Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 29 of 145
Found at i:9399528 original size:17 final size:17
Alignment explanation
Indices: 9399481--9399529 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
9399471 TATACACACA
9399481 TACATATTTTCATA-ACT
1 TACATATTTT-ATATACT
*
9399498 TACATA-TATATATACT
1 TACATATTTTATATACT
*
9399514 TATATATTTTATATAC
1 TACATATTTTATATAC
9399530 GTATCTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.11
16 10 0.37
17 14 0.52
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (17 bp):
TACATATTTTATATACT
Found at i:9406820 original size:17 final size:17
Alignment explanation
Indices: 9406798--9406861 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
9406788 AATCTTAAAG
9406798 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
9406815 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
9406834 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
9406851 TTTTAATTGTA
1 TTCTAATTGTA
9406862 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:9406837 original size:36 final size:36
Alignment explanation
Indices: 9406790--9406860 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
9406780 GATTATGTAA
9406790 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
* *
9406826 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGT
9406861 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAAAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:9407041 original size:11 final size:11
Alignment explanation
Indices: 9407014--9407055 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
9407004 CTTTCAACGT
9407014 TTGTTCTTACT-
1 TTGTTCTT-CTG
*
9407025 TCGTTCTTCTG
1 TTGTTCTTCTG
9407036 TTGTTCTTCTG
1 TTGTTCTTCTG
*
9407047 CTGTTCTTC
1 TTGTTCTTC
9407056 GTGGGTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 2 0.07
11 25 0.93
ACGTcount: A:0.02, C:0.24, G:0.14, T:0.60
Consensus pattern (11 bp):
TTGTTCTTCTG
Found at i:9407052 original size:22 final size:22
Alignment explanation
Indices: 9407014--9407055 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9407004 CTTTCAACGT
*
9407014 TTGTTCTTACTTCGTTCTTCTG
1 TTGTTCTTACTGCGTTCTTCTG
9407036 TTGTTCTT-CTGCTGTTCTTC
1 TTGTTCTTACTGC-GTTCTTC
9407056 GTGGGTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.02, C:0.24, G:0.14, T:0.60
Consensus pattern (22 bp):
TTGTTCTTACTGCGTTCTTCTG
Found at i:9407150 original size:48 final size:48
Alignment explanation
Indices: 9407079--9407170 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
9407069 GGGAATTCTA
* *
9407079 TTGAATCCTTTATTATTGTAAGTTAGGCCGACTTAGGCGTTTTTGCTG
1 TTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTGCTG
*
9407127 TTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 TTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTT
9407171 AAGCAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (48 bp):
TTGAATCCTTTATCATTGCAAGTTAGGCCGACTTAGGCGTTTTTGCTG
Found at i:9414197 original size:12 final size:12
Alignment explanation
Indices: 9414180--9414207 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9414170 TATTTACGAA
9414180 GTTAGTTGTGTG
1 GTTAGTTGTGTG
9414192 GTTAGTTGTGTG
1 GTTAGTTGTGTG
9414204 GTTA
1 GTTA
9414208 ATTAGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (12 bp):
GTTAGTTGTGTG
Found at i:9414842 original size:12 final size:12
Alignment explanation
Indices: 9414825--9414852 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9414815 TATTTAAGAA
9414825 GTTAGTTGTGTG
1 GTTAGTTGTGTG
9414837 GTTAGTTGTGTG
1 GTTAGTTGTGTG
9414849 GTTA
1 GTTA
9414853 ATTAGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (12 bp):
GTTAGTTGTGTG
Found at i:9414969 original size:645 final size:645
Alignment explanation
Indices: 9413739--9414993 Score: 2404
Period size: 645 Copynumber: 1.9 Consensus size: 645
9413729 ACCGTATGAG
9413739 ATCACGAAAAGAGTGGGACCAGTTGCATATCGCTTAGATTTTCCTATGAAATTACAGAAAATACA
1 ATCACGAAAAGAGTGGGACCAGTTGCATATCGCTTAGATTTTCCTATGAAATTACAGAAAATACA
9413804 TGATATTTTTCATGTTTCAATACTTAGAAGATATCGATCGGATCCATCTAATGTTATTTCGACGG
66 TGATATTTTTCATGTTTCAATACTTAGAAGATATCGATCGGATCCATCTAATGTTATTTCGACGG
9413869 AAGATATTGAGATTCAACCTGATTTATCATACGAAGAAGAACCAATTGAGATTTTGGCACGTGAG
131 AAGATATTGAGATTCAACCTGATTTATCATACGAAGAAGAACCAATTGAGATTTTGGCACGTGAG
9413934 GTGAAAGAGTTGCGTAATAAGCGAGTTTCGTTAGTGAAAGTATCATGGCGTAATCATAGTGTTGA
196 GTGAAAGAGTTGCGTAATAAGCGAGTTTCGTTAGTGAAAGTATCATGGCGTAATCATAGTGTTGA
* *
9413999 GGAAGCAACTTGGGAACTGGAAGAGACAATGAGATCTTAATACCCCCACCTCTTTTTCGGTAAAT
261 GGAAGCAACTTGGGAACTGGAAAAGACAATGAGATCTTAATACCCCCACCTCTTTTTAGGTAAAT
* *
9414064 TTCGGGGATGAAATTTATTAAGGGGGAGAATTGTTACGACTTGATAGTCACGGGTGTTAGAATGT
326 TTCGGGGACGAAATTTATTAAGGGGGAGAATTGTAACGACTTGATAGTCACGGGTGTTAGAATGT
*
9414129 GCATTTTCGAGACTCTATTTTTGTAAATCTAACTCAATAAATATTTACGAAGTTAGTTGTGTGGT
391 GCATTTTCGAGACTCTATTTTTGTAAATCTAACTCAATAAATATTTAAGAAGTTAGTTGTGTGGT
*
9414194 TAGTTGTGTGGTTAATTAGGTTTTGGTTAGGTGAATTTTCATGAATTAAGAGTAATTAGGTATAA
456 TAGTTGTGTGGTTAATTAGGTTTTGGTTAGGTGAATTTTCATGAATTAAGAGTAATTAGGGATAA
*
9414259 AGACTAAATTGCATAAAGGGTGAAAGTTGAATTATAGATTAAAGAAAAATTTAGAGGACCAAAGA
521 AGACTAAATTGCATAAAGGGTGAAAATTGAATTATAGATTAAAGAAAAATTTAGAGGACCAAAGA
9414324 AGCAATTAAGCCATTGCTTATAAATACATGATATTTTTCATGTTTCAATACTTAGAAGAT
586 AGCAATTAAGCCATTGCTTATAAATACATGATATTTTTCATGTTTCAATACTTAGAAGAT
*
9414384 ATCACGAAAAGAGTGGGAGCAGTTGCATATCGCTTAGATTTTCCTATGAAATTACAGAAAATACA
1 ATCACGAAAAGAGTGGGACCAGTTGCATATCGCTTAGATTTTCCTATGAAATTACAGAAAATACA
*
9414449 TGATATTTTTCATGTTTCAATACTTAGAAGATATCGATCGGATCCATCTAGTGTTATTTCGACGG
66 TGATATTTTTCATGTTTCAATACTTAGAAGATATCGATCGGATCCATCTAATGTTATTTCGACGG
9414514 AAGATATTGAGATTCAACCTGATTTATCATACGAAGAAGAACCAATTGAGATTTTGGCACGTGAG
131 AAGATATTGAGATTCAACCTGATTTATCATACGAAGAAGAACCAATTGAGATTTTGGCACGTGAG
9414579 GTGAAAGAGTTGCGTAATAAGCGAGTTTCGTTAGTGAAAGTATCATGGCGTAATCATAGTGTTGA
196 GTGAAAGAGTTGCGTAATAAGCGAGTTTCGTTAGTGAAAGTATCATGGCGTAATCATAGTGTTGA
9414644 GGAAGCAACTTGGGAA-TCGGAAAAGACAATGAGATCTTAATACCCCCACCTCTTTTTAGGTAAA
261 GGAAGCAACTTGGGAACT-GGAAAAGACAATGAGATCTTAATACCCCCACCTCTTTTTAGGTAAA
9414708 TTTCGGGGACGAAATTTATTAAGGGGGAGAATTGTAACGACTTGATAGTCACGGGTGTTAGAATG
325 TTTCGGGGACGAAATTTATTAAGGGGGAGAATTGTAACGACTTGATAGTCACGGGTGTTAGAATG
9414773 TGCATTTTCGAGACTCTATTTTTGTAAATCTAACTCAATAAATATTTAAGAAGTTAGTTGTGTGG
390 TGCATTTTCGAGACTCTATTTTTGTAAATCTAACTCAATAAATATTTAAGAAGTTAGTTGTGTGG
9414838 TTAGTTGTGTGGTTAATTAGGTTTTGGTTAGGTGAATTTTCATGAATTAAGAGTAATTAGGGATA
455 TTAGTTGTGTGGTTAATTAGGTTTTGGTTAGGTGAATTTTCATGAATTAAGAGTAATTAGGGATA
9414903 AAGACTAAATTGCATAAAGGGTGAAAATTGAATTATAGATTAAAGAAAAATTTAGAGGACCAAAG
520 AAGACTAAATTGCATAAAGGGTGAAAATTGAATTATAGATTAAAGAAAAATTTAGAGGACCAAAG
*
9414968 AAGCAATTATGCCATTGCTTATAAAT
585 AAGCAATTAAGCCATTGCTTATAAAT
9414994 GAGGCGGCAT
Statistics
Matches: 599, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
644 1 0.00
645 598 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (645 bp):
ATCACGAAAAGAGTGGGACCAGTTGCATATCGCTTAGATTTTCCTATGAAATTACAGAAAATACA
TGATATTTTTCATGTTTCAATACTTAGAAGATATCGATCGGATCCATCTAATGTTATTTCGACGG
AAGATATTGAGATTCAACCTGATTTATCATACGAAGAAGAACCAATTGAGATTTTGGCACGTGAG
GTGAAAGAGTTGCGTAATAAGCGAGTTTCGTTAGTGAAAGTATCATGGCGTAATCATAGTGTTGA
