Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 9 of 147
Found at i:1836463 original size:22 final size:22
Alignment explanation
Indices: 1836438--1836480 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1836428 AAAAAAATGA
**
1836438 AATATATATTTTATTTTTATTT
1 AATATATAGATTATTTTTATTT
1836460 AATATATAGATTATTTTTATT
1 AATATATAGATTATTTTTATT
1836481 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
AATATATAGATTATTTTTATTT
Found at i:1840462 original size:176 final size:176
Alignment explanation
Indices: 1840168--1840485 Score: 564
Period size: 176 Copynumber: 1.8 Consensus size: 176
1840158 CCTCATTCCG
* *
1840168 ACAGCAATTACGGACTTTGATAAATGAATCTTGAGTCTCATTGGAAGAATGCAAAAGTATTGATG
1 ACAGCAATTACGGACTTTGAGAAATGAATCTTGAGTCTCATCGGAAGAATGCAAAAGTATTGATG
* *
1840233 TTGTGACAACTGTGTTTTTTACTTGAAAGATTTTGATAAGCTCACAGTTTTGGTAAATGTTGAGG
66 TTGTGACAACTGTGTTTTTTACTTGAAAGATTTTGAAAAGCTCACAGTTTTGGTAAATGTTCAGG
1840298 ATGCAACCTGATGACTTCTGGTAATTTTCTTGCACCAGTTGGGGGA
131 ATGCAACCTGATGACTTCTGGTAATTTTCTTGCACCAGTTGGGGGA
* *
1840344 ACAGCAATTACGGACTTTGAGAAATGAATCTTGAGTCTCATCGGAAGAATGCAATAGTTTTGATG
1 ACAGCAATTACGGACTTTGAGAAATGAATCTTGAGTCTCATCGGAAGAATGCAAAAGTATTGATG
*
1840409 TTGTGACGACTGTGTTTTTTACTTGAAAGATTTTGAAAAGCTCACAGTTTTGGTAAATGTTCAGG
66 TTGTGACAACTGTGTTTTTTACTTGAAAGATTTTGAAAAGCTCACAGTTTTGGTAAATGTTCAGG
*
1840474 ATGGAACCTGAT
131 ATGCAACCTGAT
1840486 TATAAATATA
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 134 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (176 bp):
ACAGCAATTACGGACTTTGAGAAATGAATCTTGAGTCTCATCGGAAGAATGCAAAAGTATTGATG
TTGTGACAACTGTGTTTTTTACTTGAAAGATTTTGAAAAGCTCACAGTTTTGGTAAATGTTCAGG
ATGCAACCTGATGACTTCTGGTAATTTTCTTGCACCAGTTGGGGGA
Found at i:1841331 original size:19 final size:19
Alignment explanation
Indices: 1841307--1841346 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1841297 AATAAAATTC
1841307 ATTTATATTCGATTTATTT
1 ATTTATATTCGATTTATTT
* *
1841326 ATTTATATTTGGTTTATTT
1 ATTTATATTCGATTTATTT
1841345 AT
1 AT
1841347 GTAAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (19 bp):
ATTTATATTCGATTTATTT
Found at i:1841747 original size:21 final size:21
Alignment explanation
Indices: 1841713--1841754 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1841703 GGTATTGGGA
*
1841713 TGGGAGCTTATAGAAAAGTGC
1 TGGGACCTTATAGAAAAGTGC
*
1841734 TGGGACCTTGTAGAAAAGTGC
1 TGGGACCTTATAGAAAAGTGC
1841755 AAGTTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.33, T:0.24
Consensus pattern (21 bp):
TGGGACCTTATAGAAAAGTGC
Found at i:1842245 original size:30 final size:30
Alignment explanation
Indices: 1842211--1842277 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
1842201 AATCATCACT
** *
1842211 CAAATAAGTTTTTAA-CTATTAATTTGTATC
1 CAAATAAGTTCATAATCT-TTAATTTATATC
1842241 CAAATAAGTTCATAATCTTTAATTTATATC
1 CAAATAAGTTCATAATCTTTAATTTATATC
*
1842271 TAAATAA
1 CAAATAA
1842278 ACCCTTAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.43
Consensus pattern (30 bp):
CAAATAAGTTCATAATCTTTAATTTATATC
Found at i:1843852 original size:21 final size:19
Alignment explanation
Indices: 1843835--1843901 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
1843825 ACTTAATTCA
1843835 AATTTATATATATATAATT
1 AATTTATATATATATAATT
* *
1843854 TATTTATTTATATAT-ATGT
1 AATTTATATATATATAAT-T
1843873 GAA-TTATATA-A-A-AATT
1 -AATTTATATATATATAATT
1843889 AATTTATATATAT
1 AATTTATATATAT
1843902 TATATATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
15 2 0.05
16 8 0.21
17 4 0.11
18 3 0.08
19 20 0.53
20 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
AATTTATATATATATAATT
Found at i:1843959 original size:13 final size:13
Alignment explanation
Indices: 1843941--1843987 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1843931 TTTTTATATT
1843941 ATTTTTATTTTTA
1 ATTTTTATTTTTA
*
1843954 ATTTTTATATATATA
1 ATTTTTAT-T-TTTA
*
1843969 ATTTTTAGTTTTA
1 ATTTTTATTTTTA
1843982 ATTTTT
1 ATTTTT
1843988 TATATATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 17 0.59
14 2 0.07
15 10 0.34
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTTTA
Found at i:1843972 original size:28 final size:27
Alignment explanation
Indices: 1843931--1843994 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
1843921 TTAATTCTTA
*
1843931 TTTTTATAT-T-ATTTTTATTTTTAAT
1 TTTTTATATATAATTTTTAGTTTTAAT
1843956 TTTTATATATATAATTTTTAGTTTTAAT
1 TTTT-TATATATAATTTTTAGTTTTAAT
1843984 TTTTTATATAT
1 TTTTTATATAT
1843995 GTGAATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 8 0.23
28 18 0.51
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTTATATATAATTTTTAGTTTTAAT
Found at i:1845023 original size:16 final size:16
Alignment explanation
Indices: 1844970--1845024 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
1844960 TTTGAATAAT
1844970 TAATTTTTTATATATAA
1 TAATTTTTTATAT-TAA
**
1844987 T-ATTTGAATATGATT-A
1 TAATTT-TTTAT-ATTAA
1845003 TAATTTTTTATATTAA
1 TAATTTTTTATATTAA
1845019 TAATTT
1 TAATTT
1845025 CATAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.10
16 16 0.53
17 9 0.30
18 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TAATTTTTTATATTAA
Found at i:1845458 original size:30 final size:30
Alignment explanation
Indices: 1845422--1845483 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1845412 ATGAAATTTG
1845422 GTCAAACAGAGGAAGATTGCATGTGAATGT
1 GTCAAACAGAGGAAGATTGCATGTGAATGT
*
1845452 GTCAAACAGAGGAAGATTGGATGTGAATGT
1 GTCAAACAGAGGAAGATTGCATGTGAATGT
1845482 GT
1 GT
1845484 GCATCAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.24
Consensus pattern (30 bp):
GTCAAACAGAGGAAGATTGCATGTGAATGT
Found at i:1855683 original size:20 final size:21
Alignment explanation
Indices: 1855640--1855685 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1855630 TCTTATTTTT
***
1855640 ATTTTTTTCATTATTTATTCA
1 ATTTTTTTCATTATTTAAAAA
1855661 ATTTTTTTCATT-TTTAAAAA
1 ATTTTTTTCATTATTTAAAAA
1855681 ATTTT
1 ATTTT
1855686 ATAAATATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTTTCATTATTTAAAAA
Found at i:1856870 original size:25 final size:25
Alignment explanation
Indices: 1856842--1856912 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
1856832 AAATTATTAT
*
1856842 AATAACCTCTAATTATAATTACGAA
1 AATATCCTCTAATTATAATTACGAA
*
1856867 AATATCCTCTTAA-AATAATTACGAA
1 AATATCCTC-TAATTATAATTACGAA
1856892 AATATCACTC-ATATTATAATT
1 AATATC-CTCTA-ATTATAATT
1856913 GTCTAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 26 0.67
26 12 0.31
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.35
Consensus pattern (25 bp):
AATATCCTCTAATTATAATTACGAA
Found at i:1859142 original size:16 final size:16
Alignment explanation
Indices: 1859096--1859159 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
1859086 ATTAATTTAG
1859096 TTCATGAATA-TCATAAA
1 TTCATGAATAGT--TAAA
* *
1859113 TTCAT-AATTGGTTAAG
1 TTCATGAA-TAGTTAAA
1859129 TTCATGAATAGTTAAA
1 TTCATGAATAGTTAAA
*
1859145 TTCATGAATAATTAA
1 TTCATGAATAGTTAA
1859160 CTAACAGCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 30 0.77
17 8 0.21
18 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (16 bp):
TTCATGAATAGTTAAA
Found at i:1866830 original size:19 final size:19
Alignment explanation
Indices: 1866806--1866849 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1866796 TTATAATAAA
1866806 ATTTATTTATATTCGATTT
1 ATTTATTTATATTCGATTT
* *
1866825 ATTTATTTATATTTGGTTT
1 ATTTATTTATATTCGATTT
1866844 ATTTAT
1 ATTTAT
1866850 GTAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (19 bp):
ATTTATTTATATTCGATTT
Found at i:1869477 original size:21 final size:21
Alignment explanation
Indices: 1869421--1869478 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
1869411 TTATTAAACT
* *
1869421 TAATTCTTATTTTATATTATT
1 TAATTTTTATTTTATATTATA
*
1869442 TTATTTTTAACTTTTATA-TATA
1 TAATTTTT-A-TTTTATATTATA
1869464 TAATTTTTAGTTTTA
1 TAATTTTTA-TTTTA
1869479 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.40
22 11 0.37
23 7 0.23
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (21 bp):
TAATTTTTATTTTATATTATA
Found at i:1870969 original size:30 final size:30
Alignment explanation
Indices: 1870933--1870994 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1870923 TTGAAATTTG
1870933 GTCAAACAGAGGAAGATTGCATGTGAATGT
1 GTCAAACAGAGGAAGATTGCATGTGAATGT
*
1870963 GTCAAACAGAGGAAGATTGGATGTGAATGT
1 GTCAAACAGAGGAAGATTGCATGTGAATGT
1870993 GT
1 GT
1870995 GCATCAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.24
Consensus pattern (30 bp):
GTCAAACAGAGGAAGATTGCATGTGAATGT
Found at i:1873142 original size:21 final size:21
Alignment explanation
Indices: 1873103--1873142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1873093 CTTAGCACCT
* *
1873103 AAAATCTTAAAATATAATATA
1 AAAATATTAAAATAAAATATA
*
1873124 AAAATATTAAATTAAAATA
1 AAAATATTAAAATAAAATA
