genome.fa.s19.2.7.7.80.10.50.1000.4.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_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3572271

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1018 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)
1184832--1184946	35	3.3	35	75	9	110	47	24	12	15	1.79
1190476--1190574	35	2.8	35	81	3	101	46	21	16	16	1.84
1199955--1199992	20	1.9	20	88	0	58	71	5	18	5	1.25
1205195--1205237	22	2.0	22	85	0	59	58	4	0	37	1.19
1206209--1206261	22	2.4	23	84	12	76	64	0	0	35	0.94
1206224--1206266	22	1.9	22	85	4	59	67	0	2	30	1.03
1208275--1208319	24	1.9	24	86	4	65	20	8	57	13	1.62
1208992--1209185	27	7.1	28	72	12	136	38	14	9	36	1.80
1208961--1209198	55	4.3	55	81	4	160	38	15	8	37	1.78
1208962--1209185	27	8.2	26	70	13	121	39	15	8	36	1.78
1209577--1209652	24	3.1	24	83	11	75	43	0	0	56	0.99
1211082--1211130	19	2.6	18	87	9	64	38	10	20	30	1.86
1211554--1211601	18	2.7	17	80	3	51	18	20	0	60	1.36
1213186--1213238	26	2.0	26	85	7	72	45	11	13	30	1.78
1217739--1217783	19	2.4	19	80	0	54	17	31	0	51	1.46
1220062--1220088	6	4.5	6	100	0	54	0	14	0	85	0.61
1229063--1229285	74	3.0	73	86	5	306	42	13	18	25	1.87
1236216--1236257	19	2.2	19	91	0	66	38	9	9	42	1.70
1238070--1238277	74	2.8	74	81	4	240	43	14	16	25	1.86
1262419--1262555	53	2.5	54	79	4	159	42	12	14	30	1.83
1272230--1272276	24	2.0	24	86	0	67	51	0	4	44	1.21
1273312--1273514	76	2.7	75	79	6	212	38	8	38	13	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279172--1279206	2	17.5	2	100	0	70	48	0	0	51	1.00
1281305--1281353	2	27.0	2	76	19	54	57	0	42	0	0.99
1281307--1281353	7	6.6	7	95	4	85	57	0	42	0	0.98
1285015--1285052	6	6.7	6	88	11	62	86	0	13	0	0.56
1290370--1290486	53	2.2	54	85	3	164	29	14	11	45	1.79
1291855--1291893	2	19.5	2	94	0	69	51	0	0	48	1.00
1295541--1295579	2	19.5	2	94	0	69	53	0	0	46	1.00
1296715--1296752	2	19.0	2	100	0	76	50	0	0	50	1.00
1309351--1309394	21	2.0	22	91	4	72	61	6	0	31	1.22
1315078--1315116	21	1.9	20	84	5	51	43	15	15	25	1.86
1327394--1327465	14	5.4	13	73	17	58	66	1	0	31	1.00
1327421--1327454	17	1.9	18	94	5	61	67	0	0	32	0.91
1327396--1327490	47	2.0	48	84	10	124	65	3	0	31	1.08
1327392--1327466	18	4.2	17	72	24	57	66	1	0	32	1.00
1328438--1328628	72	2.6	73	78	8	174	52	19	9	18	1.73
1329036--1329062	14	1.9	14	100	0	54	51	14	11	22	1.73
1329258--1329290	4	8.2	4	93	0	57	48	24	3	24	1.65
1338865--1338955	3	30.3	3	88	0	83	30	9	2	57	1.44
1347122--1347540	85	5.0	85	83	4	467	45	8	6	40	1.60
1347184--1347542	40	8.4	43	68	23	190	45	8	6	39	1.61
1347122--1347542	170	2.5	169	85	3	539	45	8	6	40	1.59
1357857--1357939	31	2.8	30	79	3	78	50	27	9	12	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357898--1357962	29	2.2	29	83	2	76	55	24	6	13	1.61
1369382--1369592	115	1.8	115	89	0	332	39	11	10	38	1.76
1380707--1380771	28	2.3	28	92	5	105	47	9	10	32	1.70
1381475--1381610	40	3.5	39	78	8	152	26	19	19	35	1.95
1381505--1381646	36	3.8	36	75	12	135	23	20	21	34	1.97
1381475--1381654	76	2.4	76	89	0	270	25	19	19	35	1.95
1385106--1385394	63	4.5	63	82	7	334	20	16	13	49	1.79
1392158--1392256	51	1.9	51	87	0	144	28	24	14	33	1.94
1392216--1392294	38	2.1	38	90	0	122	27	22	16	32	1.96
1392657--1392909	82	3.2	81	87	4	327	39	6	10	43	1.64
1399854--1399892	18	2.2	18	90	0	60	33	17	15	33	1.92
1410313--1410450	69	2.0	69	97	0	258	26	10	22	41	1.85
1413171--1413251	29	2.8	30	83	5	94	45	9	28	16	1.79
1416447--1417477	352	2.9	344	81	5	1111	36	7	22	33	1.82