GGAAGCAACTTGGGAACTGGAAAAGACAATGAGATCTTAATACCCCCACCTCTTTTTAGGTAAAT
TTCGGGGACGAAATTTATTAAGGGGGAGAATTGTAACGACTTGATAGTCACGGGTGTTAGAATGT
GCATTTTCGAGACTCTATTTTTGTAAATCTAACTCAATAAATATTTAAGAAGTTAGTTGTGTGGT
TAGTTGTGTGGTTAATTAGGTTTTGGTTAGGTGAATTTTCATGAATTAAGAGTAATTAGGGATAA
AGACTAAATTGCATAAAGGGTGAAAATTGAATTATAGATTAAAGAAAAATTTAGAGGACCAAAGA
AGCAATTAAGCCATTGCTTATAAATACATGATATTTTTCATGTTTCAATACTTAGAAGAT
Found at i:9419788 original size:24 final size:24
Alignment explanation
Indices: 9419744--9419819 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
9419734 CTAAGCTTAA
* *
9419744 TAACAGGAAGCTCACAAAGAGC-CT
1 TAACGGGAAGCTC-CGAAGAGCACT
* *
9419768 ATATCGGGTAGCTCCGAAGAGCACT
1 -TAACGGGAAGCTCCGAAGAGCACT
9419793 TAACGGGAAGCTCCGAAGAGCACT
1 TAACGGGAAGCTCCGAAGAGCACT
9419817 TAA
1 TAA
9419820 TTAGAAAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 32 0.73
25 12 0.27
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.16
Consensus pattern (24 bp):
TAACGGGAAGCTCCGAAGAGCACT
Found at i:9429217 original size:25 final size:25
Alignment explanation
Indices: 9429189--9429318 Score: 111
Period size: 25 Copynumber: 5.2 Consensus size: 25
9429179 CAAGTTGTAT
*
9429189 ATCGAGAAGCTCATGCGAGCCATAA
1 ATCGGGAAGCTCATGCGAGCCATAA
*
9429214 ATCGGGAAGCTCATGCAAGCCATAA
1 ATCGGGAAGCTCATGCGAGCCATAA
* * * *
9429239 ATTGGGAAACTCATGCGAACCA-ATT
1 ATCGGGAAGCTCATGCGAGCCATA-A
* * *
9429264 ATCGGGAAGCTCAAGAGAGCCATTA
1 ATCGGGAAGCTCATGCGAGCCATAA
** * *
9429289 ATCAAGAAGCTCGTGAGAGCCA-AA
1 ATCGGGAAGCTCATGCGAGCCATAA
9429313 TATCGG
1 -ATCGG
9429319 ACATGTTATT
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
24 2 0.02
25 79 0.98
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
ATCGGGAAGCTCATGCGAGCCATAA
Found at i:9430038 original size:332 final size:332
Alignment explanation
Indices: 9429603--9430603 Score: 1984
Period size: 332 Copynumber: 3.0 Consensus size: 332
9429593 ATTCACATTC
*
9429603 AATTCAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
1 AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
9429668 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
66 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
9429733 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
131 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
9429798 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
196 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
9429863 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
261 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
9429928 CTTTAAT
326 CTTTAAT
9429935 AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
1 AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
*
9430000 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATCTTATTTCAAGCCAATTTTCAT
66 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
9430065 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
131 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
9430130 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
196 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
9430195 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
261 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
9430260 CTTTAAT
326 CTTTAAT
9430267 AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
1 AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
9430332 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
66 ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
9430397 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
131 ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
9430462 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
196 CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
9430527 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
261 ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
9430592 CTTTAAT
326 CTTTAAT
9430599 AATTT
1 AATTT
9430604 TGCAAATTAA
Statistics
Matches: 666, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
332 666 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (332 bp):
AATTTAGTCCAATACATATCTTTGGCAAAATTACTATTTTGCCCCTATACTTTTAATTAATTATG
ATTTTGTCTTTAGGCTCGGAAAATGAAATTCATACAATTTAATATTATTTCAAGCCAATTTTCAT
ACATATCCATAGCAGCTTATGTATTTCAAAAAATTCAAAATTTTTCCATAAATTTTCCATATTTT
CAATTTAGTCCCTAAATCATAATTTCATCAAAATTTTCTTTACAAAAGTTGTTTATATATCAACA
ACCTTTCATTTTCTACCATAAAACTTTATAATTCAACTATACTCATCCATGGAAAAACCCTAACA
CTTTAAT
Found at i:9436859 original size:14 final size:14
Alignment explanation
Indices: 9436840--9436866 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9436830 AATTAGTTTA
9436840 AAATCAAACTTAAT
1 AAATCAAACTTAAT
9436854 AAATCAAACTTAA
1 AAATCAAACTTAA
9436867 ATTTTTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATCAAACTTAAT
Found at i:9443572 original size:18 final size:18
Alignment explanation
Indices: 9443549--9443587 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
9443539 TCATGGTTCT
9443549 AAAGTGTTACTGATATGA
1 AAAGTGTTACTGATATGA
9443567 AAAGTGTTACTGATATGA
1 AAAGTGTTACTGATATGA
9443585 AAA
1 AAA
9443588 ACTATTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (18 bp):
AAAGTGTTACTGATATGA
Found at i:9447607 original size:16 final size:17
Alignment explanation
Indices: 9447586--9447628 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
9447576 AAAAAATTAG
9447586 AAAATTGTATAAAAT-T
1 AAAATTGTATAAAATCT
9447602 AAAATTG-A-AAAATCT
1 AAAATTGTATAAAATCT
9447617 AAAA-TGTATAAA
1 AAAATTGTATAAA
9447629 GTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.29
15 7 0.29
16 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (17 bp):
AAAATTGTATAAAATCT
Found at i:9453206 original size:13 final size:13
Alignment explanation
Indices: 9453188--9453217 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9453178 AGCCCAAACT
9453188 CAATTACCCAACC
1 CAATTACCCAACC
9453201 CAATTACCCAACC
1 CAATTACCCAACC
9453214 CAAT
1 CAAT
9453218 AAAACTAAAA
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:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:9464522 original size:17 final size:19
Alignment explanation
Indices: 9464444--9464515 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
9464434 ATCTTCAAGA
9464444 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
* * *
9464463 ATTTGTAATCTTAGGTATG
1 ATATGCAATCTTAGATATG
*
9464482 ATATACAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
9464501 ATATGCAATTTTAGA
1 ATATGCAATCTTAGA
9464516 AGATATGATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:9464768 original size:23 final size:23
Alignment explanation
Indices: 9464724--9464768 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9464714 TCTTATTTTG
* *
9464724 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
9464747 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
9464769 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:9467141 original size:30 final size:30
Alignment explanation
Indices: 9467107--9467169 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
9467097 ACTTATTTTA
9467107 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
9467137 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
