genome.fa.s5.2.7.7.80.10.50.1000.12.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  12  of  22  ( 2636 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)
6143947--6143992	23	2.0	23	91	0	74	43	17	15	23	1.87
6153063--6153198	70	2.0	68	95	2	245	41	19	10	28	1.84
6153533--6153649	27	4.3	27	77	4	110	47	2	1	47	1.25
6200665--6200705	21	2.0	21	90	0	64	48	12	12	26	1.75
6202767--6202799	2	16.5	2	100	0	66	0	48	0	51	1.00
6209119--6209153	2	17.5	2	93	0	61	0	48	2	48	1.16
6222422--6222467	15	3.2	15	77	17	53	69	0	0	30	0.89
6223115--6223157	19	2.3	19	87	0	59	37	4	2	55	1.33
6228145--6228194	24	2.0	25	82	17	61	20	0	16	64	1.30
6239869--6239902	15	2.3	15	100	0	68	8	11	17	61	1.54
6240988--6241025	20	1.9	19	94	5	67	55	0	5	39	1.23
6249188--6249225	18	2.1	18	90	0	58	78	0	13	7	0.94
6249190--6249216	14	1.9	14	100	0	54	81	0	11	7	0.87
6249979--6250014	2	18.0	2	88	0	54	0	55	0	44	0.99
6251905--6251943	17	2.4	16	84	16	53	5	15	2	76	1.06
6254843--6254905	29	2.1	29	82	8	74	61	1	1	34	1.15
6259905--6259936	4	8.0	4	100	0	64	25	0	25	50	1.50
6264978--6265012	18	2.1	16	89	10	52	5	5	5	82	0.93
6265314--6265698	192	2.0	192	98	0	743	31	16	16	36	1.90
6278080--6278121	14	2.9	14	77	16	50	35	0	4	59	1.19
6311040--6311078	18	2.2	18	90	0	60	25	53	5	15	1.62
6316901--6316961	23	2.7	23	74	2	70	26	8	31	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6322623--6323316	359	2.0	350	90	3	1093	40	20	11	28	1.86
6325969--6326001	2	16.5	2	100	0	66	51	0	0	48	1.00
6329945--6329980	2	18.0	2	100	0	72	50	0	50	0	1.00
6333235--6333279	23	2.0	23	81	0	54	53	2	4	40	1.33
6334074--6336531	250	9.9	249	77	6	1764	49	6	10	33	1.61
6334726--6334758	17	1.9	17	88	11	50	45	3	12	39	1.57
6334584--6335018	233	1.9	234	84	4	592	49	6	10	33	1.64
6335497--6335526	15	2.1	15	93	6	53	73	0	0	26	0.84
6334082--6336604	501	5.1	495	77	8	1848	49	6	10	33	1.61
6336649--6336709	21	3.1	19	80	17	63	60	1	0	37	1.07
6336665--6336697	14	2.2	16	89	10	52	57	3	0	39	1.14
6345743--6345811	15	4.7	15	68	13	54	55	2	4	37	1.35
6346927--6346966	16	2.5	16	88	8	55	22	2	0	75	0.93
6346937--6346971	9	3.9	9	85	14	54	25	0	0	74	0.82
6347311--6347405	42	2.3	43	83	7	115	44	2	1	52	1.19
6347364--6347397	17	2.0	17	94	0	59	50	0	2	47	1.16
6347643--6347675	16	2.1	16	94	0	57	45	0	0	54	0.99
6347662--6347706	24	1.9	23	82	13	56	48	2	4	44	1.35
6348045--6348089	23	2.0	23	82	8	56	55	2	35	6	1.38
6350964--6351305	174	2.0	173	88	0	513	46	15	12	25	1.81
6362880--6362909	11	2.7	11	94	0	51	66	10	20	3	1.35
6366616--6366701	29	3.0	28	81	5	100	47	11	24	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6367262--6367387	67	1.9	67	93	3	218	35	5	7	50	1.55
6368060--6368181	3	42.0	3	72	16	62	29	0	2	67	1.09
6368063--6368222	79	2.0	78	81	13	186	31	0	3	65	1.13
6370199--6370250	26	2.0	26	88	3	77	25	0	0	75	0.81
6370199--6370257	26	2.2	26	84	6	73	22	3	0	74	0.96
6370568--6370654	42	2.1	42	97	0	165	18	16	27	37	1.92
6371537--6371693	52	3.1	52	64	17	128	39	10	21	28	1.87
6371482--6371856	102	3.7	100	87	5	510	41	13	18	26	1.88
6371773--6371944	88	2.0	88	89	4	267	41	15	17	25	1.88
6375529--6375676	73	2.0	73	97	0	278	30	12	17	39	1.86
6381381--6381448	23	3.0	23	68	21	61	51	1	0	47	1.09
6381448--6381491	16	2.7	16	89	3	61	50	0	0	50	1.00
6381717--6381774	16	3.7	15	76	14	55	50	1	1	46	1.22
6381792--6381838	14	2.9	17	75	18	55	59	0	2	38	1.09
6385345--6385431	34	2.5	34	73	17	90	55	3	8	33	1.46
