genome.fa.s2.2.7.7.80.10.50.1000.3.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  3  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)
1309617--1309670	26	2.1	26	82	3	65	55	3	11	29	1.52
1313392--1313737	173	2.0	174	91	0	568	36	13	17	32	1.88
1313674--1313804	67	2.0	67	93	0	226	32	16	10	41	1.82
1315058--1315209	64	2.4	63	82	8	175	44	7	3	44	1.49
1315317--1315346	9	3.2	9	90	9	51	56	0	0	43	0.99
1315367--1315456	37	2.4	36	81	9	92	43	1	0	55	1.07
1329355--1329407	26	2.0	27	85	7	72	45	0	3	50	1.19
1329288--1329482	108	1.8	107	92	1	327	51	3	6	38	1.44
1329292--1329515	108	2.1	107	81	6	258	52	3	6	37	1.45
1329365--1329731	197	1.9	198	86	2	524	49	3	5	41	1.45
1330073--1330101	11	2.7	11	94	5	51	68	0	0	31	0.89
1330446--1330497	25	2.0	26	85	10	72	61	1	0	36	1.07
1334241--1334288	2	24.0	2	100	0	96	50	0	0	50	1.00
1341582--1341634	26	2.0	26	88	0	79	49	0	5	45	1.26
1341630--1341822	55	3.5	56	81	7	189	47	5	14	33	1.66
1341740--1341933	94	2.1	94	86	3	266	43	9	19	28	1.81
1341950--1342109	79	2.0	81	91	3	261	46	8	15	30	1.75
1351762--1351794	17	1.9	17	88	11	50	54	0	0	45	0.99
1355224--1355275	27	2.0	27	88	11	81	38	0	3	57	1.17
1355224--1355275	26	2.0	26	88	11	79	38	0	3	57	1.17
1355322--1355421	48	2.1	48	86	0	137	48	10	9	33	1.68
1355562--1355610	23	2.0	23	84	11	62	63	6	4	26	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365967--1365999	2	16.5	2	93	0	57	48	0	51	0	1.00
1368775--1368831	6	9.5	6	78	0	51	1	15	33	49	1.55
1389092--1389129	19	2.0	20	85	15	53	2	34	2	60	1.24
1394378--1394431	27	2.0	27	88	3	81	42	5	1	50	1.36
1398006--1398033	12	2.3	12	100	0	56	89	0	10	0	0.49
1410703--1410740	2	19.0	2	100	0	76	50	50	0	0	1.00
1422657--1422715	24	2.5	24	80	5	66	23	38	22	15	1.92
1422664--1422710	18	2.6	18	86	0	67	23	36	23	17	1.95
1424586--1425132	278	2.0	273	93	2	925	34	19	17	28	1.94
1432013--1432094	3	26.3	3	73	11	58	6	6	59	28	1.45
1435080--1435154	24	3.1	24	98	0	141	34	33	10	21	1.88
1439022--1439054	13	2.4	14	90	5	50	33	6	33	27	1.81
1439209--1439246	17	2.2	17	90	0	58	7	5	26	60	1.46
1440007--1440051	23	2.0	23	86	0	63	62	0	0	37	0.96
1440010--1440058	18	2.6	18	80	6	53	63	0	0	36	0.95
1454621--1454647	14	1.9	14	100	0	54	55	14	14	14	1.70
1459467--1459517	25	2.0	25	84	0	66	54	7	9	27	1.60
1462242--1462277	18	2.0	18	100	0	72	27	16	0	55	1.42
1466426--1466467	20	2.1	20	86	0	57	54	9	11	23	1.66
1467072--1467111	19	2.3	16	87	12	53	57	0	2	40	1.12
1467072--1467117	17	2.7	18	80	16	53	58	0	2	39	1.10
1467253--1467313	21	3.0	21	73	15	58	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467437--1467476	13	3.1	14	79	17	50	52	0	0	47	1.00
1467962--1468008	23	2.0	23	84	8	60	53	0	2	44	1.12
1472588--1472639	25	2.1	25	100	0	104	42	11	19	26	1.85
1480522--1480562	2	20.0	2	85	5	55	48	7	0	43	1.30
1495995--1496202	3	67.3	3	67	22	85	0	34	7	57	1.30
1495995--1496239	24	9.6	25	76	16	143	0	35	7	57	1.30
1496019--1496110	17	4.7	19	69	27	68	0	33	6	59	1.23
1495995--1496154	57	3.0	56	77	18	169	0	34	7	58	1.26
1496047--1496223	48	3.6	50	81	10	204	0	36	7	55	1.32
1496051--1496226	72	2.4	73	85	5	228	0	36	7	55	1.32
1497220--1497320	51	2.0	51	94	0	175	34	20	13	30	1.92
1506540--1506583	21	2.1	21	83	8	54	63	0	2	34	1.07
1506648--1506695	2	24.0	2	86	0	69	47	4	2	45	1.33
1528859--1528904	22	2.1	22	95	0	83	28	21	10	39	1.87
1533157--1533182	2	13.0	2	100	0	52	50	0	0	50	1.00
1542897--1543019	39	3.2	39	100	0	246	30	15	13	39	1.86