9467167 TTG
1 TTG
9467170 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:9467307 original size:11 final size:11
Alignment explanation
Indices: 9467291--9467321 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9467281 TATGTATATT
9467291 TAAAAATTATA
1 TAAAAATTATA
9467302 TAAAAATTATA
1 TAAAAATTATA
9467313 TAAAAATTA
1 TAAAAATTA
9467322 ATACGGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:9467832 original size:21 final size:22
Alignment explanation
Indices: 9467793--9467835 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9467783 TAAAAATTAT
9467793 TTTATATTAATATTTTATATAA
1 TTTATATTAATATTTTATATAA
9467815 TTTATAATTAA-A-TTTATATAA
1 TTTAT-ATTAATATTTTATATAA
9467836 AAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATATTAATATTTTATATAA
Found at i:9469427 original size:27 final size:27
Alignment explanation
Indices: 9469389--9469443 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9469379 AGATTGATAA
9469389 TAACAGATGAAATCTAGGTGAATTCTT
1 TAACAGATGAAATCTAGGTGAATTCTT
9469416 TAACAGATGAAATCTAGGTGAATTCTT
1 TAACAGATGAAATCTAGGTGAATTCTT
9469443 T
1 T
9469444 CCTAAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (27 bp):
TAACAGATGAAATCTAGGTGAATTCTT
Found at i:9484406 original size:21 final size:21
Alignment explanation
Indices: 9484396--9484443 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9484386 TATCTAATTA
9484396 TAAATATTTAATGATTATATT
1 TAAATATTTAATGATTATATT
* *
9484417 TAAATATTTGATAATAATATATT
1 TAAATATTTAATGAT--TATATT
9484440 TAAA
1 TAAA
9484444 ATGAACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TAAATATTTAATGATTATATT
Found at i:9484527 original size:13 final size:13
Alignment explanation
Indices: 9484511--9484563 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
9484501 TAAACTAAAC
9484511 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
*
9484524 TTTTCAAAAATATT
1 TTTTCAAAAGTA-T
* * *
9484538 TTTTCACAA-CAC
1 TTTTCAAAAGTAT
9484550 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
9484563 T
1 T
9484564 GCTAGACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (13 bp):
TTTTCAAAAGTAT
Found at i:9495796 original size:25 final size:26
Alignment explanation
Indices: 9495759--9495809 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
9495749 TAATTATAGA
*
9495759 TATACATTGCCGAATTTG-ATTGTTT
1 TATACATTGCCGAATTCGAATTGTTT
* *
9495784 TATATATTTCCGAATTCGAATTGTTT
1 TATACATTGCCGAATTCGAATTGTTT
9495810 ATAATTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (26 bp):
TATACATTGCCGAATTCGAATTGTTT
Found at i:9495923 original size:92 final size:92
Alignment explanation
Indices: 9495814--9496435 Score: 491
Period size: 92 Copynumber: 6.8 Consensus size: 92
9495804 TTGTTTATAA
* * * * * * * *
9495814 TTATACATTGTCGAAATTGATTTGCATATAGATATATGTTGCCTAATTGATTTGTATATGATTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTAT
* *
9495879 ACATTGCTGAAATTAATCTGTACATGG
66 ATATTGCTGAAATTAATTTGTACATGG
* * *
9495906 TTATACATTTTTGAAATTAAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATAATTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTAT
*
9495971 ATATTGCTGAATTTAATTTGTACATGG
66 ATATTGCTGAAATTAATTTGTACATGG
*
9495998 TTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTAT
*
9496063 ATATCGCTGAAATTAATTTGTACATGG
66 ATATTGCTGAAATTAATTTGTACATGG
* * * *
9496090 TTATACATTGTTGAAATTGAATTGTATATGGATATAAATTG-CTGAAATTAATTTGTACATGGTT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTC-G-AATTGATTTGTATATGATT
* ** * *
9496154 ATACATTTTTTAAATTGAA-TTGTATATGG
64 ATATATTGCTGAAATT-AATTTGTACATGG
* ** * ** * * *
9496183 ATATA-AGTTGCCG-AATTGATTTGTATAT-GATTATATA-TTGCTAAAATTAATTTGTACATGG
1 TTATACA-TTGTTGAAATTGAATTGTATATGGA-TATA-AGTTG-TCGAATTGATTTGTATATGA
* * *
9496244 TTATACATTGTTGAAATTGAA-TTGTATATGG
62 TTATATATTGCTGAAATT-AATTTGTACATGG
* ** * *
9496275 ATATA-AGTTGCCG-AATTG-ATTCGTATATGGTTATACA-TTG-CTGAATTTAATTTGTATATG
1 TTATACA-TTGTTGAAATTGAATT-GTATATGGATATA-AGTTGTC-GAA-TTGATTTGTATATG
* * * * *
9496335 ATTATACATTG-TCGAACTTGATTCGTATATGG
61 ATTATATATTGCT-GAAATTAATTTGTACATGG
* * * * * * * * *
9496367 TTATACATTGTCG-ATTTTATTTGTATATAGATATACA-TTGCCGAATTTGGTTCGTATATGAAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGTCGAA-TTGATTTGTATATGATT
9496430 ATATAT
64 ATATAT
9496436 ATTGATTAAT
Statistics
Matches: 453, Mismatches: 60, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
91 9 0.02
92 392 0.87
93 50 0.11
94 2 0.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (92 bp):
TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTAT
ATATTGCTGAAATTAATTTGTACATGG
Found at i:9496131 original size:154 final size:153
Alignment explanation
Indices: 9495917--9496371 Score: 598
Period size: 154 Copynumber: 3.0 Consensus size: 153
9495907 TATACATTTT
* * * * * * *
9495917 TGAAATTAAATTGTATATGGATATA-AGTTGTCG-AATTGATTTGTATAT-AATTATATATTGCT
1 TGAAATTAATTTGTACATGGTTATACA-TTGTTGAAATTGAATTGTATATGGA-TATAAATTGCT
9495979 GAATTTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAA
64 GAA-TTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAA
9496044 TTGATTTGTATATGATTATATATCGC
128 TTGATTTGTATATGATTATATATCGC
9496070 TGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAATTGCTGA
1 TGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAATTGCTG-
* * *
9496135 AATTAATTTGTACATGGTTATACATTTTTTAAATTGAATTGTATATGGATATAAGTTGCCGAATT
65 AATTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAATT
*
9496200 GATTTGTATATGATTATATATTGC
130 GATTTGTATATGATTATATATCGC
* * *
9496224 TAAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGA
1 TGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAATTGCTGA
* * * ** *
9496289 ATTGATTCGTATATGGTTATACATTGCTG-AATTTAATTTGTATAT-GATTATACA-TTGTCGAA
66 ATTAATTTGTACATGGTTATACATTATTGAAATTGAA-TTGTATATGGA-TATA-AGTTGTCGAA
* *
9496351 CTTGATTCGTATATGGTTATA
128 -TTGATTTGTATATGATTATA
9496372 CATTGTCGAT
Statistics
Matches: 270, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
152 8 0.03
153 70 0.26
154 189 0.70
155 3 0.01
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (153 bp):
TGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAATTGCTGA
ATTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTG
ATTTGTATATGATTATATATCGC
Found at i:9496163 original size:246 final size:246
Alignment explanation
Indices: 9495858--9496376 Score: 808
Period size: 246 Copynumber: 2.1 Consensus size: 246
9495848 TATGTTGCCT
* *
9495858 AATTGATTTGTATAT-GATTGTACATTGCTGAAATTAATCTGTACATGGTTATACATTTTTGAAA
1 AATTGAATTGTATATGGA-TATACATTGCTGAAATTAATCTGTACATGGTTATACATTTTTGAAA
* * *
9495922 TTAAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATAATTATATATTGCTGAATTTAA
65 TTAAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATAATTATATATTGCTAAAATTAA
* *
9495987 TTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTG
130 TTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCG
* * *
9496052 TATATGATTATATATCGCTGAAATTAATTTGTACATGGTTATACATTGTTGA
195 TATATGATTATACATCGCTGAAATTAATTTGTACATGATTATACATTGTCGA
* * *
9496104 AATTGAATTGTATATGGATATAAATTGCTGAAATTAATTTGTACATGGTTATACATTTTTTAAAT
1 AATTGAATTGTATATGGATATACATTGCTGAAATTAATCTGTACATGGTTATACATTTTTGAAAT
* *