1873143 AGTAAGGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAAAATAAAATATA
Found at i:1880858 original size:10 final size:10
Alignment explanation
Indices: 1880820--1880867 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
1880810 TAATATAATT
1880820 TAAAATTTTAA
1 TAAAA-TTTAA
*
1880831 TAAAAATTTTA
1 T-AAAATTTAA
1880842 TACAAATTTAA
1 TA-AAATTTAA
1880853 TAAAATTTAA
1 TAAAATTTAA
1880863 -AAAAT
1 TAAAAT
1880868 ATATTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.15
10 9 0.27
11 15 0.45
12 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAATTTAA
Found at i:1883487 original size:2 final size:2
Alignment explanation
Indices: 1883482--1883523 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1883472 ATATATAATA
* *
1883482 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG TC TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1883524 ACAGTACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.05, G:0.45, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1891345 original size:24 final size:22
Alignment explanation
Indices: 1891303--1891347 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
1891293 CATCAATTTC
1891303 AAATTTTTTTTTAAATTTTCAG
1 AAATTTTTTTTTAAATTTTCAG
*
1891325 AAATTTATTTTTTGAAGTTTTCA
1 AAATTT-TTTTTT-AAATTTTCA
1891348 ATGTAGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (22 bp):
AAATTTTTTTTTAAATTTTCAG
Found at i:1891891 original size:3 final size:3
Alignment explanation
Indices: 1891883--1891912 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1891873 AATGTCAAAC
1891883 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AG
1891913 TTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1893383 original size:22 final size:22
Alignment explanation
Indices: 1893358--1893400 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1893348 GGTTCATCAG
*
1893358 ACTTAGAATGAAAAGATAAGGA
1 ACTTAGAATGAAAAGACAAGGA
*
1893380 ACTTGGAATGAAAAGACAAGG
1 ACTTAGAATGAAAAGACAAGG
1893401 TAGAACCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16
Consensus pattern (22 bp):
ACTTAGAATGAAAAGACAAGGA
Found at i:1896658 original size:2 final size:2
Alignment explanation
Indices: 1896653--1896691 Score: 51
Period size: 2 Copynumber: 18.5 Consensus size: 2
1896643 AGGGAGAAAA
*
1896653 AG AG AG ACG TAG AG AG GG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG A-G -AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1896692 TCTCAAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 30 0.91
3 2 0.06
4 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:1899807 original size:19 final size:19
Alignment explanation
Indices: 1899783--1899824 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1899773 TTTTCATGAG
1899783 TAAAAA-AAATATAAAAATA
1 TAAAAATAAATATAAAAA-A
*
1899802 TAAAAATAAATTTAAAAAA
1 TAAAAATAAATATAAAAAA
1899821 TAAA
1 TAAA
1899825 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAATAAATATAAAAAA
Found at i:1899821 original size:13 final size:14
Alignment explanation
Indices: 1899803--1899833 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1899793 ATAAAAATAT
1899803 AAAAATAAAT-TTA
1 AAAAATAAATATTA
1899816 AAAAATAAATATTA
1 AAAAATAAATATTA
1899830 AAAA
1 AAAA
1899834 TCCAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAAATATTA
Found at i:1899834 original size:13 final size:13
Alignment explanation
Indices: 1899797--1899834 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1899787 AAAAATATAA
1899797 AAATA-TAAAAAT
1 AAATATTAAAAAT
1899809 AAAT-TTAAAAAAT
1 AAATATT-AAAAAT
1899822 AAATATTAAAAAT
1 AAATATTAAAAAT
1899835 CCAATATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.22
13 16 0.70
14 2 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATATTAAAAAT
Found at i:1904475 original size:14 final size:15
Alignment explanation
Indices: 1904458--1904486 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1904448 GCCCAAAATC
1904458 AGAAAAA-AAAAAAA
1 AGAAAAAGAAAAAAA
1904472 AGAAAAAGAAAAAAA
1 AGAAAAAGAAAAAAA
1904487 CCTAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAAAAA
Found at i:1906962 original size:34 final size:34
Alignment explanation
Indices: 1906915--1906986 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
1906905 CAGACATCAA
1906915 TAAT-CTTCACAATGTGAACTGTATGTAAATATG
1 TAATGCTTCACAATGTGAACTGTATGTAAATATG
1906948 TAATGCTTCACAATGTGAACTGTATGTAAATATG
1 TAATGCTTCACAATGTGAACTGTATGTAAATATG
1906982 TAATG
1 TAATG
1906987 GGTTTTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (34 bp):
TAATGCTTCACAATGTGAACTGTATGTAAATATG
Found at i:1913352 original size:13 final size:12
Alignment explanation
Indices: 1913308--1913360 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
1913298 TATTGAAAGT
*
1913308 GAAATAAGAAAAT
1 GAAATAA-AAAAA
*
1913321 GGAATAAAAAAA
1 GAAATAAAAAAA
1913333 -AAA-AAAAAAA
1 GAAATAAAAAAA
1913343 GAAAGTAAAAAAA
1 GAAA-TAAAAAAA
1913356 GAAAT
1 GAAAT
1913361 GAAGGAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 7 0.21
11 5 0.15
12 5 0.15
13 17 0.50
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (12 bp):
GAAATAAAAAAA
Found at i:1913618 original size:7 final size:7
Alignment explanation
Indices: 1913593--1913636 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
1913583 TAAGAGATGA
1913593 AAAATATT
1 AAAAT-TT
1913601 ATAAATATT
1 A-AAAT-TT
1913610 AAAATTT
1 AAAATTT
1913617 AAAATTT
1 AAAATTT
1913624 AAAATTT
1 AAAATTT
1913631 AAAATT
1 AAAATT
1913637 AATAGATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 22 0.63
8 5 0.14
9 8 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:1920952 original size:217 final size:219
Alignment explanation
Indices: 1920550--1920990 Score: 726
Period size: 217 Copynumber: 2.0 Consensus size: 219
1920540 AAAACATAGG
* * *
1920550 GAAAGGGTAAAAGAATTTGATGCTCATCGACGGTAGTGACAACTTTTAGGTTTTGATTTAAAATG
1 GAAAGGGTAAAAGAATTTGATGCTCATCGACGGCAATGACAACTTTAAGGTTTTGATTTAAAATG
1920615 GCATTTTGTGAAAAAATGGAGAGTTTTCTTTCTTTTAAAAAAAAATCAAAAGTGATAGGATTATA
66 GCATTTTGTGAAAAAATGGAGAGTTTTCTTTCTTTT---AAAAAATCAAAAGTGATAGGATTATA
* *
1920680 GAAGAGGCTGAGAGGAGAATATGGATAAATATAGGATCATTTCATCATCAATGAGTAGAAACGAT
128 AAAAAGGCTGAGAGGAGAATATGGATAAATATAGGATCATTTCATCATCAATGAGTAGAAACGAT
*
1920745 GGTAGAAAATTTTTTATTTTAAGTTTT
193 GGTAGAAAATTTTTGATTTTAAGTTTT
1920772 GAAAGGGTAAAAGAATTTGATGCCTCATCGACGGCAATGACAACTTTAAGGTTTTGATTTAAAAT
1 GAAAGGGTAAAAGAATTTGATG-CTCATCGACGGCAATGACAACTTTAAGGTTTTGATTTAAAAT
**
1920837 GGCATTTTGTGAAAAAATGGAGAGTTTT-TTT-TTTT-TTAAATCAAAAGTGATAGGATTATAAA
65 GGCATTTTGTGAAAAAATGGAGAGTTTTCTTTCTTTTAAAAAATCAAAAGTGATAGGATTATAAA
* * *
1920899 AAAGGCTGAGAGGAGAATCTGGATAAATATAGGATTATTTCATCATCAATGAGTAGAAATGATGG
130 AAAGGCTGAGAGGAGAATATGGATAAATATAGGATCATTTCATCATCAATGAGTAGAAACGATGG
1920964 TAGAAAATTTTTGATTTTAAGTTTT
195 TAGAAAATTTTTGATTTTAAGTTTT
1920989 GA
1 GA
1920991 TCTACGCTAT
Statistics
Matches: 207, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
217 111 0.54
221 4 0.02
222 25 0.12
223 67 0.32
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.34
Consensus pattern (219 bp):
GAAAGGGTAAAAGAATTTGATGCTCATCGACGGCAATGACAACTTTAAGGTTTTGATTTAAAATG
GCATTTTGTGAAAAAATGGAGAGTTTTCTTTCTTTTAAAAAATCAAAAGTGATAGGATTATAAAA
AAGGCTGAGAGGAGAATATGGATAAATATAGGATCATTTCATCATCAATGAGTAGAAACGATGGT
AGAAAATTTTTGATTTTAAGTTTT
Found at i:1928578 original size:18 final size:18
Alignment explanation
Indices: 1928531--1928578 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1928521 CACATACATC
* * *
1928531 AGATGAAGATAAGGAGTA
1 AGATGAAGATGAGAAGGA
*
1928549 AGATGAAAATGAGAAGGA
1 AGATGAAGATGAGAAGGA
1928567 AGATGAAGATGA
1 AGATGAAGATGA
1928579 TTAACATGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (18 bp):
AGATGAAGATGAGAAGGA
Found at i:1931695 original size:22 final size:22
Alignment explanation
Indices: 1931670--1931711 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1931660 TTATTTTATA
*
1931670 ATTTCATTTATATGTTTTTAGG
1 ATTTCATTTATATATTTTTAGG
* *
1931692 ATTTCTTTTATTTATTTTTA
1 ATTTCATTTATATATTTTTA
1931712 TATTTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (22 bp):
ATTTCATTTATATATTTTTAGG
Found at i:1932601 original size:17 final size:19
Alignment explanation
Indices: 1932575--1932616 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
1932565 AGAATGTGAA
*
1932575 AATAATAATAA-TTTCAT-
1 AATAAAAATAATTTTCATG
1932592 AATAAAAATAATTTTCATG
1 AATAAAAATAATTTTCATG
1932611 AATAAA
1 AATAAA
1932617 TTTTTAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
18 6 0.27
19 6 0.27
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
AATAAAAATAATTTTCATG
Found at i:1936893 original size:40 final size:40
Alignment explanation
Indices: 1936849--1936973 Score: 101
Period size: 40 Copynumber: 3.1 Consensus size: 40
1936839 AAAATATTTG