1431671--1431724	21	2.6	21	87	0	72	18	18	25	37	1.94
1431711--1431815	23	4.6	23	85	1	140	23	13	29	33	1.93
1431835--1431908	22	3.4	22	77	3	78	44	25	8	21	1.79
1437826--1437929	51	2.0	51	83	7	131	32	13	27	25	1.94
1438134--1438241	53	2.0	53	94	0	189	37	12	21	28	1.90
1439672--1439712	20	2.0	20	85	0	55	29	12	14	43	1.82
1443833--1443873	20	2.0	20	95	0	73	46	12	19	21	1.82
1457220--1457270	26	2.0	26	88	0	75	25	23	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460189--1460224	1	36.0	1	100	0	72	0	100	0	0	0.00
1465959--1465987	4	7.2	4	100	0	58	24	24	0	51	1.48
1469977--1470009	3	11.0	3	100	0	66	66	0	0	33	0.92
1470392--1470519	59	2.1	59	85	5	168	25	33	13	27	1.93
1475162--1475206	23	2.0	23	90	0	72	40	11	20	28	1.86
1475808--1475849	18	2.3	19	83	4	50	19	0	21	59	1.38
1478971--1479059	20	4.6	20	71	8	60	62	10	1	25	1.33
1480983--1481041	25	2.4	25	82	0	64	30	25	13	30	1.94
1490971--1490999	2	14.5	2	100	0	58	48	0	0	51	1.00
1491209--1491243	16	2.1	16	89	5	52	45	5	20	28	1.73
1491502--1491543	19	2.2	19	95	0	75	16	9	30	42	1.80
1501988--1502027	19	2.2	19	86	4	55	50	0	5	45	1.23
1503042--1503086	13	3.2	14	84	9	56	71	0	26	2	0.98
1507886--1507919	16	2.2	16	94	5	61	17	2	11	67	1.34
1508997--1509029	17	2.0	17	88	5	50	39	6	15	39	1.72
1519344--1519370	6	4.5	6	100	0	54	33	0	18	48	1.49
1524459--1524505	22	2.1	23	84	11	62	29	6	14	48	1.69
1528653--1528682	2	15.0	2	100	0	60	50	0	0	50	1.00
1535750--1535791	15	2.6	16	85	7	50	57	0	40	2	1.12
1536652--1536703	20	2.4	23	75	21	67	5	32	0	61	1.20
1542599--1542646	19	2.6	19	93	3	80	62	0	0	37	0.95
1544684--1544713	2	15.0	2	92	0	51	50	3	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550881--1550905	10	2.5	10	100	0	50	48	12	0	40	1.40
1553294--1553359	26	2.5	26	87	0	96	19	12	7	60	1.55
1553657--1553755	23	4.3	23	76	5	74	37	12	22	28	1.90
1553720--1553778	23	2.7	23	84	10	70	37	3	27	32	1.73
1559699--1559737	20	1.9	21	89	5	62	71	0	25	2	0.98
1559591--1559806	66	3.2	66	80	9	179	61	5	31	1	1.27
1559762--1559796	8	4.2	8	88	3	52	82	0	17	0	0.66
1562755--1563572	203	4.0	203	89	0	1138	40	26	11	21	1.88
1563113--1563165	22	2.4	22	84	6	72	45	24	11	18	1.82
1565025--1565083	22	2.7	22	75	0	64	42	25	11	20	1.86
1565089--1565136	15	3.2	15	90	0	78	41	18	6	33	1.76
1567047--1567102	29	1.9	29	92	0	94	12	14	12	60	1.59
1568121--1568157	18	2.0	19	89	5	58	29	16	8	45	1.76
1581050--1581091	19	2.2	19	100	0	84	40	19	0	40	1.51
1586996--1587503	60	8.4	60	78	5	445	35	11	16	36	1.85
1586999--1587503	120	4.2	121	81	4	504	35	11	16	36	1.85
1586996--1587503	180	2.8	176	81	5	545	35	11	16	36	1.85
1587630--1587664	6	5.8	6	89	0	52	17	5	0	77	0.96
1587636--1587670	17	2.0	17	94	5	61	17	5	0	77	0.96
1587923--1587964	21	2.0	21	90	4	66	73	4	16	4	1.17
1593750--1593902	35	4.4	35	82	4	195	44	13	5	36	1.67
1611525--1611565	21	2.0	21	85	9	57	60	2	4	31	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612445--1612477	2	16.5	2	93	0	57	45	0	0	54	0.99
1617168--1617243	30	2.5	31	79	10	86	15	13	32	38	1.86
1619801--1619847	22	2.1	22	92	0	76	21	17	14	46	1.83
1620536--1620563	2	14.0	2	100	0	56	50	0	0	50	1.00
1621448--1621475	6	4.7	6	100	0	56	50	17	0	32	1.47
1625081--1625118	20	2.0	20	89	5	60	28	18	13	39	1.88
1638177--1638254	28	2.8	28	80	3	95	41	19	16	23	1.90
1643926--1643972	24	2.0	24	86	0	67	51	10	17	21	1.75
1646928--1646986	24	2.5	25	81	15	72	55	0	1	42	1.09
1653313--1653355	2	21.5	2	95	0	77	46	0	2	51	1.13

Tables:   1   2   3   4   5   6   7   8   9