9496169 TGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTATATATTGCTAAAATTAAT
66 TAAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATAATTATATATTGCTAAAATTAAT
*
9496234 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
131 TTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
* * * *
9496299 ATATGGTTATACATTGCTGAATTTAATTTGTATATGATTATACATTGTCGA
196 ATATGATTATACATCGCTGAAATTAATTTGTACATGATTATACATTGTCGA
* *
9496350 ACTTG-ATTCGTATATGGTTATACATTG
1 AATTGAATT-GTATATGGATATACATTG
9496377 TCGATTTTAT
Statistics
Matches: 248, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
245 3 0.01
246 243 0.98
247 2 0.01
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (246 bp):
AATTGAATTGTATATGGATATACATTGCTGAAATTAATCTGTACATGGTTATACATTTTTGAAAT
TAAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATAATTATATATTGCTAAAATTAAT
TTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
ATATGATTATACATCGCTGAAATTAATTTGTACATGATTATACATTGTCGA
Found at i:9496340 original size:31 final size:31
Alignment explanation
Indices: 9495863--9496432 Score: 313
Period size: 31 Copynumber: 18.5 Consensus size: 31
9495853 TGCCTAATTG
* *
9495863 ATTTGTATATGATTGTACATTGCTGAAATTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* * * ** *
9495894 ATCTGTACATGGTTATACATTTTTGAAATTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* *
9495925 AATTGTATATGGA-TATA-AGTTG-TCGAA-TTG
1 ATTTGTATAT-GATTATACA-TTGCT-GAATTTA
* *
9495955 ATTTGTATATAATTATATATTGCTGAATTTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* * ** *
9495986 ATTTGTACATGGTTATACATTATTGAAATTGA
1 ATTTGTATATGATTATACATTGCTG-AATTTA
*
9496018 A-TTGTATATGGA-TATA-AGTTG-TCGAA-TTG
1 ATTTGTATAT-GATTATACA-TTGCT-GAATTTA
* * *
9496047 ATTTGTATATGATTATATATCGCTGAAATTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* * * *
9496078 ATTTGTACATGGTTATACATTGTTGAAATTGA
1 ATTTGTATATGATTATACATTGCTG-AATTTA
* *
9496110 A-TTGTATATGGA-TATAAATTGCTGAAATTA
1 ATTTGTATAT-GATTATACATTGCTGAATTTA
* * ** * *
9496140 ATTTGTACATGGTTATACATTTTTTAAATTGA
1 ATTTGTATATGATTATACA-TTGCTGAATTTA
* *
9496172 A-TTGTATATGGA-TATA-AGTTGCCGAA-TTG
1 ATTTGTATAT-GATTATACA-TTGCTGAATTTA
* * *
9496201 ATTTGTATATGATTATATATTGCTAAAATTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* * * *
9496232 ATTTGTACATGGTTATACATTGTTGAAATTGA
1 ATTTGTATATGATTATACATTGCTG-AATTTA
* *
9496264 A-TTGTATATGGA-TATA-AGTTGCCGAA-TTG
1 ATTTGTATAT-GATTATACA-TTGCTGAATTTA
* *
9496293 ATTCGTATATGGTTATACATTGCTGAATTTA
1 ATTTGTATATGATTATACATTGCTGAATTTA
* *
9496324 ATTTGTATATGATTATACATTG-TCGAACTTG
1 ATTTGTATATGATTATACATTGCT-GAATTTA
* * *
9496355 ATTCGTATATGGTTATACATTG-TCG-ATTTT
1 ATTTGTATATGATTATACATTGCT-GAATTTA
* *
9496385 ATTTGTATATAGA-TATACATTGCCGAATTTG
1 ATTTGTATAT-GATTATACATTGCTGAATTTA
* * *
9496416 GTTCGTATATGAATATA
1 ATTTGTATATGATTATA
9496433 TATATTGATT
Statistics
Matches: 408, Mismatches: 93, Indels: 76
0.71 0.16 0.13
Matches are distributed among these distances:
29 12 0.03
30 119 0.29
31 248 0.61
32 29 0.07
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.44
Consensus pattern (31 bp):
ATTTGTATATGATTATACATTGCTGAATTTA
Found at i:9496421 original size:61 final size:60
Alignment explanation
Indices: 9495814--9496426 Score: 295
Period size: 61 Copynumber: 10.0 Consensus size: 60
9495804 TTGTTTATAA
* * * ** * * *
9495814 TTATACATTGTCGAAATTGATTTGCATATAGATATATGTTGCCTAATTGATTTGTATATGA
1 TTATACATTGTCGAATTTAATTTGTATAT-GATATACATTGCCGAATTGATTCGTATATGG
* * * * * *** *
9495875 TTGTACATTG-CTGAAATTAATCTGTACATGGTTATACATTTTTGAAATTAAATT-GTATATGG
1 TTATACATTGTC-GAATTTAATTTGTATAT-GATATACATTGCCG-AATT-GATTCGTATATGG
* * * * * * * *
9495937 ATATA-AGTTGTCGAA-TTGATTTGTATATAATTATATATTGCTGAATTTAATTTGTACATGG
1 TTATACA-TTGTCGAATTTAATTTGTATATGA-TATACATTGCCGAA-TTGATTCGTATATGG
* * * * * *
9495998 TTATACATTATTGAAATTGAA-TTGTATATGGATATA-AGTTGTCGAATTGATTTGTATATGA
1 TTATACATTGTCG-AATTTAATTTGTATAT-GATATACA-TTGCCGAATTGATTCGTATATGG
* * * * * **
9496059 TTATATATCG-CTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATT-GTATATGG
1 TTATACATTGTC-GAATTTAATTTGTATAT-GATATACATTGCCG-AATTG-ATTCGTATATGG
* * * * * ****
9496121 ATATAAATTG-CTGAAATTAATTTGTACATGGTTATACATTTTTTAAATTGAATT-GTATATGG
1 TTATACATTGTC-GAATTTAATTTGTATAT-GATATACA-TTGCCGAATTG-ATTCGTATATGG
* * * * ** * * *
9496183 ATATA-AGTTGCCGAA-TTGATTTGTATATGATTATATATTGCTAAAATTAATTTGTACATGG
1 TTATACA-TTGTCGAATTTAATTTGTATATGA-TATACATTGC-CGAATTGATTCGTATATGG
* *
9496244 TTATACATTGTTGAAATTGAA-TTGTATATGGATATA-AGTTGCCGAATTGATTCGTATATGG
1 TTATACATTGTCG-AATTTAATTTGTATAT-GATATACA-TTGCCGAATTGATTCGTATATGG
*
9496305 TTATACATTG-CTGAATTTAATTTGTATATGATTATACATTGTCGAACTTGATTCGTATATGG
1 TTATACATTGTC-GAATTTAATTTGTATATGA-TATACATTGCCGAA-TTGATTCGTATATGG
* *
9496367 TTATACATTGTCG-ATTTTATTTGTATATAGATATACATTGCCGAATTTGGTTCGTATATG
1 TTATACATTGTCGAATTTAATTTGTATAT-GATATACATTGCCGAA-TTGATTCGTATATG
9496427 AATATATATA
Statistics
Matches: 438, Mismatches: 78, Indels: 72
0.74 0.13 0.12
Matches are distributed among these distances:
60 26 0.06
61 227 0.52
62 165 0.38
63 20 0.05
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (60 bp):
TTATACATTGTCGAATTTAATTTGTATATGATATACATTGCCGAATTGATTCGTATATGG
Found at i:9504797 original size:25 final size:26
Alignment explanation
Indices: 9504759--9504808 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
9504749 TAATTATAGA
* *
9504759 TATACATTGTCGAATTTG-ATTGTTT
1 TATACATTGCCGAATTCGAATTGTTT
*
9504784 TATATATTGCCGAATTCGAATTGTT
1 TATACATTGCCGAATTCGAATTGTT
9504809 CATAGTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (26 bp):
TATACATTGCCGAATTCGAATTGTTT
Found at i:9505207 original size:183 final size:183
Alignment explanation
Indices: 9504783--9505463 Score: 1066
Period size: 183 Copynumber: 3.7 Consensus size: 183
9504773 TTTGATTGTT
* * * * * * *
9504783 TTATATATTGCCG-AATTCGAA-TTGTTCATAGTTATACATTGTCGAAATTGATTTGCATATGGG
1 TTATATATTGCTGAAATT--AATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGA
* *
9504846 TATAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTACATGGTTATA
64 TATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATA
* * * *
9504911 CATTGTCGAAATTGATTTGCATATGGGTATAAGTTGCCGAATTGATTTGTATATGA
129 CATTGTTGAAA-TAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
* *
9504967 TTGTACATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAA-T-AATTTGTATATGGAT
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAA-TTGTATATGGAT
*
9505030 ATAAGTTGCCGAATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATAC
65 ATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATAC
9505095 ATTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
130 ATTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
9505149 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
* *
9505214 TTAGTTGCCGAATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATACA
66 TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACA
9505279 TTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
131 TTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
*
9505332 TTATATATTGCTGAAATTAATTTTTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
* * * * *
9505397 TAAGTTGTCGAATTGATTCGTATATGGTTATACATTGCT-AAATTTAATTTGTATATGATTATAC