6385618--6385711	48	2.0	48	83	8	120	42	2	1	54	1.19
6394577--6394603	10	2.7	10	100	0	54	77	0	0	22	0.76
6399239--6399426	47	3.9	47	82	2	223	29	20	21	28	1.98
6399426--6399598	92	1.9	92	97	0	328	31	18	17	32	1.95
6407256--6407296	21	2.0	20	85	4	55	51	7	0	41	1.30
6419588--6419879	146	2.0	146	94	0	512	25	23	12	38	1.90
6419884--6419924	21	2.0	21	90	0	64	24	19	14	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6419918--6420273	122	2.9	122	96	0	633	22	30	5	41	1.78
6421397--6421688	146	2.0	146	91	1	478	25	24	12	38	1.90
6421706--6421942	122	1.9	122	91	3	388	22	30	5	40	1.77
6437635--6437668	5	6.6	5	93	6	59	76	0	2	20	0.92
6437638--6437668	16	1.9	16	100	0	62	77	0	3	19	0.90
6441503--6441533	2	15.5	2	93	0	53	51	0	0	48	1.00
6442121--6442155	13	2.7	13	87	12	54	28	0	0	71	0.86
6452328--6452749	199	2.1	198	80	5	456	27	21	16	35	1.94
6452828--6452913	43	2.0	43	95	0	154	33	22	10	33	1.88
6455387--6455426	16	2.4	16	87	4	53	0	27	0	72	0.85
6466450--6466480	12	2.5	12	94	5	53	41	0	0	58	0.98
6470568--6470619	20	2.6	20	81	0	59	50	1	3	44	1.31
6475216--6475244	2	14.5	2	100	0	58	48	0	0	51	1.00
6479546--6479674	51	2.5	51	86	2	170	24	37	31	6	1.80
6480012--6480045	15	2.3	15	89	0	50	17	32	41	8	1.80
6480250--6480291	15	2.9	15	89	3	59	28	0	38	33	1.58
6487602--6487632	2	15.5	2	100	0	62	0	48	0	51	1.00
6493850--6493888	21	1.9	21	89	5	62	43	7	28	20	1.79
6498857--6498888	16	1.9	17	93	6	57	71	0	0	28	0.86
6506003--6506039	19	1.9	19	88	0	56	27	8	16	48	1.74
6505971--6506085	61	1.9	61	85	0	158	33	7	16	41	1.77
6506187--6506266	22	3.6	22	79	0	79	31	6	12	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6506373--6506435	22	2.9	22	83	6	76	52	19	1	26	1.55
6520080--6520122	21	2.0	21	86	0	59	37	20	4	37	1.74
6520111--6520158	20	2.3	20	89	3	69	41	18	10	29	1.84
6521601--6521667	35	2.0	35	91	5	111	38	10	19	31	1.85
6538760--6538813	22	2.5	22	81	0	63	3	40	3	51	1.37
6561727--6561761	18	1.9	18	88	0	52	25	0	2	71	1.00
6561725--6561776	16	3.6	13	76	20	50	23	0	1	75	0.91
6565253--6565411	78	2.1	71	79	13	185	40	1	1	56	1.18
6565261--6565421	79	2.0	80	89	4	247	39	3	1	56	1.23
6568515--6568564	17	3.1	16	86	11	66	28	0	0	72	0.86
6568523--6568564	17	2.5	17	92	3	68	26	0	0	73	0.83
6569370--6569399	15	2.1	15	93	6	53	40	0	0	60	0.97
6582180--6582213	10	3.4	10	87	0	50	0	8	2	88	0.62
6585971--6586007	2	19.0	2	88	5	58	48	2	0	48	1.15
6586240--6586541	151	2.0	151	99	0	595	39	5	12	43	1.65
6589359--6589476	23	5.1	23	86	1	146	18	27	19	34	1.95
6589513--6589556	18	2.5	18	85	3	63	25	27	9	38	1.86
6589783--6590118	80	4.2	80	89	2	473	41	7	11	39	1.70
6589935--6590058	38	3.2	38	63	17	99	42	6	10	40	1.65
6593023--6593157	39	3.5	39	80	2	137	42	17	19	20	1.90
6598069--6598106	19	2.0	20	84	5	51	34	7	18	39	1.80
6598767--6598795	3	9.7	3	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6603291--6603334	23	1.9	23	86	9	63	63	4	31	0	1.14
6603591--6603629	16	2.4	15	84	16	51	79	2	17	0	0.84
6603043--6603726	291	2.3	291	82	4	788	48	10	15	25	1.77
6607748--6607774	2	13.5	2	100	0	54	48	0	0	51	1.00
6609399--6609450	27	1.9	27	96	0	95	44	15	7	32	1.75
6617709--6617739	2	15.5	2	100	0	62	48	0	0	51	1.00
6618921--6618946	6	4.3	6	100	0	52	84	15	0	0	0.62
6619995--6620028	15	2.3	15	89	0	50	32	0	5	61	1.20
6629592--6629642	26	2.0	26	96	0	93	45	7	19	27	1.78
6634804--6634884	43	1.9	42	87	7	119	48	8	1	41	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22