*
1936849 CATTTGTATCATTGTATCTGCATCACAACAAAGACATTCA
1 CATTTGTATCATTGTATCTGTATCACAACAAAGACATTCA
* * * * * * *
1936889 CATTTTTACCATTGCATTTGTAGCATGAA-AAAGACATTCG
1 CATTTGTATCATTGTATCTGTATCA-CAACAAAGACATTCA
* * * * *
1936929 TATTTGCATTATTGTATCCGTATCATAACAAA-ACATTCA
1 CATTTGTATCATTGTATCTGTATCACAACAAAGACATTCA
*
1936968 TATTTG
1 CATTTG
1936974 CACCTTTGCA
Statistics
Matches: 64, Mismatches: 19, Indels: 5
0.73 0.22 0.06
Matches are distributed among these distances:
39 14 0.22
40 48 0.75
41 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (40 bp):
CATTTGTATCATTGTATCTGTATCACAACAAAGACATTCA
Found at i:1936900 original size:121 final size:120
Alignment explanation
Indices: 1936722--1936942 Score: 289
Period size: 121 Copynumber: 1.8 Consensus size: 120
1936712 GATAGTCAAT
* * *
1936722 TATTTACATTTGCATTATTGCATCTACATCGCAATAAAGACATTCACATCTGCACCATTTGCATT
1 TATTTACATTTGCATCATTGCATCTACATCACAACAAAGACATTCACATCTGCACCA-TTGCATT
* * *
1936787 TGCATCATGAAAAAGATATTTGCATTTGCATCATTGCACCTGTATTATGAGAAAAA
65 TGCAGCATGAAAAAGACATTCGCATTTGCATCATTGCACCTGTATTATGAGAAAAA
* * * * * **
1936843 TATTTGCATTTGTATCATTGTATCTGCATCACAACAAAGACATTCACATTTTTACCATTGCATTT
1 TATTTACATTTGCATCATTGCATCTACATCACAACAAAGACATTCACATCTGCACCATTGCATTT
* * *
1936908 GTAGCATGAAAAAGACATTCGTATTTGCATTATTG
66 GCAGCATGAAAAAGACATTCGCATTTGCATCATTG
1936943 TATCCGTATC
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
120 37 0.44
121 47 0.56
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (120 bp):
TATTTACATTTGCATCATTGCATCTACATCACAACAAAGACATTCACATCTGCACCATTGCATTT
GCAGCATGAAAAAGACATTCGCATTTGCATCATTGCACCTGTATTATGAGAAAAA
Found at i:1937451 original size:22 final size:23
Alignment explanation
Indices: 1937426--1937476 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
1937416 TCAATGTCAT
1937426 TTTCTAAA-ACCT-TAGCACATAA
1 TTTCTAAAGACCTCTAG-ACATAA
* *
1937448 TTTC-AAAGTCCTCTAGATATAA
1 TTTCTAAAGACCTCTAGACATAA
1937470 TTTCTAA
1 TTTCTAA
1937477 CTCCTCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 16 0.67
23 5 0.21
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (23 bp):
TTTCTAAAGACCTCTAGACATAA
Found at i:1937491 original size:22 final size:22
Alignment explanation
Indices: 1937442--1937505 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
1937432 AAACCTTAGC
* * *
1937442 ACATAATTTCAAAGTCCTCTAG
1 ACATAATTTCAAACTCCTCCAA
* *
1937464 ATATAATTTCTAACTCCTCCAA
1 ACATAATTTCAAACTCCTCCAA
* *
1937486 ACATAATTTTAAAGTCCTCC
1 ACATAATTTCAAACTCCTCC
1937506 GGGCATAATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (22 bp):
ACATAATTTCAAACTCCTCCAA
Found at i:1937512 original size:22 final size:22
Alignment explanation
Indices: 1937478--1937613 Score: 94
Period size: 22 Copynumber: 6.2 Consensus size: 22
1937468 AATTTCTAAC
* *
1937478 TCCTCCAAACATAATTTTAAAG
1 TCCTCCAAGCATAATTATAAAG
**
1937500 TCCTCCGGGCATAATTATAAAG
1 TCCTCCAAGCATAATTATAAAG
* * * * *
1937522 ACTTCCACGCATACTTGTAAAG
1 TCCTCCAAGCATAATTATAAAG
* * * *
1937544 ACCTTCAAGTATAATTTTAAAG
1 TCCTCCAAGCATAATTATAAAG
*
1937566 TCCTCC-AGACATAATTACAAAG
1 TCCTCCAAG-CATAATTATAAAG
* ** *
1937588 TCTTCTGAGCATAATTACAAAG
1 TCCTCCAAGCATAATTATAAAG
1937610 TCCT
1 TCCT
1937614 TTAAGTATAA
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 2 0.02
22 84 0.95
23 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (22 bp):
TCCTCCAAGCATAATTATAAAG
Found at i:1937600 original size:66 final size:66
Alignment explanation
Indices: 1937488--1937631 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 66
1937478 TCCTCCAAAC
* * * * **
1937488 ATAATTTTAAAGTCCTCCGGGCATAATTATAAAGACTTCCACGCATACTTGTAAAGACCTTCAAG
1 ATAATTTTAAAGTCCTCCAGACATAATTACAAAGACTTCCACGCATAATTACAAAGACCTTCAAG
1937553 T
66 T
* * * *
1937554 ATAATTTTAAAGTCCTCCAGACATAATTACAAAGTCTTCTGA-GCATAATTACAAAGTCCTTTAA
1 ATAATTTTAAAGTCCTCCAGACATAATTACAAAGACTTC-CACGCATAATTACAAAGACCTTCAA
1937618 GT
65 GT
*
1937620 ATAATTTCAAAG
1 ATAATTTTAAAG
1937632 GCCTTTGAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
66 65 0.98
67 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (66 bp):
ATAATTTTAAAGTCCTCCAGACATAATTACAAAGACTTCCACGCATAATTACAAAGACCTTCAAG
T
Found at i:1937623 original size:22 final size:22
Alignment explanation
Indices: 1937575--1937637 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
1937565 GTCCTCCAGA
*
1937575 CATAATTACAAAGT-CTTCTGAG
1 CATAATTACAAAGTCCTT-TAAG
1937597 CATAATTACAAAGTCCTTTAAG
1 CATAATTACAAAGTCCTTTAAG
* * *
1937619 TATAATTTCAAAGGCCTTT
1 CATAATTACAAAGTCCTTT
1937638 GAACGTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 33 0.92
23 3 0.08
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (22 bp):
CATAATTACAAAGTCCTTTAAG
Found at i:1937862 original size:32 final size:33
Alignment explanation
Indices: 1937784--1937891 Score: 85
Period size: 33 Copynumber: 3.3 Consensus size: 33
1937774 TAAAAAGTTT
* * * ** **
1937784 CATAGCATTTAGTGAGAAGAGTTTTTAAAGTTT
1 CATAGCCTTTAGTTAGAAGAGATAGTAAAGTAC
* *
1937817 CATTGCCTCTAGTTA-AA-AGCATAGTAAAGTAC
1 CATAGCCTTTAGTTAGAAGAG-ATAGTAAAGTAC
* *
1937849 CATAGCCTTTAGTTAGAAGAGTTCGTAAAGTAC
1 CATAGCCTTTAGTTAGAAGAGATAGTAAAGTAC
*
1937882 CATAACCTTT
1 CATAGCCTTT
1937892 TATGGTGATA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
31 2 0.03
32 22 0.38
33 32 0.55
34 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (33 bp):
CATAGCCTTTAGTTAGAAGAGATAGTAAAGTAC
Found at i:1937964 original size:48 final size:49
Alignment explanation
Indices: 1937893--1938000 Score: 159
Period size: 49 Copynumber: 2.2 Consensus size: 49
1937883 ATAACCTTTT
1937893 ATGGTGATATCTAAGTATTCAAGATTG-A-ATTTCATTAAAACTTTCTCA
1 ATGGTGATATCTAAGTATTCAAGATTGAACATTT-ATTAAAACTTTCTCA
* *
1937941 ATGGTGATATCTGAA-TATTCAAGATTGAACATTTATTAAGACTTTCTCT
1 ATGGTGATATCT-AAGTATTCAAGATTGAACATTTATTAAAACTTTCTCA
1937990 ATGGTGATATC
1 ATGGTGATATC
1938001 AGATAATCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
48 24 0.44
49 27 0.49
50 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (49 bp):
ATGGTGATATCTAAGTATTCAAGATTGAACATTTATTAAAACTTTCTCA
Found at i:1938394 original size:35 final size:35
Alignment explanation
Indices: 1938299--1938404 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 35
1938289 CCTTTGAATC
* * *
1938299 TTTTAAAGTTTTATAGCCTTTAGTTAGAGGAG-TT
1 TTTTAAAGTATCATAGACTTTAGTTAGAGGAGTTT
* * * * *
1938333 TATTCAAGTATCCTAGCCTTTGGTTAGAGGAGTTT
1 TTTTAAAGTATCATAGACTTTAGTTAGAGGAGTTT
*
1938368 TTTTAAAGTATCATA-ACTTCTAGTTAGAGGAATTT
1 TTTTAAAGTATCATAGACTT-TAGTTAGAGGAGTTT
1938403 TT
1 TT
1938405 AAAAATATTA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
34 29 0.50
35 29 0.50
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.44
Consensus pattern (35 bp):
TTTTAAAGTATCATAGACTTTAGTTAGAGGAGTTT
Found at i:1939490 original size:6 final size:6
Alignment explanation
Indices: 1939447--1939503 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
1939437 AAAACAACAC
* * *
1939447 AAAGAG ATAGAGAG AGAGAG AGAGAG AAA-A- AAAAAG AAAGAG AAAGAG
1 AAAGAG A-A-AGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG
1939495 AAAGAG AAA
1 AAAGAG AAA
1939504 AACATAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.07
5 2 0.05
6 33 0.75
7 1 0.02
8 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (6 bp):
AAAGAG
Found at i:1945199 original size:2 final size:2
Alignment explanation
Indices: 1945192--1945219 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1945182 CAAACATACT
1945192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1945220 ACAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1949671 original size:40 final size:42
Alignment explanation
Indices: 1949616--1949702 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 42
1949606 TAAACTGTGA
1949616 CTTGTATTTTTAACC-A-TAGGCATAGGAGCTTTAATGATCG
1 CTTGTATTTTTAACCAACTAGGCATAGGAGCTTTAATGATCG
*
1949656 CTTGTTTTTTTAACCAAACGTAGGCATAGGAGCTTTAATGATCG
1 CTTGTATTTTTAACC-AAC-TAGGCATAGGAGCTTTAATGATCG
1949700 CTT
1 CTT
1949703 ACATATAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 14 0.33
42 1 0.02
44 27 0.64
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (42 bp):
CTTGTATTTTTAACCAACTAGGCATAGGAGCTTTAATGATCG
Found at i:1950433 original size:20 final size:21
Alignment explanation
Indices: 1950403--1950445 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1950393 TGGACATTTG
1950403 TGTTATGTTTAAGAATGATTA
1 TGTTATGTTTAAGAATGATTA
* *
1950424 TGTT-TGTTTATGATTGATTA
1 TGTTATGTTTAAGAATGATTA
1950444 TG
1 TG
1950446 GATGTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (21 bp):
TGTTATGTTTAAGAATGATTA
Found at i:1950451 original size:20 final size:20
Alignment explanation
Indices: 1950407--1950452 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1950397 CATTTGTGTT
*
1950407 ATGTTTAAGAATGATTATGT
1 ATGTTTAAGAATGATTATGG