66 TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAA-TTAATTTGTACATGGTTATAC
9505461 ATT
130 ATT
9505464 TTCGAACTTG
Statistics
Matches: 464, Mismatches: 27, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
182 90 0.19
183 335 0.72
184 35 0.08
185 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (183 bp):
TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACA
TTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGA
Found at i:9505335 original size:274 final size:275
Alignment explanation
Indices: 9504783--9505481 Score: 1088
Period size: 274 Copynumber: 2.6 Consensus size: 275
9504773 TTTGATTGTT
* * * * * * *
9504783 TTATATATTGCCG-AATTCGAA-TTGTTCATAGTTATACATTGTCGAAATTGATTTGCATATGGG
1 TTATATATTGCTGAAATT--AATTTGTACATGGTTATACATTGTTGAAATTAATTTGTATATGGA
* *
9504846 TATAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTACATGGTTATA
64 TATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATA
* * *
9504911 CATTGTCGAAATTGATTTGCATATGGGTATAAGTTGCCGAATTGATTTGTATATGATTGTACATT
129 CATTGTCGAAATTGAATTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTATACATT
9504976 GCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATAATTTGTATATGGATATAAGTTGCCG
194 GCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATAATTTGTATATGGATATAAGTTGCCG
9505041 AATTGATTTGTATATGA
259 AATTGATTTGTATATGA
9505058 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAA-TAATTTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTAATTTGTATATGGATA
*
9505122 TAAGTTGCCGAATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATACA
66 TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACA
* * * *
9505187 TTGTTGAAATTGAATTGTATATGGATATTAGTTGCCGAATTGATTTGTATATGATTATATATTGC
131 TTGTCGAAATTGAATTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTATACATTGC
9505252 TGAAATTAATTTGTACATGGTTATACATTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAA
196 TGAAATTAATTTGTACATGGTTATACATTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAA
9505317 TTGATTTGTATATGA
261 TTGATTTGTATATGA
*
9505332 TTATATATTGCTGAAATTAATTTTTACATGGTTATACATTGTTGAAATTGAA-TTGTATATGGAT
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATT-AATTTGTATATGGAT
* * * * *
9505396 ATAAGTTGTCGAATTGATTCGTATATGGTTATACATTGCT-AAATTTAATTTGTATATGATTATA
65 ATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAA-TTAATTTGTACATGGTTATA
* *
9505460 CATTTTCGAACTTG-ATT-CATAT
129 CATTGTCGAAATTGAATTGCATAT
9505482 ATGGTTATAC
Statistics
Matches: 391, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
273 4 0.01
274 268 0.69
275 113 0.29
276 6 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (275 bp):
TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTAATTTGTATATGGATA
TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACA
TTGTCGAAATTGAATTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTATACATTGC
TGAAATTAATTTGTACATGGTTATACATTGTTGAAATAATTTGTATATGGATATAAGTTGCCGAA
TTGATTTGTATATGA
Found at i:9505483 original size:92 final size:92
Alignment explanation
Indices: 9504783--9505490 Score: 1052
Period size: 92 Copynumber: 7.7 Consensus size: 92
9504773 TTTGATTGTT
* * * * * *
9504783 TTATATATTGCCG-AATTCGAA-TTGTTCATAGTTATACATTGTCGAAATTGATTTGCATATGGG
1 TTATATATTGCTGAAATT--AATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGA
9504846 TATAAGTTGCCGAATTGATTTGTATATGA
64 TATAAGTTGCCGAATTGATTTGTATATGA
* * * * * *
9504875 TTGTACATTGCTGAAATTAATTTTTACATGGTTATACATTGTCGAAATTGATTTGCATATGGGTA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
9504940 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
* * *
9504967 TTGTACATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAA-TAATTTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
9505031 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
*
9505058 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAA-TAATTTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
9505122 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
*
9505149 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
*
9505214 TTAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
*
9505241 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAA-TAATTTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
9505305 TAAGTTGCCGAATTGATTTGTATATGA
66 TAAGTTGCCGAATTGATTTGTATATGA
* *
9505332 TTATATATTGCTGAAATTAATTTTTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATA
1 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
* * *
9505397 TAAGTTGTCGAATTGATTCGTATATGG
66 TAAGTTGCCGAATTGATTTGTATATGA
* * * * ** *
9505424 TTATACATTGCT-AAATTTAATTTGTATATGATTATACATT-TTCGAACTTGATTCATATATGGT
1 TTATATATTGCTGAAA-TTAATTTGTACATGGTTATACATTGTT-GAAATTGATTTGTATATGGA
9505487 TATA
64 TATA
9505491 CATTGCTGAT
Statistics
Matches: 576, Mismatches: 34, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
91 271 0.47
92 301 0.52
93 4 0.01
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (92 bp):
TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGATTTGTATATGGATA
TAAGTTGCCGAATTGATTTGTATATGA
Found at i:9505551 original size:31 final size:31
Alignment explanation
Indices: 9504815--9505564 Score: 165
Period size: 31 Copynumber: 24.5 Consensus size: 31
9504805 TGTTCATAGT
* * * * **
9504815 TATACATTGTCGAAATTGATTTGCATATGGG
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9504846 TATA-AGTTGCCGAA-TTGATTTGTATATGAT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
* * * * ** * **
9504876 TGTACATTGCTGAAATTAATTTTTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
* * * * **
9504907 TATACATTGTCGAAATTGATTTGCATATGGG
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9504938 TATA-AGTTGCCGAA-TTGATTTGTATATGAT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
* * * * * * **
9504968 TGTACATTGCTGAAATTAATTTGTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * * * *
9504999 TATACATTGTTGAA-ATAATTTGTATATGGA
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9505029 TATA-AGTTGCCGAA-TTGATTTGTATATGAT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
* * * * * * **
9505059 TATATATTGCTGAAATTAATTTGTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * * * *
9505090 TATACATTGTTGAA-ATAATTTGTATATGGA
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9505120 TATA-AGTTGCCGAA-TTGATTTGTATATGAT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
* * * * * * **
9505150 TATATATTGCTGAAATTAATTTGTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * *
9505181 TATACATTGTTGAAATTGAATT-GTATATGGA
1 TATACATTGCCGAATTTG-ATTCGTATATGAA
* * *
9505212 TATTA-GTTGCCGAA-TTGATTTGTATATGAT
1 TA-TACATTGCCGAATTTGATTCGTATATGAA
* * * * * * **
9505242 TATATATTGCTGAAATTAATTTGTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * * * *
9505273 TATACATTGTTGAA-ATAATTTGTATATGGA
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9505303 TATA-AGTTGCCGAA-TTGATTTGTATATGAT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
* * * * ** * **
9505333 TATATATTGCTGAAATTAATTTTTACATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * *
9505364 TATACATTGTTGAAATTGAATT-GTATATGGA
1 TATACATTGCCGAATTTG-ATTCGTATATGAA
* **
9505395 TATA-AGTTGTCGAA-TTGATTCGTATATGGT
