genome.fa.s22.2.7.7.80.10.50.1000.4.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_018397275.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_34.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2955990

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 891 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)
1332460--1332490	16	1.9	16	100	0	62	58	12	6	22	1.58
1336400--1336446	12	4.0	12	86	13	71	0	42	14	42	1.46
1343435--1343477	17	2.7	15	86	13	68	58	9	0	32	1.30
1347367--1347420	20	2.7	20	82	5	65	27	18	12	40	1.87
1351333--1351418	41	2.1	42	80	6	95	37	4	18	39	1.72
1352001--1352050	23	2.2	23	82	7	57	72	0	2	26	0.96
1352422--1352539	59	2.0	59	85	3	157	47	17	15	19	1.83
1353297--1353324	2	14.0	2	100	0	56	50	0	0	50	1.00
1359811--1359859	12	4.1	12	84	10	64	46	16	36	0	1.47
1359810--1359857	24	2.0	24	88	8	71	43	16	39	0	1.48
1362756--1362796	21	2.0	21	86	9	59	31	0	9	58	1.31
1373608--1373648	10	4.0	10	81	6	55	60	4	7	26	1.43
1381279--1381327	21	2.4	20	80	6	53	63	10	2	24	1.37
1383650--1383689	21	1.9	21	89	0	62	37	10	17	35	1.83
1385501--1385985	243	2.0	243	85	3	654	38	15	12	33	1.85
1391417--1391449	14	2.4	14	90	5	50	75	0	3	21	0.93
1394579--1394749	59	2.9	59	83	1	227	39	23	9	28	1.85
1395488--1395563	31	2.5	31	82	0	89	21	18	2	57	1.52
1396085--1396115	15	2.1	15	100	0	62	19	19	6	54	1.65
1397641--1397885	102	2.4	102	77	6	255	27	16	13	42	1.85
1399301--1399343	22	2.0	22	100	0	86	23	27	9	39	1.85
1403404--1403430	12	2.2	12	100	0	54	29	11	7	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403756--1403853	42	2.3	42	77	8	108	17	25	3	54	1.57
1404294--1404389	39	2.4	38	81	10	106	18	30	4	46	1.68
1404665--1404722	26	2.2	26	93	0	98	37	6	15	39	1.74
1404674--1404732	26	2.3	26	84	0	73	49	5	13	32	1.64
1408226--1408333	53	2.0	53	100	0	216	31	17	7	43	1.77
1409157--1409220	29	2.2	29	88	0	92	46	17	10	25	1.80
1408916--1409306	129	3.1	127	79	4	403	42	13	14	29	1.83
1409074--1409511	227	2.0	220	80	7	490	41	13	14	30	1.84
1409196--1409378	99	1.8	99	84	2	251	41	12	16	30	1.84
1409196--1409406	99	2.1	98	79	1	233	43	11	15	30	1.81
1409300--1409636	128	2.7	126	81	6	364	42	11	14	32	1.81
1409300--1409639	122	2.7	124	81	5	391	42	11	14	32	1.81
1408959--1409645	349	1.9	354	81	5	838	41	13	14	31	1.84
1409900--1410051	75	2.0	74	83	6	191	48	7	25	17	1.74
1412120--1412257	68	2.0	68	90	0	213	31	13	8	46	1.74
1412416--1412444	14	2.0	15	93	6	51	48	0	0	51	1.00
1412632--1412806	94	1.9	94	85	7	248	37	17	16	29	1.91
1417406--1417467	31	2.0	31	87	0	88	11	48	8	32	1.68
1418311--1419096	347	2.3	347	81	6	921	44	4	11	40	1.60
1422733--1422791	20	3.0	20	78	14	68	37	5	18	38	1.73
1437605--1437675	35	2.0	35	97	0	133	35	8	9	46	1.67
1440207--1440488	144	2.0	145	87	4	410	34	10	11	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447107--1447142	17	2.1	17	100	0	72	38	5	38	16	1.72
1449823--1449978	57	2.7	57	78	8	156	41	10	7	41	1.67
1449823--1449978	29	5.4	28	74	10	127	41	10	7	41	1.67
1456111--1456218	57	1.9	57	88	0	162	41	9	10	38	1.71
1456085--1456235	28	5.3	28	77	10	137	41	8	11	38	1.73
1456111--1456245	57	2.4	56	82	6	146	41	8	10	39	1.71
1456380--1456414	17	2.1	17	89	10	54	37	0	14	48	1.44
1461470--1461525	21	2.6	22	78	18	73	0	39	0	60	0.97
1461499--1461547	14	3.6	13	83	8	53	0	28	0	71	0.86
1461499--1461547	17	2.9	17	82	11	57	0	28	0	71	0.86
1462045--1462122	40	2.0	40	87	10	115	38	16	19	25	1.92
1465112--1465340	35	6.5	35	84	2	260	44	13	7	34	1.71
1465112--1465367	71	3.6	71	82	2	295	44	13	7	34	1.71