* * *
1950427 TTGTTTATGATTGATTATGG
1 ATGTTTAAGAATGATTATGG
1950447 ATGTTT
1 ATGTTT
1950453 GTGAATGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (20 bp):
ATGTTTAAGAATGATTATGG
Found at i:1950881 original size:75 final size:74
Alignment explanation
Indices: 1950792--1950976 Score: 275
Period size: 75 Copynumber: 2.5 Consensus size: 74
1950782 GAAAATGAAT
*
1950792 CCTAGAAAATACCTTTTAGTGATGGAAATTTTCATCACCAATAAGTTTTTAA-AACAGAGGATCA
1 CCTAGAAAATACCTTTTAGTGATGGAAATTTTCATCACCAAGAAG-TTTTAACAACAGAGGATC-
1950856 AATCTTGAAAA
64 AATCTTGAAAA
* *
1950867 CCTAGAAAAAACCTTTTAGTGATGGAAATTTTCATCGCCAAGAAGTTTTAACAACAGAGGATCAA
1 CCTAGAAAATACCTTTTAGTGATGGAAATTTTCATCACCAAGAAGTTTTAACAACAGAGGATCAA
1950932 TCTTGAAAA
66 TCTTGAAAA
* * * *
1950941 CCCAGAAAATACATTTTAGCGACGGAAA-TTTCATCA
1 CCTAGAAAATACCTTTTAGTGATGGAAATTTTCATCA
1950977 GTAAAGATCT
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 7 0.07
74 40 0.40
75 53 0.53
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (74 bp):
CCTAGAAAATACCTTTTAGTGATGGAAATTTTCATCACCAAGAAGTTTTAACAACAGAGGATCAA
TCTTGAAAA
Found at i:1963404 original size:13 final size:12
Alignment explanation
Indices: 1963383--1963414 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
1963373 TTAAAAAAAT
1963383 TGAATATTTATA
1 TGAATATTTATA
1963395 TGATATATTTATA
1 TGA-ATATTTATA
1963408 TGAATAT
1 TGAATAT
1963415 AAATACTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
TGAATATTTATA
Found at i:1963694 original size:46 final size:47
Alignment explanation
Indices: 1963617--1963705 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
1963607 ATCCCTTACA
*
1963617 AAATATTCAATGAGATTATTAAAGGTA-TTTTTAGCTAAAAATACTTT
1 AAATATTCAATGAGATTATTAAAGATATTTTTTA-CTAAAAATACTTT
* *
1963664 AAATAATTC-ATGA-ATTATTTAAGATGTTTTTTACTAAAAATA
1 AAAT-ATTCAATGAGATTATTAAAGATATTTTTTACTAAAAATA
1963706 TATTCAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
46 19 0.51
47 14 0.38
48 4 0.11
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (47 bp):
AAATATTCAATGAGATTATTAAAGATATTTTTTACTAAAAATACTTT
Found at i:1967103 original size:13 final size:13
Alignment explanation
Indices: 1967085--1967111 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1967075 ACATTTAATA
1967085 GGCTAACTCTAGT
1 GGCTAACTCTAGT
1967098 GGCTAACTCTAGT
1 GGCTAACTCTAGT
1967111 G
1 G
1967112 AACTTGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (13 bp):
GGCTAACTCTAGT
Found at i:1969277 original size:2 final size:2
Alignment explanation
Indices: 1969270--1969298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1969260 GTGAAAGTTT
1969270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1969299 TTCTTCTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1978248 original size:23 final size:23
Alignment explanation
Indices: 1978222--1978283 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1978212 CATAAATTTT
*
1978222 TTATTAAATTTTTTTAATTGTAA
1 TTATTAAATTTTTTTAATTATAA
1978245 TTATAATAAA--TTTTTAATTATAA
1 TTAT--TAAATTTTTTTAATTATAA
*
1978268 TTATAATAATTTTTTT
1 TTATTA-AATTTTTTT
1978284 TTTTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
23 20 0.62
24 5 0.16
25 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTAAATTTTTTTAATTATAA
Found at i:1978305 original size:28 final size:28
Alignment explanation
Indices: 1978255--1978308 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1978245 TTATAATAAA
1978255 TTTTTAATTATAATTATAATAATTTTTT
1 TTTTTAATTATAATTATAATAATTTTTT
* *
1978283 TTTTTAATT-TTATTGTAATTAATTTT
1 TTTTTAATTATAATTATAA-TAATTTT
1978309 ATTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTAATTATAATTATAATAATTTTTT
Found at i:1978316 original size:28 final size:28
Alignment explanation
Indices: 1978234--1978316 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
1978224 ATTAAATTTT
*
1978234 TTTAATTGTAATTATAATAA----ATT-
1 TTTAATTATAATTATAATAATTTTATTA
* *
1978257 TTTAATTATAATTATAATAATTTTTTTT
1 TTTAATTATAATTATAATAATTTTATTA
* *
1978285 TTTAATT-TTATTGTAATTAATTTTATTA
1 TTTAATTATAATTATAA-TAATTTTATTA
1978313 TTTA
1 TTTA
1978317 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 19 0.40
27 9 0.19
28 20 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTAATTATAATTATAATAATTTTATTA
Found at i:1983906 original size:19 final size:20
Alignment explanation
Indices: 1983861--1983906 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
1983851 AAGATATTTT
1983861 ATTAATTAAAATAATTAAAA
1 ATTAATTAAAATAATTAAAA
1983881 ATT-ATTAAAAT-A-TAAAA
1 ATTAATTAAAATAATTAAAA
1983898 ACTTAATTA
1 A-TTAATTA
1983907 GATTCATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 12 0.50
20 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAATTAAAATAATTAAAA
Found at i:1984236 original size:7 final size:7
Alignment explanation
Indices: 1984226--1984250 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1984216 AAAGTTACAT
1984226 ATATTAA
1 ATATTAA
1984233 ATATTAA
1 ATATTAA
1984240 ATATTAA
1 ATATTAA
1984247 ATAT
1 ATAT
1984251 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTAA
Found at i:1984650 original size:13 final size:14
Alignment explanation
Indices: 1984613--1984647 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1984603 TTGTTTGGTT
* *
1984613 AAAAATAACTTCTA
1 AAAAATAATTTTTA
1984627 AAAAATAATTTTTA
1 AAAAATAATTTTTA
1984641 AAAAATA
1 AAAAATA
1984648 TTTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:1985064 original size:15 final size:15
Alignment explanation
Indices: 1985044--1985590 Score: 203
Period size: 15 Copynumber: 34.3 Consensus size: 15
1985034 TATTTCTTAC
*
1985044 TATTATTCATTAATA
1 TATTATTTATTAATA
*
1985059 TATTATATTAATAATA
1 TATTAT-TTATTAATA
1985075 TATTATTTATTAATA
1 TATTATTTATTAATA
*
1985090 TATTAATTAATATATTATA
1 TATT-ATT--TAT-TAATA
*
1985109 GTAATATTTATTAATA
1 -TATTATTTATTAATA
** *
1985125 TAAGATTTACTAATA
1 TATTATTTATTAATA
*
1985140 TAATCTTCTTTATTAATA
1 T-A--TTATTTATTAATA
* ** *
1985158 T-TAACATATTAGTA
1 TATTATTTATTAATA
*
1985172 TA-TATTTATTTATAA
1 TATTATTTATTAAT-A
*
1985187 TAATATTTATT-AT-
1 TATTATTTATTAATA
1985200 TA-TATTTATTAATA
1 TATTATTTATTAATA
* * *
1985214 AATTAATAATATTTATATT
1 TATT-AT-TTA-TTA-ATA
1985233 TATTATTTATTAATA
1 TATTATTTATTAATA
* *
1985248 TAATATTATTTTAATA
1 TATTATT-TATTAATA
**
1985264 TATTATAATATTATTTCTTA
1 TA-T-T-AT-TTA-TTAATA
1985284 CTATTA-TTATTAATA
1 -TATTATTTATTAATA
*
1985299 TATTA--TATTAATCG
1 TATTATTTATTAAT-A
1985313 TACGGTTATTTATTAATATA
1 TA---TTATTTATT-A-ATA
1985333 TATTATTTATT-A-A
1 TATTATTTATTAATA
1985346 TA-TA-TTA-TAATA
1 TATTATTTATTAATA
1985358 -A-TATTTATTAATA
1 TATTATTTATTAATA
**
1985371 TACGATTTATTAATATAA
1 TATTATTTATT-A-AT-A
1985389 TATTATTTATTAATA
1 TATTATTTATTAATA
* ** *
1985404 T-TAAAATATTAGTA
1 TATTATTTATTAATA
1985418 TA-TATTTATTAATA
1 TATTATTTATTAATA
1985432 TATTATTTATTTATATTA
1 TATTATTTA-TTA-A-TA
1985450 TATTATTATATATATAATAA
1 TATTA-T-T-TAT-TAAT-A
*
1985470 CATTATTTATTAATA
1 TATTATTTATTAATA
*
1985485 TAAAATTATTTATGAATA
1 T---ATTATTTATTAATA
*
1985503 TATTATAATATTATTTATTAA
1 TA-T-T-AT-TTA-TTAAT-A
1985524 TATT-TTTATTAATA
1 TATTATTTATTAATA
* * *
1985538 TATTATATAAATAGTA
1 TATTAT-TTATTAATA
1985554 TATTATTTATTCATATAA
1 TATTATTTATT-A-AT-A
1985572 TATTATTTATTAATA
1 TATTATTTATTAATA
1985587 TATT
1 TATT
1985591 GTAATATAAT
Statistics
Matches: 404, Mismatches: 61, Indels: 134
0.67 0.10 0.22
Matches are distributed among these distances:
10 1 0.00
11 7 0.02
12 14 0.03
13 19 0.05
14 50 0.12
15 80 0.20
16 75 0.19
17 30 0.07
18 66 0.16
19 27 0.07
20 24 0.06
21 11 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTATTTATTAATA
Found at i:1985180 original size:28 final size:28
Alignment explanation
Indices: 1985148--1985214 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
1985138 TATAATCTTC
*
1985148 TTTATTAATATTAACATATTAGTA-TATA
1 TTTATTAATAATAACAT-TTAGTATTATA
* * *
1985176 TTTATTTATAATAATATTTATTATTATA
1 TTTATTAATAATAACATTTAGTATTATA
1985204 TTTATTAATAA
1 TTTATTAATAA
1985215 ATTAATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTATTAATAATAACATTTAGTATTATA
Found at i:1985430 original size:61 final size:61
Alignment explanation
Indices: 1985107--1985456 Score: 242
Period size: 61 Copynumber: 5.7 Consensus size: 61
1985097 TAATATATTA
* * * *
1985107 TAGTA-ATATTTATTAATATAAGATTTACTAATATAATCTTCTTTATTAATATTAACATAT
1 TAGTATATATTTATTAATATAAGATTTATTAATATAATATTATTTATTAATATTAAAATAT
* * * *
1985167 TAGTATATATTTATTTATAATAATATTTATTATTAT-AT-TTA-TTAATAA-ATTAATAATATT
1 TAGTATATATTTATTAAT-ATAAGATTTATTAATATAATATTATTTATTAATATTAA-AATA-T
* * * * * * *
1985227 TA-TATTTATTATTTATTAATATAATATTATTTTAATATATTATAATATTATT--TCTTACTATT
1 TAGTA--TA-TATTTATTAATATAAGATT-TATTAATATAATATTAT-TTATTAATATTA-AAAT
1985289 AT
60 AT
* * * *
1985291 TATTAATATATTATATTAATCGTACGGTTATTTATTAATAT-ATATTATTTATTAATA-T--ATT