1 TATACA-TTGCCGAATTTGATTCGTATATGAA
** * * *
9505425 TATACATTGCTAAATTTAATTTGTATATGAT
1 TATACATTGCCGAATTTGATTCGTATATGAA
** * * **
9505456 TATACATTTTCGAACTTGATTCATATATGGT
1 TATACATTGCCGAATTTGATTCGTATATGAA
* ** *
9505487 TATACATTGCTG-ATTTTTTTTGTATAT-AGA
1 TATACATTGCCGAATTTGATTCGTATATGA-A
*
9505517 TATACATTGCCGAATTTGGTTCGTATATGAA
1 TATACATTGCCGAATTTGATTCGTATATGAA
* *
9505548 TATATATTGCTGAATTT
1 TATACATTGCCGAATTT
9505565 ATTTGAGCAT
Statistics
Matches: 564, Mismatches: 127, Indels: 56
0.76 0.17 0.07
Matches are distributed among these distances:
29 11 0.02
30 247 0.44
31 297 0.53
32 9 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTCGTATATGAA
Found at i:9508036 original size:2 final size:2
Alignment explanation
Indices: 9508029--9508062 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9508019 CCATACATGC
9508029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9508063 CTTTAGTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9518337 original size:16 final size:16
Alignment explanation
Indices: 9518316--9518349 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9518306 TGTATTCTTT
9518316 TTTTGGTTAATCTAAC
1 TTTTGGTTAATCTAAC
**
9518332 TTTTGGTTCCTCTAAC
1 TTTTGGTTAATCTAAC
9518348 TT
1 TT
9518350 GTCGGCTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTTGGTTAATCTAAC
Found at i:9523831 original size:5 final size:5
Alignment explanation
Indices: 9523821--9523846 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9523811 TGAGCATTCG
9523821 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
9523847 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:9524412 original size:30 final size:31
Alignment explanation
Indices: 9524373--9524432 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
9524363 GGTGGTGGGA
9524373 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
9524404 TGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
9524433 TAAAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:9529575 original size:12 final size:12
Alignment explanation
Indices: 9529558--9529583 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9529548 TATTCATGTA
9529558 AACACTTCATAT
1 AACACTTCATAT
9529570 AACACTTCATAT
1 AACACTTCATAT
9529582 AA
1 AA
9529584 TTATTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (12 bp):
AACACTTCATAT
Found at i:9530949 original size:21 final size:20
Alignment explanation
Indices: 9530920--9530959 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9530910 TAAGAAATGT
9530920 GGAAAAAGAAAGAAAAAAAAA
1 GGAAAAAG-AAGAAAAAAAAA
*
9530941 GGAAGAAGAAGAAGAAAAA
1 GGAAAAAGAAGAA-AAAAA
9530960 TAAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
GGAAAAAGAAGAAAAAAAAA
Found at i:9531600 original size:13 final size:13
Alignment explanation
Indices: 9531582--9531645 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
9531572 AGTTCTTCAT
9531582 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
9531595 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
9531608 TAC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
9531621 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
9531634 TACTCTTGAAAA
1 TGCTTTTGAAAA
9531646 TTTTGGTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:9531645 original size:26 final size:25
Alignment explanation
Indices: 9531586--9531645 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
9531576 CTTCATTGCT
9531586 TTTGAAAAGTGCTTTTGAAAAGTAC
1 TTTGAAAAGTGCTTTTGAAAAGTAC
* *
9531611 TGTGAAAAAGTGCTTTTGAGAAGTAC
1 TTTG-AAAAGTGCTTTTGAAAAGTAC
9531637 TCTTGAAAA
1 T-TTGAAAA
9531646 TTTTGGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 25 0.83
27 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (25 bp):
TTTGAAAAGTGCTTTTGAAAAGTAC
Found at i:9533550 original size:72 final size:73
Alignment explanation
Indices: 9533458--9533632 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 73
9533448 TCACATATAA
* * * *
9533458 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAAAAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
9533522 GACCAAAC
66 AACCAAAC
* * *
9533530 ATAAAAAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAAAAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
9533593 AAACCAAAC
65 AAACCAAAC
* *
9533602 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAAAAACTATTGATAAAACTAATTTAGCA
9533633 TTGTTGTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 83 0.95
73 3 0.03
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (73 bp):
ATAAAAAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:9534074 original size:18 final size:18
Alignment explanation
Indices: 9534053--9534118 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
9534043 TCCATCAGTT
9534053 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
9534071 TGAACATCATGTGAAATG
1 TGAACATCATTTGAAATG
*
9534089 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
9534107 TGAACATCATTT
1 TGAACATCATTT
9534119 CTCATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:9535534 original size:42 final size:43
Alignment explanation
Indices: 9535442--9535623 Score: 291
Period size: 43 Copynumber: 4.3 Consensus size: 43
9535432 ACGCCTCCTC
*
9535442 CTTTTACCTGATTGCTATCTTCTTCTTTTTCTTTTTTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCTT
9535485 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCTT
9535528 C-TTTACCTAATTGCTATCTTCTT-TTTTTCTTTTTTTCCCCCTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTC-TTTTTT-CCCCTT
*
9535571 CTTTTACCTAATTGCTATCTTCTTC-TTTT-TTTTTCCCCACTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCC-CTT
9535613 CTTTTACCTAA
1 CTTTTACCTAA
9535624 ATCAGATTTC
Statistics
Matches: 132, Mismatches: 2, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
41 9 0.07
42 47 0.36
43 50 0.38
44 26 0.20
ACGTcount: A:0.10, C:0.28, G:0.03, T:0.59
Consensus pattern (43 bp):
CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCTT
Found at i:9537399 original size:25 final size:25
Alignment explanation
Indices: 9537371--9537474 Score: 136
Period size: 25 Copynumber: 3.9 Consensus size: 25
9537361 AGAGGAACAA
9537371 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
9537396 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
9537421 AGCACCAGCACCAGCAGAAGAACAGAGAACC
1 AGCACCAG---CAG-AG--GAACAAAGAACC
*
9537452 AGCACCAGCAGAGGATCAAAGAA
1 AGCACCAGCAGAGGAACAAAGAA
9537475 GCAGTGATGA
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
25 41 0.59
27 2 0.03
28 6 0.09
29 2 0.03
31 19 0.27
ACGTcount: A:0.47, C:0.28, G:0.24, T:0.01
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:9537424 original size:19 final size:19
Alignment explanation
Indices: 9537361--9537399 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9537351 GTGGTGGAGA
*
9537361 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
9537380 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
9537399 A
1 A
9537400 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:9537431 original size:31 final size:31
Alignment explanation
Indices: 9537371--9537461 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
9537361 AGAGGAACAA
