genome.fa.s7.2.7.7.80.10.50.1000.4.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_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  4  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)
1193421--1193460	20	2.0	20	100	0	80	20	15	5	60	1.53
1200394--1200431	21	1.9	20	89	10	60	28	0	7	63	1.23
1225655--1225698	15	2.9	15	80	16	54	52	4	0	43	1.22
1225260--1226082	335	2.3	343	82	10	884	40	7	7	45	1.60
1226011--1226043	15	2.1	17	88	11	52	51	9	0	39	1.34
1244852--1244889	17	2.2	17	86	9	51	60	2	0	36	1.11
1248035--1248076	18	2.3	18	95	0	75	38	14	9	38	1.78
1248734--1248790	26	2.2	27	78	12	66	35	1	1	61	1.17
1250053--1250086	10	3.3	10	84	8	50	55	5	0	38	1.24
1250450--1250484	17	2.1	17	100	0	70	60	11	11	17	1.59
1250810--1250843	18	1.9	18	94	5	61	47	2	0	50	1.16
1256143--1256202	26	2.2	26	85	8	75	43	0	3	53	1.17
1256143--1256250	14	7.9	14	67	26	54	42	1	1	53	1.22
1256149--1256250	41	2.5	39	80	16	118	42	1	1	53	1.23
1256180--1256258	17	4.1	18	75	15	61	39	2	1	56	1.21
1256338--1256554	42	5.5	41	75	13	168	39	1	2	55	1.25
1256431--1256468	18	2.2	18	85	4	51	31	0	2	65	1.06
1256414--1256468	17	3.2	17	79	7	58	27	0	1	70	0.97
1256460--1256527	20	3.3	20	73	15	75	47	2	1	48	1.26
1256480--1256549	22	3.3	22	71	15	74	44	2	2	50	1.31
1256468--1256536	20	3.3	20	66	7	57	47	4	2	44	1.37
1256492--1256564	20	3.5	20	68	14	58	43	2	1	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256564--1256628	27	2.4	28	84	2	87	41	1	3	53	1.25
1260172--1260354	91	2.0	91	92	0	303	31	10	21	36	1.87
1285759--1285818	29	2.1	29	84	12	79	71	0	11	16	1.14
1285835--1285905	22	3.3	22	82	7	83	43	1	5	49	1.35
1294800--1294841	21	2.1	20	91	8	68	14	7	19	59	1.57
1294800--1294855	21	2.8	21	78	10	55	17	5	16	60	1.53
1301819--1301849	6	5.2	6	96	0	53	48	0	51	0	1.00
1302011--1302098	29	3.0	29	78	9	97	38	0	0	61	0.96
1302024--1302102	30	2.8	28	78	10	90	37	0	0	62	0.96
1302032--1302070	19	2.0	20	85	5	53	35	0	0	64	0.94
1302014--1302112	32	3.3	30	80	10	105	42	1	0	56	1.06
1303820--1303865	22	2.1	22	84	8	58	26	0	2	71	0.97
1304266--1304378	53	2.1	53	82	6	131	34	15	1	48	1.55
1304578--1304617	3	13.3	3	100	0	80	32	0	0	67	0.91
1304972--1305018	24	2.0	24	86	0	67	44	6	12	36	1.68
1310672--1310745	29	2.5	30	80	6	87	31	9	10	48	1.70
1311412--1311450	20	1.9	21	84	5	53	43	7	20	28	1.79
1326164--1326189	13	2.0	13	100	0	52	84	0	0	15	0.62
1329222--1329346	62	2.0	62	92	0	205	32	12	9	45	1.74
1332214--1332275	15	3.8	16	73	12	54	32	1	3	62	1.20
1332217--1332357	32	4.2	33	74	17	112	29	1	1	68	1.07
1332292--1332421	5	25.0	5	70	14	59	27	1	0	70	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332291--1332372	21	4.2	21	69	20	70	26	1	0	71	0.93
1332231--1332421	7	26.3	7	66	24	60	28	1	1	69	1.05
1332291--1332421	52	2.5	54	84	9	157	27	1	0	70	1.02
1332364--1332427	33	1.9	34	84	12	80	28	1	1	68	1.07
1333015--1333058	7	6.1	7	81	2	52	63	0	0	36	0.95
1333013--1333060	21	2.3	22	85	7	64	60	0	0	39	0.97
1333816--1333841	3	8.7	3	100	0	52	0	34	0	65	0.93
1360375--1360419	22	2.0	22	91	0	72	17	26	28	26	1.98
1363398--1363484	42	2.1	42	88	0	129	28	21	18	31	1.97
1364713--1364975	129	2.0	129	82	3	316	36	21	12	30	1.90
1381844--1381910	35	1.9	34	84	3	89	20	11	26	40	1.88
1385003--1385046	19	2.3	19	84	7	54	77	0	6	15	0.97
1389379--1389789	211	1.9	211	93	0	705	31	19	20	28	1.97
1394236--1394274	20	2.0	20	84	0	51	43	20	15	20	1.88
1410515--1410569	17	3.3	16	80	7	56	3	14	1	80	0.94