1 TAGT-ATATATT-TATTAAT-ATA-AG--ATTTATTAATATAATATTATTTATTAATATTAAAAT
1985352 A-
60 AT
* *
1985353 TAATA-ATATTTATTAATATACGATTTATTAATATAATATTATTTATTAATATTAAAATAT
1 TAGTATATATTTATTAATATAAGATTTATTAATATAATATTATTTATTAATATTAAAATAT
** * *
1985413 TAGTATATATTTATTAATATATTATTTATTTATATTATATTATT
1 TAGTATATATTTATTAATATAAGATTTATTAATATAATATTATT
1985457 ATATATATAA
Statistics
Matches: 229, Mismatches: 32, Indels: 57
0.72 0.10 0.18
Matches are distributed among these distances:
55 12 0.05
56 16 0.07
57 2 0.01
58 7 0.03
59 21 0.09
60 19 0.08
61 58 0.25
62 34 0.15
63 9 0.04
64 14 0.06
65 14 0.06
66 11 0.05
67 9 0.04
68 3 0.01
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (61 bp):
TAGTATATATTTATTAATATAAGATTTATTAATATAATATTATTTATTAATATTAAAATAT
Found at i:1985431 original size:41 final size:40
Alignment explanation
Indices: 1985384--1985527 Score: 152
Period size: 41 Copynumber: 3.5 Consensus size: 40
1985374 GATTTATTAA
1985384 TATAATATTATTTATTAATATTAAAATATTAGTATATATT
1 TATAATATTATTTATTAATATTAAAATATTAGTATATATT
* * *
1985424 TATTAATATATTATTTATTTATATTATATTATTA-TATATA-T
1 TA-T-A-ATATTATTTATTAATATTAAAATATTAGTATATATT
* * *
1985465 AATAACATTATTTATTAATA-TAAAATTATTTATGAATATA-T
1 TATAATATTATTTATTAATATTAAAA-TA-TTA-GTATATATT
1985506 TATAATATTATTTATTAATATT
1 TATAATATTATTTATTAATATT
1985528 TTTATTAATA
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
37 3 0.04
38 16 0.19
39 4 0.05
40 3 0.04
41 27 0.32
42 8 0.09
43 24 0.28
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (40 bp):
TATAATATTATTTATTAATATTAAAATATTAGTATATATT
Found at i:1985448 original size:35 final size:34
Alignment explanation
Indices: 1985409--1985609 Score: 116
Period size: 35 Copynumber: 5.9 Consensus size: 34
1985399 TAATATTAAA
1985409 ATATTAGTATATATTTATTAATATATTATTTATTT
1 ATATTA-TATATATTTATTAATATATTATTTATTT
* * *
1985444 ATATTATATTATTATATATATAATAACATTATTTATTA
1 ATATTATA-TA-TATTTAT-TAAT-ATATTATTTATTT
* * * *
1985482 ATATAAAAT-TATTTATGAATATATTATAATATTAT
1 ATATTATATATATTTATTAATATATTAT-TTATT-T
* * **
1985517 TTATTA-ATATTTTTATTAATATATTA--TATAA
1 ATATTATATATATTTATTAATATATTATTTATTT
* * *
1985548 ATAGTATAT-TATTTATTCATATAATA-TTA-TT
1 ATATTATATATATTTATTAATATATTATTTATTT
*
1985579 -TATTA-ATATATTGTAAT-ATAATATTATTTAT
1 ATATTATATATATT-TATTAAT-ATATTATTTAT
1985610 AAGTAAAATT
Statistics
Matches: 126, Mismatches: 26, Indels: 30
0.69 0.14 0.16
Matches are distributed among these distances:
29 2 0.02
30 10 0.08
31 26 0.21
32 10 0.08
33 6 0.05
34 11 0.09
35 33 0.26
36 6 0.05
37 5 0.04
38 17 0.13
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (34 bp):
ATATTATATATATTTATTAATATATTATTTATTT
Found at i:1985483 original size:53 final size:52
Alignment explanation
Indices: 1985323--1985590 Score: 218
Period size: 53 Copynumber: 5.2 Consensus size: 52
1985313 TACGGTTATT
* * * *
1985323 TATTAATATA-TATTATTTATTAATATATTATAATAATATTTATTAATATACGATT
1 TATTAATATATTATTATTTA-TAATATATTATTAT-ATATATAATAATAT--TATT
* * * *
1985378 TATTAATATAATATTATTTATTA-ATATTA--AAATAT-TAGT-ATA-TATT
1 TATTAATATATTATTATTTATAATATATTATTATATATATAATAATATTATT
* *
1985424 TATTAATATATTATTTATTTATATTATATTATTATATATATAATAACATTATT
1 TATTAATATATTA-TTATTTATAATATATTATTATATATATAATAATATTATT
** * * *
1985477 TATTAATATAAAATTATTTATGAATATATTATAATATTATTTATTAATATT-TT
1 TATTAATATATTATTATTTAT-AATATATTATTATA-TATATAATAATATTATT
** *
1985530 TATTAATATATTA-TATAAATAGTATATTATT-TAT-TCAT-ATAATATTATT
1 TATTAATATATTATTATTTATAATATATTATTATATAT-ATAATAATATTATT
1985579 TATTAATATATT
1 TATTAATATATT
1985591 GTAATATAAT
Statistics
Matches: 176, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
46 15 0.09
47 8 0.05
48 14 0.08
49 19 0.11
50 10 0.06
51 16 0.09
52 16 0.09
53 40 0.23
54 17 0.10
55 12 0.07
56 9 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (52 bp):
TATTAATATATTATTATTTATAATATATTATTATATATATAATAATATTATT
Found at i:1985483 original size:81 final size:76
Alignment explanation
Indices: 1985318--1985540 Score: 230
Period size: 76 Copynumber: 2.9 Consensus size: 76
1985308 AATCGTACGG
* * * *
1985318 TTATTTATTAATAT-ATATTATTTATTAATATATTATAATAATATTTATTAATATACGATTTATT
1 TTATTTATTAATATAAAATTATTTATGAATATATTATAATATTATTTATTAATAT---TTTTATT
1985382 -A-ATATAAT---A
63 AATATATAATAACA
* *
1985391 TTATTTATTAATATTAAAA-TA-TTA-GTATATATTTATTAATATATTATTTATTTATATTATAT
1 TTATTTATTAATA-TAAAATTATTTATGAATATA-TTA-T-A-ATATTATTTATTAATATT-T-T
1985453 TATTATATATATAATAACA
59 TATTA-ATATATAATAACA
1985472 TTATTTATTAATATAAAATTATTTATGAATATATTATAATATTATTTATTAATATTTTTATTAAT
1 TTATTTATTAATATAAAATTATTTATGAATATATTATAATATTATTTATTAATATTTTTATTAAT
1985537 ATAT
66 ATAT
1985541 TATATAAATA
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
72 5 0.04
73 19 0.15
74 5 0.04
75 8 0.06
76 21 0.17
77 7 0.06
78 8 0.06
79 17 0.14
80 6 0.05
81 17 0.14
82 6 0.05
83 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (76 bp):
TTATTTATTAATATAAAATTATTTATGAATATATTATAATATTATTTATTAATATTTTTATTAAT
ATATAATAACA
Found at i:1985485 original size:23 final size:21
Alignment explanation
Indices: 1985446--1985589 Score: 88
Period size: 18 Copynumber: 6.8 Consensus size: 21
1985436 ATTTATTTAT
1985446 ATTATATTATTATATATATAATAA
1 ATTAT-TTATTA-ATATAT-ATAA
1985470 CATTATTTATT-A-ATATA-AA
1 -ATTATTTATTAATATATATAA
*
1985489 ATTATTTATGAATATATTATAA
1 ATTATTTATTAATATA-TATAA
**
1985511 TATTATTTATTAATAT-T-TTT
1 -ATTATTTATTAATATATATAA
* * *
1985531 ATTAATATATTATATAAATAGTAT
1 ATT-ATTTATTA-ATATATA-TAA
*
1985555 ATTATTTATTCATATA-AT--
1 ATTATTTATTAATATATATAA
1985573 ATTATTTATTAATATAT
1 ATTATTTATTAATATAT
1985590 TGTAATATAA
Statistics
Matches: 97, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
18 24 0.25
19 6 0.06
20 13 0.13
21 11 0.11
22 8 0.08
23 20 0.21
24 10 0.10
25 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (21 bp):
ATTATTTATTAATATATATAA
Found at i:1985600 original size:15 final size:13
Alignment explanation
Indices: 1985506--1985610 Score: 78
Period size: 12 Copynumber: 8.2 Consensus size: 13
1985496 ATGAATATAT
1985506 TATAATATTATTTA
1 TATAATA-TATTTA
*
1985520 T-TAATATTTTTA
1 TATAATATATTTA
1985532 T-TAATATA-TTA
1 TATAATATATTTA
*
1985543 TATAA-ATA-GTA
1 TATAATATATTTA
* * *
1985554 TATTATTTATTCA
1 TATAATATATTTA
1985567 TATAATATTATTTA
1 TATAATA-TATTTA
1985581 T-TAATATATTGTAA
1 TATAATATATT-T-A
1985595 TATAATATTATTTA
1 TATAATA-TATTTA
1985609 TA
1 TA
1985611 AGTAAAATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
11 13 0.18
12 21 0.29
13 17 0.23
14 12 0.16
15 6 0.08
16 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (13 bp):
TATAATATATTTA
Found at i:1985812 original size:14 final size:14
Alignment explanation
Indices: 1985793--1985822 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1985783 CCTAAATATA
*
1985793 TGAAAATTATTTTT
1 TGAAAATCATTTTT
1985807 TGAAAATCATTTTT
1 TGAAAATCATTTTT
1985821 TG
1 TG
1985823 CCAAACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (14 bp):
TGAAAATCATTTTT
Found at i:1986201 original size:10 final size:11
Alignment explanation
Indices: 1986154--1986490 Score: 105
Period size: 11 Copynumber: 29.7 Consensus size: 11
1986144 TTCTTTATAT
*
1986154 TATTATCAATA
1 TATTATTAATA
1986165 TATTA-TAATA
1 TATTATTAATA
1986175 TTATTTATTAATAA
1 -TA-TTATTAAT-A
1986189 TATTTATTAATA
1 TA-TTATTAATA
1986201 TATTATATTAATA
1 TA-T-TATTAATA
* *
1986214 GTA-TGTT-ATT
1 -TATTATTAATA
*
1986224 TATTAATAATA
1 TATTATTAATA
1986235 TATTATT-ATAA
1 TATTATTAAT-A
1986246 TACTTATTAATTA
1 TA-TTATTAA-TA
* *
1986259 AATTAATAATA
1 TATTATTAATA
* *
1986270 T-TTATTATTG
1 TATTATTAATA
* **
1986280 TGTTATTTGT-
1 TATTATTAATA
* *
1986290 TAATA-TAATC
1 TATTATTAATA
1986300 TATTA-TAATA
1 TATTATTAATA
*
1986310 TTATTTCTTAATA
1 -TA-TTATTAATA
1986323 TTATTTATTAATA
1 -TA-TTATTAATA
1986336 TATTATATTAATA
1 TA-T-TATTAATA
*
1986349 GTA-TATT-ATT
1 -TATTATTAATA
*
1986359 TATTAATAATA
1 TATTATTAATA
1986370 TATTATTAATA
1 TATTATTAATA
1986381 TATTA-TAATA
1 TATTATTAATA
1986391 T-TGT-TT-AT-
1 TAT-TATTAATA
* *
1986399 TAATATAAATA
1 TATTATTAATA
*
1986410 TATTTTTATAATAA
1 TA-TTAT-TAAT-A
1986424 TATGTATTATAGTA
1 TAT-TATTA-A-TA
*
1986438 TTCTTTATTAATA
1 -T-ATTATTAATA
1986451 TATTA-TAATA
1 TATTATTAATA
* *
1986461 TAATATT-ATT
1 TATTATTAATA
1986471 TATTTATTAATA
1 TA-TTATTAATA
*
1986483 TAATATTA
1 TATTATTA
1986491 TTTTTAAGTA
Statistics
Matches: 248, Mismatches: 40, Indels: 76
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.01
9 10 0.04
10 56 0.23
11 67 0.27
12 32 0.13
13 59 0.24
14 14 0.06
15 7 0.03
16 1 0.00
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TATTATTAATA
Found at i:1986229 original size:18 final size:19
Alignment explanation
Indices: 1986201--1986492 Score: 73
Period size: 18 Copynumber: 16.2 Consensus size: 19
1986191 TTTATTAATA
* *
1986201 TATTATATTAATAGTATGT
1 TATTATATTAATAATATAT
1986220 TATT-TATTAATAATATAT
1 TATTATATTAATAATATAT