9537371 AGCACCAGCAGAGGAACAAAG----A--ACC
1 AGCACCAGCAGAGGAACAAAGAACCAGCACC
9537396 AGCACCAGCAGAGGAACAAAGAACCAGCACC
1 AGCACCAGCAGAGGAACAAAGAACCAGCACC
* *
9537427 AGCACCAGCAGAAGAACAGAGAACCAGCACC
1 AGCACCAGCAGAGGAACAAAGAACCAGCACC
9537458 AGCA
1 AGCA
9537462 GAGGATCAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
25 21 0.36
29 1 0.02
31 36 0.62
ACGTcount: A:0.46, C:0.31, G:0.23, T:0.00
Consensus pattern (31 bp):
AGCACCAGCAGAGGAACAAAGAACCAGCACC
Found at i:9552790 original size:45 final size:45
Alignment explanation
Indices: 9552713--9552851 Score: 170
Period size: 45 Copynumber: 3.1 Consensus size: 45
9552703 TACTACGTGT
* ** *
9552713 ACCGAGTACCATTGATTATAAAGGTGGTTGTTGTGTGTTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGACTGTTGTGTGCTGATTCC
* * *
9552758 TCCTGGTATCATTGATTATAAAGGTGACTGTTGTGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGACTGTTGTGTGCTGATTCC
* ** * *
9552803 ACCGGGTACCATTGATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGACTGTTGTGTGCTGATTCC
9552848 ACCG
1 ACCG
9552852 TGTATCTGTT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.36
Consensus pattern (45 bp):
ACCGGGTACCATTGATTATAAAGGTGACTGTTGTGTGCTGATTCC
Found at i:9554506 original size:48 final size:48
Alignment explanation
Indices: 9554444--9554539 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
9554434 GAATTGTGAG
9554444 CATGAAAAATTGTGAACTAAATGAAATGGAAATGAAGCATTGAATTGC
1 CATGAAAAATTGTGAACTAAATGAAATGGAAATGAAGCATTGAATTGC
9554492 CATGAAAAATTGTGAACTAAATGAAATGGAAATGAAGCATTGAATTGC
1 CATGAAAAATTGTGAACTAAATGAAATGGAAATGAAGCATTGAATTGC
9554540 ATGGGTATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (48 bp):
CATGAAAAATTGTGAACTAAATGAAATGGAAATGAAGCATTGAATTGC
Found at i:9554953 original size:7 final size:7
Alignment explanation
Indices: 9554941--9554982 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
9554931 TGGGCTTTTT
9554941 AACCCTA
1 AACCCTA
9554948 AACCCTA
1 AACCCTA
9554955 AACCCTAA
1 AACCCT-A
9554963 AACCCTA
1 AACCCTA
9554970 AACCCTA
1 AACCCTA
9554977 AACCCT
1 AACCCT
9554983 TTGTATTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:9554967 original size:15 final size:14
Alignment explanation
Indices: 9554941--9554982 Score: 75
Period size: 15 Copynumber: 2.9 Consensus size: 14
9554931 TGGGCTTTTT
9554941 AACCCTAAACCCTA
1 AACCCTAAACCCTA
9554955 AACCCTAAAACCCTA
1 AACCCT-AAACCCTA
9554970 AACCCTAAACCCT
1 AACCCTAAACCCT
9554983 TTGTATTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:9554969 original size:22 final size:22
Alignment explanation
Indices: 9554941--9554982 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9554931 TGGGCTTTTT
9554941 AACCCTAAACCCTAAACCCTAA
1 AACCCTAAACCCTAAACCCTAA
9554963 AACCCTAAACCCTAAACCCT
1 AACCCTAAACCCTAAACCCT
9554983 TTGTATTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCTAAACCCTAAACCCTAA
Found at i:9556204 original size:21 final size:22
Alignment explanation
Indices: 9556167--9556208 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9556157 TTTTGGTATC
9556167 ATTTTTAAGAAAGGTATTGATT
1 ATTTTTAAGAAAGGTATTGATT
9556189 ATTTTTCAA-AAA-GTATTGAT
1 ATTTTT-AAGAAAGGTATTGAT
9556209 ACCAAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 9 0.47
23 2 0.11
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTTTTAAGAAAGGTATTGATT
Found at i:9556453 original size:18 final size:18
Alignment explanation
Indices: 9556430--9556467 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9556420 GATTTTAAAA
9556430 TTGTTTCAAAGTTTTATC
1 TTGTTTCAAAGTTTTATC
9556448 TTGTTTCAAAGTTTTATC
1 TTGTTTCAAAGTTTTATC
9556466 TT
1 TT
9556468 TTAGACATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TTGTTTCAAAGTTTTATC
Found at i:9566804 original size:8 final size:8
Alignment explanation
Indices: 9566791--9566819 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9566781 TCATTCATTT
9566791 CATTCCTC
1 CATTCCTC
9566799 CATTCCTC
1 CATTCCTC
9566807 CATTCCTC
1 CATTCCTC
9566815 CATTC
1 CATTC
9566820 TACCATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.38
Consensus pattern (8 bp):
CATTCCTC
Found at i:9572625 original size:13 final size:13
Alignment explanation
Indices: 9572607--9572640 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
9572597 ATTATTAAAT
*
9572607 ATTTATAAACAAA
1 ATTTATAAAAAAA
9572620 ATTTATAAAAAAA
1 ATTTATAAAAAAA
9572633 ATTTATAA
1 ATTTATAA
9572641 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTTATAAAAAAA
Found at i:9573205 original size:23 final size:24
Alignment explanation
Indices: 9573179--9573226 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
9573169 TTGAACATCA
*
9573179 ATAACTTGAG-TTTTAAATATGTC
1 ATAACCTGAGATTTTAAATATGTC
9573202 ATAACCTGAGCATTTTAAATATGTC
1 ATAACCTGAG-ATTTTAAATATGTC
9573227 TTGAGTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
25 13 0.59
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (24 bp):
ATAACCTGAGATTTTAAATATGTC
Found at i:9574822 original size:19 final size:19
Alignment explanation
Indices: 9574800--9574837 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9574790 TCACTGTCAC
9574800 CCACCATAATCAAATTTGT
1 CCACCATAATCAAATTTGT
*
9574819 CCACCGTAATCAAATTTGT
1 CCACCATAATCAAATTTGT
9574838 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:9574994 original size:18 final size:18
Alignment explanation
Indices: 9574950--9574987 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9574940 ATGTATTTTG
*
9574950 AAAT-TAAAACATATATT
1 AAATGTAAAAAATATATT
*
9574967 AAATGTAAAAAATATCTT
1 AAATGTAAAAAATATATT
9574985 AAA
1 AAA
9574988 GATAAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATGTAAAAAATATATT
Found at i:9576132 original size:27 final size:27
Alignment explanation
Indices: 9576101--9576152 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9576091 AATAAACTAA
9576101 AATATAACAATATAATAACATTTAAAT
1 AATATAACAATATAATAACATTTAAAT
*** *
9576128 AATATCTTAATATATTAACATTTAA
1 AATATAACAATATAATAACATTTAA
9576153 CTGACAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (27 bp):
AATATAACAATATAATAACATTTAAAT
Found at i:9578363 original size:17 final size:17
Alignment explanation
Indices: 9578341--9578384 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
9578331 TAAACCAGTT
*
9578341 AAATTTAAACCCAGCCC
1 AAATTTAAACCCAACCC
9578358 AAATTTAAACCCAACCC
1 AAATTTAAACCCAACCC
*
9578375 AATTTTAAAC
1 AAATTTAAAC
9578385 TTGCTGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATTTAAACCCAACCC
Found at i:9578920 original size:17 final size:17
Alignment explanation
Indices: 9578898--9578930 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9578888 AAGAGGCTGA
9578898 CATAAAATTTTAATTGG
1 CATAAAATTTTAATTGG
9578915 CATAAAATTTTAATTG
1 CATAAAATTTTAATTG
9578931 TTATTTTGAT
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:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (17 bp):
CATAAAATTTTAATTGG
Found at i:9579341 original size:22 final size:22
Alignment explanation
Indices: 9579316--9579361 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
9579306 AATCATTATT
*
9579316 ATTAGGTTCTAAAGTCATGCAA
1 ATTAGGTTCTAAAGTCATACAA
9579338 ATTAGGTTCTAAAGTCATACAA
1 ATTAGGTTCTAAAGTCATACAA
9579360 AT
1 AT