1410515--1410570	24	2.2	26	84	15	73	3	14	1	80	0.93
1410531--1410591	12	5.3	11	73	9	50	6	14	0	78	0.94
1417610--1417665	21	2.7	23	73	15	59	39	0	0	60	0.97
1420224--1420267	21	2.0	22	86	4	63	61	9	0	29	1.27
1430571--1430603	10	3.4	10	87	8	50	63	12	0	24	1.28
1430571--1430604	9	3.7	9	92	4	50	61	11	0	26	1.30
1430928--1430999	32	2.3	31	88	7	108	26	18	29	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437305--1437495	95	2.0	95	96	0	355	26	28	9	35	1.89
1453039--1453081	21	2.0	21	86	8	61	25	18	4	51	1.66
1456162--1456351	79	2.4	80	80	3	204	35	20	14	29	1.92
1457688--1457721	18	1.9	18	88	5	52	50	0	23	26	1.50
1460984--1461030	17	2.8	17	100	0	94	46	12	4	36	1.62
1462625--1462763	73	1.9	73	80	2	163	37	19	16	26	1.93
1466467--1466511	15	3.1	15	87	9	67	51	0	2	46	1.13
1474524--1475035	23	22.5	23	68	9	187	36	10	29	22	1.88
1474772--1475035	69	3.8	70	77	2	257	37	9	29	23	1.87
1476789--1476840	23	2.2	25	89	6	81	50	0	1	48	1.12
1476792--1476845	19	3.1	19	75	22	64	46	0	3	50	1.19
1476808--1476854	19	2.5	19	78	0	58	42	2	4	51	1.33
1492167--1492209	14	3.0	15	76	10	54	67	4	0	27	1.10
1492151--1492208	28	2.1	28	87	6	82	68	6	1	22	1.22
1493158--1493197	21	1.9	21	85	10	55	57	5	7	30	1.48
1498627--1498659	2	17.0	2	93	6	59	0	0	51	48	1.00
1505675--1505714	21	1.9	21	84	0	53	50	10	32	7	1.64
1505707--1505740	12	2.8	12	95	0	59	38	14	32	14	1.87
1507033--1507075	18	2.4	18	88	0	59	48	23	27	0	1.51
1513933--1514045	60	1.9	60	83	0	145	31	7	19	40	1.80
1514268--1514328	23	2.7	23	81	0	77	27	9	26	36	1.88
1514147--1514339	22	8.6	22	74	5	82	29	8	19	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514455--1514516	22	2.9	21	82	4	61	51	9	4	33	1.56
1514774--1514811	19	2.0	20	89	5	60	63	0	5	31	1.17
1517384--1517427	18	2.4	18	85	11	54	47	2	0	50	1.13
1518906--1518946	2	20.5	2	100	0	82	51	0	0	48	1.00
1525431--1525493	26	2.5	25	94	5	117	28	7	30	33	1.86
1536341--1536429	37	2.4	37	81	3	90	42	16	19	21	1.89
1536379--1536504	37	3.4	37	74	0	99	38	23	21	17	1.93
1536924--1537090	73	2.3	73	82	0	199	37	16	20	25	1.94
1539626--1539724	36	2.8	36	76	4	103	31	25	14	29	1.94
1541477--1541538	31	2.1	30	84	6	81	41	4	12	40	1.65
1546938--1546984	21	2.2	21	85	7	69	27	2	0	70	0.99
1550591--1550624	17	2.0	17	88	11	52	41	14	0	44	1.45
1550765--1550932	29	5.8	28	77	10	149	38	9	8	42	1.69
1552137--1552185	16	2.8	17	82	14	64	36	2	4	57	1.30
1552137--1552185	19	2.8	18	87	9	66	36	2	4	57	1.30
1564375--1564493	58	2.1	56	87	6	168	36	9	16	36	1.81
1567950--1567983	16	2.1	16	88	0	50	32	0	17	50	1.47
1568816--1568885	34	2.1	34	89	5	106	37	15	17	30	1.91
1570543--1570573	15	2.1	15	93	0	53	58	9	0	32	1.31
1574295--1574434	35	4.0	34	85	9	176	30	7	15	46	1.73
1574295--1574434	71	2.0	69	84	8	185	30	7	15	46	1.73
1574299--1574455	69	2.2	71	82	7	178	33	7	15	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577101--1577140	18	2.2	18	91	8	64	32	35	2	30	1.71
1578176--1578216	22	1.9	21	85	5	55	51	4	0	43	1.23
1578584--1578620	18	2.1	18	89	0	56	35	13	8	43	1.74
1582058--1582100	2	21.5	2	95	0	59	48	6	0	44	1.29
1583362--1583390	2	14.5	2	100	0	58	51	48	0	0	1.00
1589580--1589607	14	2.0	14	100	0	56	21	0	28	50	1.49
1589657--1589698	21	2.0	21	95	4	77	35	2	23	38	1.68
1589959--1590468	257	2.0	257	85	4	690	46	7	12	33	1.69
1591757--1592685	252	3.7	252	81	6	1004	36	10	5	47	1.63
1591710--1592685	504	1.9	505	80	5	1141	36	11	6	46	1.64

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