*
1986238 TA-T-TA-TAATACT-TAT
1 TATTATATTAATAATATAT
*
1986253 TAATTAAATTAATAATAT-T
1 T-ATTATATTAATAATATAT
*
1986272 TATTAT-TGT-GT--TAT-T
1 TATTATAT-TAATAATATAT
* *
1986287 TGTTA-A-T-ATAATCTAT
1 TATTATATTAATAATATAT
* * ** *
1986303 TATAATATTATTTCT-TAA
1 TATTATATTAATAATATAT
*
1986321 TATTAT-TT-ATTA-ATA-
1 TATTATATTAATAATATAT
*
1986336 TATTATATTAATAGTATAT
1 TATTATATTAATAATATAT
1986355 TATT-TATTAATAATATAT
1 TATTATATTAATAATATAT
*
1986373 TATTAATATATTATAATAT-T
1 TATT-ATAT-TAATAATATAT
*
1986393 GT-TTAT-TAATATAAATATAT
1 -TATTATATTA-AT-AATATAT
* * *
1986413 TTTTATAATAAT-ATGTAT
1 TATTATATTAATAATATAT
* *
1986431 TATAGTATTCTTTATTAATATAT
1 TAT--TA-T-ATTAATAATATAT
* *
1986454 TATAATA-TAATATTAT-T
1 TATTATATTAATAATATAT
1986471 TATT-TATTAAT-ATAATAT
1 TATTATATTAATAAT-ATAT
1986489 TATT
1 TATT
1986493 TTTAAGTAAA
Statistics
Matches: 199, Mismatches: 39, Indels: 71
0.64 0.13 0.23
Matches are distributed among these distances:
13 2 0.01
15 20 0.10
16 20 0.10
17 21 0.11
18 70 0.35
19 26 0.13
20 17 0.09
21 12 0.06
22 3 0.02
23 8 0.04
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTATATTAATAATATAT
Found at i:1986404 original size:13 final size:13
Alignment explanation
Indices: 1986150--1986497 Score: 134
Period size: 13 Copynumber: 27.1 Consensus size: 13
1986140 ATTATTCTTT
*
1986150 ATATTA-TTATCA
1 ATATTATTTATTA
1986162 ATA-TA-TTA-TA
1 ATATTATTTATTA
1986172 ATATTATTTATTA
1 ATATTATTTATTA
*
1986185 ATAATATTTATTA
1 ATATTATTTATTA
1986198 ATA-TATTATATTAA
1 ATATTATT-TATT-A
1986212 TAGTATGTTATTTATTA
1 -A-TA--TTATTTATTA
*
1986229 ATAATATATTATT-
1 ATATTAT-TTATTA
* *
1986242 ATAATACTTATTA
1 ATATTATTTATTA
* * *
1986255 AT-TAAATTAATA
1 ATATTATTTATTA
1986267 ATATT-TATTATT-
1 ATATTAT-TTATTA
* * *
1986279 GTGTTATTTGTTA
1 ATATTATTTATTA
* *
1986292 ATATAATCTATTATA
1 ATATTATTTA-T-TA
*
1986307 ATATTATTTCTTA
1 ATATTATTTATTA
1986320 ATATTATTTATTAA
1 ATATTATTTATT-A
*
1986334 TATATTATATTAATA
1 -ATATTAT-TTATTA
1986349 GTATATTATTTATTA
1 --ATATTATTTATTA
*
1986364 ATAATATATTATTA
1 ATATTAT-TTATTA
1986378 ATA-TA-TTA-TA
1 ATATTATTTATTA
*
1986388 ATATTGTTTATTA
1 ATATTATTTATTA
*
1986401 ATA-TA---AAT-
1 ATATTATTTATTA
1986409 ATATT-TTTA-TA
1 ATATTATTTATTA
* *
1986420 ATAATATGTATTA
1 ATATTATTTATTA
*
1986433 TAGTATTCTTTATTA
1 -A-TATTATTTATTA
1986448 ATA-TATTATAATATA
1 ATATTATT-T-AT-TA
1986463 ATATTATTTATT-
1 ATATTATTTATTA
*
1986475 -TATTA-ATA-TA
1 ATATTATTTATTA
1986485 ATATTATTT-TTA
1 ATATTATTTATTA
1986497 A
1 A
1986498 GTAAAATTAT
Statistics
Matches: 256, Mismatches: 37, Indels: 86
0.68 0.10 0.23
Matches are distributed among these distances:
8 3 0.01
9 4 0.02
10 12 0.05
11 26 0.10
12 44 0.17
13 75 0.29
14 24 0.09
15 40 0.16
16 19 0.07
17 1 0.00
18 4 0.02
19 4 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (13 bp):
ATATTATTTATTA
Found at i:1986479 original size:47 final size:48
Alignment explanation
Indices: 1986369--1986479 Score: 109
Period size: 47 Copynumber: 2.4 Consensus size: 48
1986359 TATTAATAAT
* * * * *
1986369 ATATTATTAATATATTATAATATTGTTTATTAATATAAATATATTTTT
1 ATATTATTTATATATTATAATATTCTTTATTAATATAAATATAATATA
* * * * *
1986417 ATAATA-ATATGTATTATAGTATTCTTTATTAATAT-ATTATAATATA
1 ATATTATTTATATATTATAATATTCTTTATTAATATAAATATAATATA
*
1986463 ATATTATTTATTTATTA
1 ATATTATTTATATATTA
1986480 ATATAATATT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
46 12 0.24
47 32 0.65
48 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (48 bp):
ATATTATTTATATATTATAATATTCTTTATTAATATAAATATAATATA
Found at i:1986644 original size:22 final size:22
Alignment explanation
Indices: 1986608--1986649 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1986598 AAAATATGAT
*
1986608 ATCATTTTTCATTGATCAGTAA
1 ATCATTTTTCATTGACCAGTAA
**
1986630 ATCATTTTTTGTTGACCAGT
1 ATCATTTTTCATTGACCAGT
1986650 CAATTTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (22 bp):
ATCATTTTTCATTGACCAGTAA
Found at i:1987384 original size:16 final size:15
Alignment explanation
Indices: 1987358--1987411 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
1987348 TGTATCAATA
1987358 TTTATTAAATAAATT
1 TTTATTAAATAAATT
1987373 TTTATCTAAATAATATAT
1 TTTAT-TAAATAA-AT-T
*
1987391 TTTATTTAATTTAAATT
1 TTTA-TTAA-ATAAATT
1987408 TTTA
1 TTTA
1987412 ATGATCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 7 0.21
18 10 0.30
19 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATTAAATAAATT
Found at i:1990438 original size:93 final size:92
Alignment explanation
Indices: 1990341--1990511 Score: 243
Period size: 92 Copynumber: 1.8 Consensus size: 92
1990331 TGGAATAGTG
* * ** *
1990341 AAAATAATTTTCAATATAATAATTTCTTGTTTACTTTTCTTTACTAAAAAATGAATTGTTATACA
1 AAAATAATTTTCAATATAAAAAATTCTCATTTACTTTT-TTTACTAAAAAATAAATTGTTATACA
* *
1990406 ATATAATAATATTATTATTGGAGTATTT
65 ATACAATAAGATTATTATTGGAGTATTT
* * *
1990434 AAAATAATTTTCAATATAAAAAATTCTCATTTAGTTTTTTTATTAAAAAATAAATTTTTATACAA
1 AAAATAATTTTCAATATAAAAAATTCTCATTTACTTTTTTTACTAAAAAATAAATTGTTATACAA
1990499 TACAATAAGATTA
66 TACAATAAGATTA
1990512 CAAATCGATT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
92 35 0.51
93 33 0.49
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (92 bp):
AAAATAATTTTCAATATAAAAAATTCTCATTTACTTTTTTTACTAAAAAATAAATTGTTATACAA
TACAATAAGATTATTATTGGAGTATTT
Found at i:1991192 original size:10 final size:10
Alignment explanation
Indices: 1991177--1991202 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1991167 AAAGTTGTTC
1991177 TTTTAATAAA
1 TTTTAATAAA
1991187 TTTTAATAAA
1 TTTTAATAAA
1991197 TTTTAA
1 TTTTAA
1991203 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:1991802 original size:16 final size:16
Alignment explanation
Indices: 1991767--1991805 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1991757 TTGATAATAA
*
1991767 TATTTATTTACTTAAC
1 TATTTATTTAATTAAC
* *
1991783 TATTTATTTAATTTAT
1 TATTTATTTAATTAAC
1991799 TATTTAT
1 TATTTAT
1991806 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATTTAATTAAC
Found at i:1997810 original size:12 final size:13
Alignment explanation
Indices: 1997780--1997809 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1997770 TTTTTATCTA
1997780 AAAAATGTAGAAT
1 AAAAATGTAGAAT
1997793 AAAAATGTAGAAT
1 AAAAATGTAGAAT
1997806 AAAA
1 AAAA
1997810 TTTTCTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (13 bp):
AAAAATGTAGAAT
Found at i:2000728 original size:13 final size:13
Alignment explanation
Indices: 2000710--2000734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2000700 CCTAAGTGAG
2000710 TTTTTATTTTTAT
1 TTTTTATTTTTAT
2000723 TTTTTATTTTTA
1 TTTTTATTTTTA
2000735 AAAAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:2001434 original size:23 final size:24
Alignment explanation
Indices: 2001408--2001454 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2001398 TGAAATCAAT
*
2001408 ATGATG-CAATATGAAATAAATGA
1 ATGATGCCAATAAGAAATAAATGA
*
2001431 ATGATGCCAATAAGAATTAAATGA
1 ATGATGCCAATAAGAAATAAATGA
2001455 TGCAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (24 bp):
ATGATGCCAATAAGAAATAAATGA
Found at i:2012757 original size:19 final size:20
Alignment explanation
Indices: 2012734--2012780 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2012724 GAAAAAAATG
*
2012734 AAAAATGAATG-AAAATGAA
1 AAAAATGAATGAAAAAAGAA
* *
2012753 CAAAAT-ATTGAAAAAAGAA
1 AAAAATGAATGAAAAAAGAA
2012772 AAAAATGAA
1 AAAAATGAA
2012781 AATGTATGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
18 3 0.14
19 17 0.81
20 1 0.05
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (20 bp):
AAAAATGAATGAAAAAAGAA
Found at i:2012757 original size:28 final size:28
Alignment explanation
Indices: 2012725--2012780 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
2012715 AGCATGCAAG
* * *
2012725 AAAAAAATGAAAAATGAATGAAAATGAAC
1 AAAATAATGAAAAAAGAA-AAAAATGAAC
*
2012754 AAAATATTGAAAAAAGAAAAAAATGAA
1 AAAATAATGAAAAAAGAAAAAAATGAA
2012781 AATGTATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (28 bp):
AAAATAATGAAAAAAGAAAAAAATGAAC
Found at i:2013671 original size:25 final size:27
Alignment explanation
Indices: 2013622--2013683 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 27
2013612 TATTATAGAT
*
2013622 ATTTATTTTTTTATTTGATGGAATACA
1 ATTTACTTTTTTATTTGATGGAATACA
* *
2013649 ATTTACTTTTTTATTT-A-GTAATATA
1 ATTTACTTTTTTATTTGATGGAATACA
2013674 ATTTACTTTT
1 ATTTACTTTT
2013684 AGCTAAAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 16 0.50
26 1 0.03
27 15 0.47
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (27 bp):
ATTTACTTTTTTATTTGATGGAATACA
Found at i:2016761 original size:26 final size:26
Alignment explanation
Indices: 2016718--2016767 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2016708 TGAGTTTTAT
*
2016718 TTTTATTTTTTATTTTTTAAAAAAAA
1 TTTTATTTTTTATGTTTTAAAAAAAA
*