1465112--1465367	106	2.4	106	82	5	288	44	13	7	34	1.71
1467175--1467202	14	2.0	14	100	0	56	28	21	7	42	1.79
1488221--1488271	21	2.4	21	100	0	102	43	15	19	21	1.88
1501993--1502040	25	1.9	25	87	8	71	29	6	6	58	1.47
1508245--1508398	64	2.4	65	83	5	188	29	25	16	28	1.97
1508245--1508408	65	2.5	64	82	4	204	29	24	17	28	1.97
1510442--1510588	74	2.0	74	95	0	267	30	8	14	45	1.76
1518144--1518195	26	2.1	24	82	7	59	30	11	17	40	1.85
1518433--1518466	5	6.8	5	93	0	59	2	17	0	79	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528692--1528725	2	17.0	2	100	0	68	50	0	0	50	1.00
1537971--1538012	21	2.0	20	86	4	57	42	7	2	47	1.43
1539067--1539104	2	19.5	2	84	15	53	47	2	0	50	1.15
1539057--1539119	21	3.0	21	78	19	69	46	4	0	49	1.23
1538884--1539289	206	1.9	210	85	4	563	41	7	3	47	1.49
1540601--1540781	90	2.0	90	100	0	362	30	20	12	36	1.90
1546481--1546519	2	19.5	2	100	0	78	51	0	0	48	1.00
1555222--1555255	2	17.0	2	100	0	68	50	0	0	50	1.00
1555843--1556258	106	4.0	103	78	10	393	43	12	7	35	1.72
1555843--1556237	203	1.9	203	84	4	528	43	12	7	35	1.72
1563581--1563634	28	1.9	28	88	0	81	59	12	1	25	1.44
1573368--1573409	22	1.9	22	90	9	68	47	0	4	47	1.23
1573176--1573604	207	2.1	208	81	9	509	46	3	7	41	1.49
1580543--1580612	29	2.4	29	80	4	79	34	8	17	40	1.80
1580562--1580621	29	2.1	29	87	0	84	35	8	23	33	1.85
1580567--1580636	29	2.4	29	83	2	79	34	7	22	35	1.82
1580656--1580698	22	1.9	23	90	4	70	37	20	11	30	1.89
1580743--1580777	2	17.5	2	100	0	70	51	0	0	48	1.00
1582888--1582956	36	1.9	36	85	5	95	62	7	11	18	1.51
1584399--1584437	15	2.7	14	85	14	53	33	0	0	66	0.92
1590165--1590252	27	3.3	27	81	0	104	39	4	10	45	1.59
1595824--1595986	87	1.9	88	85	1	229	29	15	22	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596001--1596137	31	4.4	31	79	6	143	29	14	18	36	1.91
1600731--1600779	25	2.0	25	84	8	64	4	14	4	77	1.06
1610735--1610788	15	3.7	15	75	5	65	46	0	11	42	1.39
1618361--1618392	2	16.0	2	93	0	55	46	3	0	50	1.17
1619248--1619356	53	2.1	53	92	0	182	17	14	22	45	1.84
1621132--1621172	21	2.0	21	90	4	66	46	19	12	21	1.82
1624320--1624370	22	2.3	21	80	9	57	27	0	25	47	1.53
1640483--1640510	9	3.1	9	100	0	56	10	46	0	42	1.38
1651742--1651768	2	13.5	2	100	0	54	51	0	48	0	1.00
1651931--1651964	16	2.1	16	88	0	50	52	2	38	5	1.41
1655792--1655863	19	3.7	20	74	20	71	37	1	0	61	1.05
1656881--1656946	30	2.2	30	81	10	73	30	9	6	54	1.56
1663815--1663868	27	2.0	27	89	7	83	38	7	11	42	1.68
1666657--1666826	55	3.2	50	73	23	166	32	3	0	62	1.16
1666681--1666753	22	3.5	21	85	12	89	31	0	0	68	0.90
1666604--1666833	112	2.0	113	94	1	399	33	3	0	63	1.15
1666785--1666870	33	2.6	33	85	5	102	29	2	0	68	1.02
1666906--1666981	33	2.4	34	85	14	108	27	1	0	71	0.95
1666916--1666977	15	3.9	15	74	24	56	27	1	0	70	0.96
1669561--1669590	15	2.1	15	93	6	53	43	0	0	56	0.99
1669920--1669961	14	3.0	14	86	6	50	40	4	2	52	1.35
1670087--1670121	18	2.1	16	89	10	52	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670946--1670987	14	2.9	15	78	7	50	54	0	0	45	0.99
1671358--1671409	27	1.9	27	88	0	77	48	0	3	48	1.20
1673499--1673535	19	2.0	18	89	5	56	67	0	0	32	0.91
1675329--1675394	24	2.8	24	79	6	64	48	0	1	50	1.10
1675326--1675382	24	2.3	26	81	9	73	43	0	1	54	1.10
1677488--1677564	28	2.6	29	79	6	84	59	0	1	38	1.06
1677498--1677566	28	2.5	27	81	9	86	59	0	1	39	1.06
1677997--1678041	22	2.0	22	91	8	74	20	2	4	73	1.11
1678129--1678167	16	2.3	18	86	8	55	61	2	0	35	1.10
1678751--1678788	20	2.0	20	85	15	53	55	2	2	39	1.28

Tables:   1   2   3   4   5   6   7   8