	0	2	31	1.09
6581759--6581842	33	2.5	33	78	16	93	70	0	2	27	1.00
6581738--6581923	72	2.5	71	77	15	175	64	0	3	31	1.13
6581883--6582013	15	8.9	15	67	17	55	63	0	2	34	1.07
6581797--6582018	110	2.0	111	93	4	380	63	0	2	34	1.09
6581884--6581950	32	2.1	32	86	5	91	67	0	0	32	0.91
6582167--6582220	15	3.6	15	92	0	81	33	25	7	33	1.84
6582335--6582372	20	2.0	20	89	5	60	47	0	0	52	1.00
6587026--6587069	21	2.1	21	86	0	61	25	27	6	40	1.80
6603999--6604031	2	16.5	2	100	0	66	48	0	51	0	1.00
6609447--6609490	18	2.4	18	81	7	54	43	0	0	56	0.99
6616355--6616413	28	2.1	28	90	0	91	66	10	1	22	1.31
6616452--6616689	119	2.0	118	92	4	399	40	13	8	37	1.75
6624434--6624464	4	7.8	4	100	0	62	51	22	0	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6628273--6628301	3	9.7	3	100	0	58	0	31	0	68	0.89
6629650--6629693	2	22.0	2	88	9	63	50	0	4	45	1.22
6630838--6630881	18	2.5	17	78	7	52	72	6	20	0	1.07
6633706--6633733	2	14.0	2	100	0	56	50	0	0	50	1.00
6634088--6634126	2	20.5	2	84	10	55	51	0	46	2	1.14
6635102--6635131	2	15.0	2	100	0	60	50	0	0	50	1.00
6637294--6637333	2	20.0	2	84	0	53	47	5	2	45	1.38
6641600--6641672	36	2.0	36	100	0	146	27	31	13	27	1.94
6656211--6656235	13	1.9	13	100	0	50	36	40	8	16	1.77
6656455--6656490	12	3.0	12	91	0	54	30	25	38	5	1.78
6662760--6662870	38	2.9	38	97	0	204	27	14	16	42	1.86
6668277--6668348	2	36.0	2	74	0	54	43	45	8	2	1.48
6699351--6699396	5	9.0	5	78	21	51	2	56	4	36	1.31
6699872--6699903	12	2.7	12	95	0	55	0	25	6	68	1.12
6726802--6726826	2	12.5	2	100	0	50	48	0	52	0	1.00
6727294--6727318	13	1.9	13	100	0	50	32	32	0	36	1.58
6739733--6739763	7	4.6	7	92	8	55	16	58	0	25	1.38
6762197--6762234	18	2.1	18	90	0	58	34	10	18	36	1.85
6762684--6762713	2	15.0	2	100	0	60	0	50	0	50	1.00
6765660--6765711	25	2.1	25	96	0	95	48	21	13	17	1.81
6792778--6792802	2	12.5	2	100	0	50	52	0	48	0	1.00
6796239--6796310	30	2.4	29	82	11	92	36	8	5	50	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6798980--6799013	17	1.9	18	88	5	52	41	5	8	44	1.60
6800153--6800198	19	2.4	18	86	10	65	78	0	2	19	0.86
6800167--6800210	19	2.3	19	84	11	54	75	4	0	20	0.98
6816100--6816133	6	5.7	6	100	0	68	0	14	17	67	1.23
6821437--6821464	6	4.7	6	100	0	56	0	0	14	85	0.59
6828225--6828330	50	2.1	51	92	1	178	20	16	12	50	1.76
6832521--6832545	7	3.6	7	100	0	50	48	40	0	12	1.40
6891175--6891219	2	22.5	2	100	0	90	48	0	0	51	1.00
6904935--6905001	23	3.0	22	76	12	73	52	1	1	44	1.19
6904958--6905245	156	1.9	155	89	2	452	52	2	2	42	1.30

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20