2016744 TTTTATTTTCTT-TGTTTTTAAAAA
1 TTTTATTTT-TTATGTTTTAAAAAA
2016768 TGTATTTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATTTTTTATGTTTTAAAAAAAA
Found at i:2017427 original size:23 final size:24
Alignment explanation
Indices: 2017400--2017446 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2017390 GGAAATCAAT
*
2017400 ATGATG-CAATATGAAATAAATGA
1 ATGATGCCAATAAGAAATAAATGA
*
2017423 ATGATGCCAATAAGAATTAAATGA
1 ATGATGCCAATAAGAAATAAATGA
2017447 TGCAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (24 bp):
ATGATGCCAATAAGAAATAAATGA
Found at i:2031538 original size:41 final size:40
Alignment explanation
Indices: 2031461--2031539 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 40
2031451 ATAAGATTTT
*
2031461 ATTTTTTATTTTTTACTTTTTACTTTTTAAATTTATATATA
1 ATTTTATATTTTTTACTTTTTAC-TTTTAAATTTATATATA
2031502 ATTTTATATTTTTTATCATTTTTTA-TTTTAAA-TTATAT
1 ATTTTATATTTTTTA-C--TTTTTACTTTTAAATTTATAT
2031540 TCACACTCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
41 20 0.59
42 8 0.24
44 6 0.18
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (40 bp):
ATTTTATATTTTTTACTTTTTACTTTTAAATTTATATATA
Found at i:2032558 original size:19 final size:18
Alignment explanation
Indices: 2032519--2032563 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2032509 ATTTTTAAAA
*
2032519 TTATTTATAATATAATCTT
1 TTATTT-TAATATAATATT
*
2032538 TTGATTTTAATATATTATT
1 TT-ATTTTAATATAATATT
2032557 TTATTTT
1 TTATTTT
2032564 TTAATTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTTTAATATAATATT
Found at i:2032914 original size:17 final size:17
Alignment explanation
Indices: 2032872--2032904 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2032862 ATCACGATTC
2032872 ATAAGATCACTTTAGTA
1 ATAAGATCACTTTAGTA
2032889 ATAAGATCACTTTAGT
1 ATAAGATCACTTTAGT
2032905 GATTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
ATAAGATCACTTTAGTA
Found at i:2033511 original size:3 final size:3
Alignment explanation
Indices: 2033503--2033541 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2033493 TCAATCAGTG
*
2033503 TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2033542 GTTTCTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2033740 original size:45 final size:45
Alignment explanation
Indices: 2033661--2033749 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
2033651 AATCACGTCT
* * * * * *
2033661 GACATAATTCAATCCCAGGATTCAAGCTTAAATTGATTTTATTTG
1 GACAGAATCCAATCCCAAGATTCAAACCTAAATTGATTCTATTTG
* *
2033706 GACAGAATCCAATCCCAAGATTCAAACCTGAATTGGTTCTATTT
1 GACAGAATCCAATCCCAAGATTCAAACCTAAATTGATTCTATTT
2033750 CAACCCTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (45 bp):
GACAGAATCCAATCCCAAGATTCAAACCTAAATTGATTCTATTTG
Found at i:2034024 original size:41 final size:40
Alignment explanation
Indices: 2033979--2034076 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
2033969 TTGAAATTTG
* * *
2033979 AAAATCTAGATTTAGGTATAAGTTTATGGGAAATTTATGGA
1 AAAATCTAGGTTTAGGTATAAATTTAT-GAAAATTTATGGA
** * * *
2034020 AAAATCTAGGTTTAAATATAAATTTCTGAAAATTTTTTGA
1 AAAATCTAGGTTTAGGTATAAATTTATGAAAATTTATGGA
2034060 AAAATCTAGGTTTAGGT
1 AAAATCTAGGTTTAGGT
2034077 TGAATGTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 25 0.53
41 22 0.47
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.39
Consensus pattern (40 bp):
AAAATCTAGGTTTAGGTATAAATTTATGAAAATTTATGGA
Found at i:2034420 original size:15 final size:14
Alignment explanation
Indices: 2034389--2034434 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
2034379 TCTATTTTAC
2034389 TTTTATTTTCTT-AT
1 TTTTATTTT-TTAAT
2034403 TTTTATTTTTTAAGT
1 TTTTATTTTTTAA-T
2034418 TTTTATTATTTT-AT
1 TTTTATT-TTTTAAT
2034432 TTT
1 TTT
2034435 CAATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.07
14 14 0.48
15 9 0.31
16 4 0.14
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTTAAT
Found at i:2034429 original size:23 final size:21
Alignment explanation
Indices: 2034374--2034454 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 21
2034364 ATTAGGTTTC
*
2034374 TTTTTTCTATTTTACTTTT--A
1 TTTTTT-TATTTTATTTTTCAA
*
2034394 TTTTCTTAT-TTTTATTTTTTAA
1 TTTT-TT-TATTTTATTTTTCAA
2034416 GTTTTTATTATTTTA-TTTTCAA
1 -TTTTT-TTATTTTATTTTTCAA
*
2034438 TTATTTTATTTTATTTT
1 TTTTTTTATTTTATTTT
2034455 ACTGTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 21 0.42
21 10 0.20
22 9 0.18
23 10 0.20
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTTTTTATTTTATTTTTCAA
Found at i:2034449 original size:29 final size:28
Alignment explanation
Indices: 2034381--2034454 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
2034371 TTCTTTTTTC
* *
2034381 TATTTTACTTTTATTTTCTTATTTTTAT
1 TATTTTATTTTTATTTTCTTATTTTAAT
2034409 T-TTTTAAGTTTTTATTATT-TTATTTTCAAT
1 TATTTT-A-TTTTTATT-TTCTTATTTT-AAT
2034439 TATTTTA-TTTTATTTT
1 TATTTTATTTTTATTTT
2034455 ACTGTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
27 6 0.15
28 9 0.23
29 14 0.36
30 6 0.15
31 4 0.10
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (28 bp):
TATTTTATTTTTATTTTCTTATTTTAAT
Found at i:2035563 original size:22 final size:22
Alignment explanation
Indices: 2035537--2035582 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2035527 TAAATAGTAT
2035537 TGGTGATGGGT-TCTTAAATGGC
1 TGGTGATGGGTGT-TTAAATGGC
* *
2035559 TGGTGGTGGGTGTTTAAGTGGC
1 TGGTGATGGGTGTTTAAATGGC
2035581 TG
1 TG
2035583 TGGAGAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.13, C:0.07, G:0.43, T:0.37
Consensus pattern (22 bp):
TGGTGATGGGTGTTTAAATGGC
Found at i:2041598 original size:16 final size:15
Alignment explanation
Indices: 2041545--2041597 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
2041535 GATGCACGAT
2041545 AATAATTTTATCTTAC
1 AATAATTTTAT-TTAC
*
2041561 AATAA-TTT-TTT-G
1 AATAATTTTATTTAC
2041573 AAT-ATTTTAATTTAC
1 AATAATTTT-ATTTAC
2041588 AATAATTTTA
1 AATAATTTTA
2041598 AATTTGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
11 1 0.03
12 6 0.20
13 2 0.07
14 4 0.13
15 7 0.23
16 10 0.33
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.53
Consensus pattern (15 bp):
AATAATTTTATTTAC
Found at i:2044001 original size:3 final size:3
Alignment explanation
Indices: 2043995--2044030 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
2043985 ATAAATATAG
2043995 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT
2044031 ACATAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2046780 original size:2 final size:2
Alignment explanation
Indices: 2046733--2046765 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2046723 TATGCAATTT
2046733 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2046766 ACTCAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2046888 original size:27 final size:28
Alignment explanation
Indices: 2046857--2046912 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
2046847 ATTGTAAATT
2046857 AAATATA-TACCTATATAATATAAATAA
1 AAATATAGTACCTATATAATATAAATAA
2046884 AAATATATGTACCTATATAATATAAATAA
1 AAATATA-GTACCTATATAATATAAATAA
2046913 GAATGCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 7 0.26
29 20 0.74
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (28 bp):
AAATATAGTACCTATATAATATAAATAA
Found at i:2055759 original size:13 final size:15
Alignment explanation
Indices: 2055731--2055763 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
2055721 TCAAAAATTC
2055731 AAACTCAAATATTTT
1 AAACTCAAATATTTT
2055746 AAACT-AAA-ATTTT
1 AAACTCAAATATTTT
2055759 AAACT
1 AAACT
2055764 TTAAGGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
AAACTCAAATATTTT
Found at i:2058852 original size:13 final size:15
Alignment explanation
Indices: 2058824--2058856 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
2058814 TTTAAAATTC
2058824 AAACTCAAATATTTT
1 AAACTCAAATATTTT
2058839 AAACT-AAA-ATTTT
1 AAACTCAAATATTTT
2058852 AAACT
1 AAACT
2058857 TTAAGGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
AAACTCAAATATTTT
Found at i:2059523 original size:4 final size:4
Alignment explanation
Indices: 2059514--2059571 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
2059504 TTCCATCTTC
* * * * *
2059514 ATAT ATAT ATAT ATAT ATAT ATAT ATAT GTAT GTAT GTAT GTAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
2059562 GTAT ATAT AT
1 ATAT ATAT AT
2059572 TCAAAACTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:2061383 original size:16 final size:15
Alignment explanation
Indices: 2061357--2061390 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2061347 GCTATATAAA
2061357 TATAAATATAAATAT
1 TATAAATATAAATAT
*
2061372 TATAATATATAAATTT
1 TATAA-ATATAAATAT
2061388 TAT
1 TAT
2061391 CCATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATATAAATAT
Found at i:2075254 original size:15 final size:15
Alignment explanation