1549994--1550102	41	2.8	38	80	10	121	63	6	5	24	1.40
1550707--1550743	18	2.1	18	89	0	56	37	0	10	51	1.37
1550708--1550743	14	2.6	14	90	0	54	36	0	11	52	1.37
1551151--1551193	22	2.0	22	86	9	61	41	0	0	58	0.98
1558965--1559027	22	2.8	23	78	9	67	61	4	3	30	1.32
1558863--1559322	216	2.2	211	84	5	608	46	3	6	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559302--1559347	2	24.5	2	80	12	53	47	2	0	50	1.13
1563949--1563995	24	2.0	24	87	8	69	76	0	0	23	0.78
1563953--1564090	19	7.0	18	68	17	71	73	1	2	23	1.03
1563952--1564097	31	4.6	30	68	24	86	71	1	2	23	1.06
1577811--1577870	20	3.0	20	79	13	61	53	1	0	45	1.10
1577832--1577869	19	2.0	20	89	5	60	50	2	0	47	1.15
1602264--1602366	51	2.0	51	100	0	206	21	21	24	33	1.97
1605594--1605653	24	2.6	23	77	12	61	41	0	0	58	0.98
1605789--1605830	18	2.3	19	80	12	52	35	0	0	64	0.94
1605960--1605994	16	2.2	16	90	5	54	40	0	0	60	0.97
1627065--1627115	22	2.3	22	89	0	75	23	3	19	52	1.62
1627255--1627326	22	3.2	22	88	7	92	55	20	4	19	1.59
1627265--1627327	23	2.8	22	92	4	108	55	20	3	20	1.57
1627444--1627571	60	2.1	60	81	4	141	44	14	10	31	1.78
1627998--1628039	21	2.0	21	100	0	84	57	9	9	23	1.60
1628550--1628712	81	2.0	81	93	0	281	28	26	15	28	1.96
1628848--1628899	26	2.0	26	88	7	79	36	26	13	23	1.92
1628901--1629013	59	1.9	59	98	0	217	34	24	16	23	1.95
1629722--1629759	2	19.0	2	100	0	76	50	0	0	50	1.00
1630363--1630388	2	13.0	2	100	0	52	50	0	0	50	1.00
1633386--1633434	17	3.1	17	72	22	61	53	4	0	42	1.20
1633375--1633434	30	2.0	30	93	6	104	53	3	0	43	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638968--1639242	24	10.9	24	65	23	79	66	0	1	30	1.07
1638963--1639213	47	5.1	47	70	21	126	66	0	1	31	1.09
1639086--1639415	110	3.1	104	84	9	380	64	0	3	32	1.13
1639086--1639415	106	3.1	106	81	11	395	64	0	3	32	1.13
1638969--1639422	29	15.0	29	66	25	101	65	0	2	31	1.11
1654468--1654501	12	2.8	12	86	0	50	88	2	8	0	0.62
1673988--1674030	2	21.5	2	100	0	86	48	0	0	51	1.00
1674498--1674557	31	2.0	30	86	3	84	41	6	13	38	1.70
1678035--1678063	2	14.5	2	100	0	58	48	0	51	0	1.00
1680210--1680415	108	1.9	108	89	0	322	37	11	3	47	1.58
1681409--1681458	24	2.1	24	81	7	57	30	22	22	26	1.99
1682853--1682877	5	5.0	5	100	0	50	0	80	0	20	0.72
1683662--1683691	2	15.0	2	100	0	60	50	0	0	50	1.00
1690690--1690723	2	17.5	2	87	6	52	0	47	0	52	1.00
1690735--1690833	48	2.1	48	92	0	162	52	12	15	20	1.74
1691933--1691966	17	2.1	17	94	5	61	47	0	0	52	1.00
1692916--1692948	14	2.4	14	85	5	50	84	0	15	0	0.61
1692962--1693008	10	4.7	10	79	10	51	65	4	29	0	1.11
1693037--1693072	10	3.3	11	92	7	56	63	0	36	0	0.94
1695864--1695895	3	10.7	3	100	0	64	34	0	0	65	0.93
1697189--1697224	2	18.0	2	94	0	63	0	47	0	52	1.00
1697725--1697776	26	2.1	24	85	7	68	3	28	5	61	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697725--1697777	28	2.0	24	86	13	70	3	30	5	60	1.37
1698924--1698963	21	1.9	21	89	0	62	52	40	5	2	1.37
1704582--1704637	4	13.8	4	82	17	55	26	1	0	71	0.96
1704984--1705014	15	2.1	15	100	0	62	38	6	25	29	1.81
1705045--1705125	19	4.1	19	81	12	108	34	20	19	24	1.96
1705037--1705101	23	3.0	23	76	15	84	29	21	18	30	1.97
1705037--1705120	42	2.0	42	100	0	168	30	21	19	28	1.97
1705797--1706063	90	3.0	87	80	12	271	22	8	34	33	1.86
1705896--1706074	90	2.0	90	94	0	313	22	7	35	34	1.82
1705993--1706118	63	2.0	63	93	0	216	26	4	34	33	1.78

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