Indices: 2075234--2075264 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2075224 CTATGAAATC
*
2075234 TTTTATATATAAAAA
1 TTTTATATAAAAAAA
2075249 TTTTATATAAAAAAA
1 TTTTATATAAAAAAA
2075264 T
1 T
2075265 CAAGTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTATATAAAAAAA
Found at i:2076209 original size:25 final size:24
Alignment explanation
Indices: 2076157--2076217 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
2076147 TATTTTTAAT
*
2076157 TAAAATTTTTTAAAATATTAATAC
1 TAAAAATTTTTAAAATATTAATAC
* * **
2076181 TAAAAATCTTTTAATATTTTAATTT
1 TAAAAAT-TTTTAAAATATTAATAC
*
2076206 TAAATATTTTTA
1 TAAAAATTTTTA
2076218 TAATTCTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTTTAAAATATTAATAC
Found at i:2076447 original size:26 final size:25
Alignment explanation
Indices: 2076399--2076456 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
2076389 TTATTGACAA
*
2076399 AAATATTTATTACTATTTTAATAGTAT
1 AAATATTTATTACTATTTCAATA--AT
*
2076426 AAATATTT-TTAGTATTTCAATAAT
1 AAATATTTATTACTATTTCAATAAT
2076450 AAATATT
1 AAATATT
2076457 ACTATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.31
26 12 0.41
27 8 0.28
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
AAATATTTATTACTATTTCAATAAT
Found at i:2081336 original size:26 final size:25
Alignment explanation
Indices: 2081306--2081363 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
2081296 AAATTTTAAT
* *
2081306 ATACATTCTCATTTAATTTAAAGATA
1 ATACAATCT-ATTTAATTTAAAAATA
**
2081332 ATACAAATCTATTTTTTTTAAAAATA
1 ATAC-AATCTATTTAATTTAAAAATA
2081358 ATACAA
1 ATACAA
2081364 ATCTTGATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.07
26 21 0.78
27 4 0.15
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (25 bp):
ATACAATCTATTTAATTTAAAAATA
Found at i:2081708 original size:3 final size:3
Alignment explanation
Indices: 2081700--2081725 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2081690 TTTCATCAAT
2081700 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
2081726 TCCTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2085360 original size:28 final size:28
Alignment explanation
Indices: 2085328--2085384 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2085318 CCCTACTCAA
*
2085328 TTTCAAAAACCTTAACATAGTATAGGTG
1 TTTCAAAAACCTTAACATAGTATAAGTG
**
2085356 TTTCAAAAACCTTAATTTAGTATAAGTG
1 TTTCAAAAACCTTAACATAGTATAAGTG
2085384 T
1 T
2085385 CTTAGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (28 bp):
TTTCAAAAACCTTAACATAGTATAAGTG
Found at i:2087144 original size:27 final size:27
Alignment explanation
Indices: 2087113--2087169 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
2087103 AAAAAATAAT
*
2087113 AAAAATTACTATAGTTATGATTGAAAA
1 AAAAATTACTATAATTATGATTGAAAA
* * *
2087140 AAAAATTATTGTAATTATGATTTAAAA
1 AAAAATTACTATAATTATGATTGAAAA
2087167 AAA
1 AAA
2087170 CTTAATGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAAATTACTATAATTATGATTGAAAA
Found at i:2093577 original size:21 final size:21
Alignment explanation
Indices: 2093536--2093578 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2093526 AAACTATAAA
*
2093536 TTTAACAAAAAAAGATAAAAT
1 TTTAACAAAAAAAGAAAAAAT
*
2093557 TTTAA-AATAAAAGAAACAAAT
1 TTTAACAAAAAAAGAAA-AAAT
2093578 T
1 T
2093579 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
TTTAACAAAAAAAGAAAAAAT
Found at i:2097633 original size:18 final size:19
Alignment explanation
Indices: 2097612--2097661 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
2097602 AGTTCGATTC
2097612 ATTT-TATTAATTTTTTAT
1 ATTTATATTAATTTTTTAT
* *
2097630 ATTTATATTTA-TATTTAT
1 ATTTATATTAATTTTTTAT
*
2097648 ATTTATATAAATTT
1 ATTTATATTAATTT
2097662 AAATATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTATATTAATTTTTTAT
Found at i:2097665 original size:6 final size:6
Alignment explanation
Indices: 2097625--2097655 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2097615 TTATTAATTT
2097625 TTTATA TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
2097656 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:2097862 original size:21 final size:21
Alignment explanation
Indices: 2097838--2097880 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2097828 TATTCTACAT
2097838 TTTGAATAGATTTTTCTCACC
1 TTTGAATAGATTTTTCTCACC
2097859 TTTGAATAGATTTTTCTCACC
1 TTTGAATAGATTTTTCTCACC
2097880 T
1 T
2097881 CTACTGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTGAATAGATTTTTCTCACC
Found at i:2100978 original size:24 final size:24
Alignment explanation
Indices: 2100951--2100997 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2100941 TGCCAAGTTA
2100951 AATGTTTGAGATATTCATATCTAT
1 AATGTTTGAGATATTCATATCTAT
2100975 AATGTTTGAGATATTCATATCTA
1 AATGTTTGAGATATTCATATCTA
2100998 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (24 bp):
AATGTTTGAGATATTCATATCTAT
Found at i:2110835 original size:333 final size:335
Alignment explanation
Indices: 2110245--2111185 Score: 1202
Period size: 333 Copynumber: 2.8 Consensus size: 335
2110235 ACAAAAGGCG
* ** * *
2110245 TTTGTTAGA-AACAGACGGCTTCAAAATTTTCTCACTAAATATTTTAGGAATTACTAAAGGCATT
1 TTTGTTA-ATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGCATC
* *
2110309 TTCTACTGTAAAATACCTTCTATATACCGCTACATATATTGTAACACTATTATTGAAAGCGTATA
65 TTATACTGTAAAATACCTTCTATATACCGCTACATATATTGTAACACTATTATTGAAGGCGTATA
* * * * *
2110374 TTTAAGATAAAGGCCTTTAATAATTCCTATCACAGTTTGTATATAATTACTGAAAGCGGTTTTAG
130 TTTAAGATAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTACTGAAGGCGGTTTCAG
2110439 ATAACAACGCCTTCAATAA-TTTTCTTAATAAAAGTTTTCAAGATTATTAAAGACGTATTTTATT
195 ATAACAACGCCTTCAATAATTTTTCTTAATAAAAGTTTTCAAGATTATTAAAGACGTATTTTATT
* * * * ** ** *
2110503 ATAAGCCGCCTTCGATATACCACGTTGGTAATTGAAGGTGA-G-TATTA-AAAAAGGTGCCTTCC
260 ATAAGCCACCTTCAATATACCACGATGGTAATCGAACAT-ATGTTATTAGAAAAA-GCACCTTCA
***
2110565 ATTACTGAAGGTA
323 ATTACTGAAAACA
** *
2110578 TTTGTTAATAACAGACGCCTTCAAAAGTTTTC-CACTAAATATTTTAAAAATTATTAAAAACGTC
1 TTTGTTAATAACAGACGCCTTCAAAA-TTTTCTCACTAAATATTTTAAAAATTATTAAAGGCATC
*
2110642 TTATACTGTAAAATACCTTCTATATACCGCTACATATATTGTAACACTGTTATTGAAGGCGTATA
65 TTATACTGTAAAATACCTTCTATATACCGCTACATATATTGTAACACTATTATTGAAGGCGTATA
* *
2110707 TTTAAGATAGACACCTTTAGTAATTTCTATCACAGTTTGTATATAATTACTGAAGGCGGTTTCAG
130 TTTAAGATAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTACTGAAGGCGGTTTCAG
* * * *
2110772 ATAAAAACGCCTTCAATAATTTTTC-TAATAAAAGTTTTCAGGATTATTAAATACGTCTTTTATT
195 ATAACAACGCCTTCAATAATTTTTCTTAATAAAAGTTTTCAAGATTATTAAAGACGTATTTTATT
*
2110836 ATAAGCCACCTTCAATATACCACGATGGTAATCGAACATATGTTATTAGAAAAAGCACCTTTAAT
260 ATAAGCCACCTTCAATATACCACGATGGTAATCGAACATATGTTATTAGAAAAAGCACCTTCAAT
*
2110901 TACTGAAAACG
325 TACTGAAAACA
*
2110912 TTTGTTAATAACAGACACCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGCATCT
1 TTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGCATCT
* * * * * * *
2110977 TTTATTGTAAAATGCCTT-TCATATACCGTTACACATATTATAACACTATTATTGAAGTCGTATA
66 TATACTGTAAAATACCTTCT-ATATACCGCTACATATATTGTAACACTATTATTGAAGGCGTATA
* * * * * *** *
2111041 TTTAAGATAGATGCCTTTAATAATTTTTATCATAATTTGTATATAATTATTGAAGGTAATTTCAA
130 TTTAAGATAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTACTGAAGGCGGTTTCAG
* * * * ** *
2111106 ATAACAACGCCTTCAATATTTTTTC-AAAAAAAAATTTTTTA-ATTATTAAAGGCGT-TTTTAAT
195 ATAACAACGCCTTCAATAATTTTTCTTAATAAAAGTTTTCAAGATTATTAAAGACGTATTTT-AT
*
2111168 TATAAGCCACCTTAAATA
259 TATAAGCCACCTTCAATA
2111186 ATTTGTTATA
Statistics
Matches: 529, Mismatches: 70, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
332 6 0.01
333 293 0.55
334 225 0.43
335 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (335 bp):
TTTGTTAATAACAGACGCCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGGCATCT
TATACTGTAAAATACCTTCTATATACCGCTACATATATTGTAACACTATTATTGAAGGCGTATAT
TTAAGATAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTACTGAAGGCGGTTTCAGA
TAACAACGCCTTCAATAATTTTTCTTAATAAAAGTTTTCAAGATTATTAAAGACGTATTTTATTA
TAAGCCACCTTCAATATACCACGATGGTAATCGAACATATGTTATTAGAAAAAGCACCTTCAATT
ACTGAAAACA
Found at i:2115223 original size:36 final size:35
Alignment explanation
Indices: 2115171--2115239 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
2115161 ATATATAAAC
*
2115171 CAAATATTTTTTGGGCATAAATATACAACTGACAA
1 CAAACATTTTTTGGGCATAAATATACAACTGACAA
* *
2115206 CAAACATTTTTCTGGGCATAACTGTACAACTGAC
1 CAAACATTTTT-TGGGCATAAATATACAACTGAC
2115240 TAAACATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 10 0.33
36 20 0.67
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (35 bp):
CAAACATTTTTTGGGCATAAATATACAACTGACAA
Found at i:2118183 original size:2 final size:2
Alignment explanation
Indices: 2118176--2118209 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2118166 CCTAAATCTA
2118176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2118210 CTAACATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.