9579362 AATTACTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
ATTAGGTTCTAAAGTCATACAA
Found at i:9579633 original size:22 final size:20
Alignment explanation
Indices: 9579590--9579631 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9579580 ATGATGCTGA
9579590 TTAATTTATTATATACTTTT
1 TTAATTTATTATATACTTTT
9579610 TTAATTTATTATATACTTTT
1 TTAATTTATTATATACTTTT
9579630 TT
1 TT
9579632 TTCTTGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTAATTTATTATATACTTTT
Found at i:9582047 original size:17 final size:17
Alignment explanation
Indices: 9582025--9582159 Score: 67
Period size: 17 Copynumber: 7.4 Consensus size: 17
9582015 AATTCTAGAC
9582025 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
*
9582042 TTATGT-A-GTTAATTCAAGA
1 TTATGTAATGTT--TT-TA-A
9582061 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* * **
9582079 TTATGTAGTGATTCAAGGA
1 TTATGTAATGTTTTTA--A
*
9582098 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
9582116 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
9582135 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
9582153 TTATGTA
1 TTATGTA
9582160 GTGATTTAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 26
0.66 0.15 0.20
Matches are distributed among these distances:
15 3 0.03
16 1 0.01
17 35 0.41
18 8 0.09
19 7 0.08
20 28 0.33
21 1 0.01
22 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:9582056 original size:37 final size:37
Alignment explanation
Indices: 9582004--9582161 Score: 221
Period size: 37 Copynumber: 4.3 Consensus size: 37
9581994 CTTACATGTC
*
9582004 AATTATGT-GTTAATTCTAGACTTATGTAATGTTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
9582040 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
* *
9582077 AATTATGTAG-TGATTCAAGGACTTATGTAATATTTTT
1 AATTATGTAGTTAATTCAA-GACTTATGTAATGTTTTT
* * * * *
9582114 AATTATGTAGTGATTTAAAGATTTATGTAATGCTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
9582151 AATTATGTAGT
1 AATTATGTAGT
9582162 GATTTAATTC
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
36 15 0.14
37 90 0.83
38 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (37 bp):
AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
Found at i:9582162 original size:37 final size:37
Alignment explanation
Indices: 9582021--9582168 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
9582011 TGTTAATTCT
* * *
9582021 AGACTTATGTAATGTTTTTAATTATGTAGTTAATTCA
1 AGACTTATGTAATGTTTTTAATTATGTAGTGATTTAA
*
9582058 AGACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
1 AGACTTATGTAATGTTTTTAATTATGTAGTGATTTAA
* *
9582095 GGACTTATGTAATATTTTTAATTATGTAGTGATTTAA
1 AGACTTATGTAATGTTTTTAATTATGTAGTGATTTAA
* *
9582132 AGATTTATGTAATGCTTTTAATTATGTAGTGATTTAA
1 AGACTTATGTAATGTTTTTAATTATGTAGTGATTTAA
9582169 TTCGGGTAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (37 bp):
AGACTTATGTAATGTTTTTAATTATGTAGTGATTTAA
Found at i:9582180 original size:9 final size:9
Alignment explanation
Indices: 9582166--9582233 Score: 118
Period size: 9 Copynumber: 7.6 Consensus size: 9
9582156 TGTAGTGATT
9582166 TAATTCGGG
1 TAATTCGGG
9582175 TAATTCGGG
1 TAATTCGGG
*
9582184 TAAATCGGG
1 TAATTCGGG
9582193 TAATTCGGG
1 TAATTCGGG
9582202 TAATTCGGG
1 TAATTCGGG
*
9582211 TAAATCGGG
1 TAATTCGGG
9582220 TAATTCGGG
1 TAATTCGGG
9582229 TAATT
1 TAATT
9582234 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.32
Consensus pattern (9 bp):
TAATTCGGG
Found at i:9582197 original size:27 final size:27
Alignment explanation
Indices: 9582166--9582233 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
9582156 TGTAGTGATT
9582166 TAATTCGGGTAATTCGGGTAAATCGGG
1 TAATTCGGGTAATTCGGGTAAATCGGG
9582193 TAATTCGGGTAATTCGGGTAAATCGGG
1 TAATTCGGGTAATTCGGGTAAATCGGG
9582220 TAATTCGGGTAATT
1 TAATTCGGGTAATT
9582234 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.32
Consensus pattern (27 bp):
TAATTCGGGTAATTCGGGTAAATCGGG
Found at i:9582357 original size:29 final size:29
Alignment explanation
Indices: 9582296--9582357 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
9582286 TTATTAACCG
* ** **
9582296 AAAAAAATTTCGGTTCGGTTAATTATTTT
1 AAAAAAATTTCGGTTCGATTAACGATTAA
*
9582325 AAAAAAATTTCGGTTCGATTAACGGTTAA
1 AAAAAAATTTCGGTTCGATTAACGATTAA
9582354 AAAA
1 AAAA
9582358 TTTGGGAGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (29 bp):
AAAAAAATTTCGGTTCGATTAACGATTAA
Found at i:9588450 original size:25 final size:26
Alignment explanation
Indices: 9588401--9588464 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
9588391 TTATAATTCA
* *
9588401 AAATATATAT-GAA-TAAATATTTAC
1 AAATATATATACAAGTAAATATATAC
9588425 AAATATATATACAAGTAAA-ATATAC
1 AAATATATATACAAGTAAATATATAC
*
9588450 AAATAAATATACAAG
1 AAATATATATACAAG
9588465 CATGTGTACG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.29
25 21 0.60
26 4 0.11
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (26 bp):
AAATATATATACAAGTAAATATATAC
Found at i:9588457 original size:12 final size:12
Alignment explanation
Indices: 9588412--9588463 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
9588402 AATATATATG
9588412 AATAAATATTTACA
1 AATAAATA--TACA
*
9588426 AATATATATACA
1 AATAAATATACA
*
9588438 AGTAAAATATACA
1 AAT-AAATATACA
9588451 AATAAATATACA
1 AATAAATATACA
9588463 A
1 A
9588464 GCATGTGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 16 0.48
13 10 0.30
14 7 0.21
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (12 bp):
AATAAATATACA
Found at i:9588920 original size:19 final size:20
Alignment explanation
Indices: 9588896--9588952 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
9588886 TATGGAAGTA
*
9588896 ATAATACTAATAATAATA-T
1 ATAATACTAATAATAATACC
*
9588915 ATAATAGATAATAGATAATACC
1 ATAATA-CTAATA-ATAATACC
9588937 ATAATAC-AATAATAAT
1 ATAATACTAATAATAAT
9588953 GCAGTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.34
20 9 0.28
21 6 0.19
22 6 0.19
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (20 bp):
ATAATACTAATAATAATACC
Found at i:9591106 original size:15 final size:16
Alignment explanation
Indices: 9591086--9591116 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9591076 GAGTATGGTA
9591086 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
9591101 AAATATTTAAAAAAAT
1 AAATATTTAAAAAAAT
9591117 TACTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:9592411 original size:6 final size:7
Alignment explanation
Indices: 9592393--9592418 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9592383 TTATAAATTT
9592393 TAAAAAA
1 TAAAAAA
9592400 TAAAAAA
1 TAAAAAA
9592407 TAAAAAA
1 TAAAAAA
9592414 TAAAA
1 TAAAA
9592419 TCAAAATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:9592683 original size:115 final size:116
Alignment explanation
Indices: 9592485--9592715 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 116
9592475 GTGCGGTGCG
9592485 GTGCGTTTAGCTTACTTTTTGTCTCATGCTACAGTATCGCTAGAGTATCTAATCTCGGGCAAATG
1 GTGCGTTTAGCTTACTTTTTGTCTCATGCTACAGTATCGCTAGAGTATCTAATCTCGGGCAAATG
9592550 ACCAAAAAAGCCCTTTTTTTTCAAAAATTACCGAAATGGGTCAATTATTTA
66 ACCAAAAAAGCCCTTTTTTTTCAAAAATTACCGAAATGGGTCAATTATTTA
9592601 GTGCGTTTAG-TTACTTTTTGTCTCATGCTACAGTATCGCTAGAGTATCTAATCTCGGGCAAATG
1 GTGCGTTTAGCTTACTTTTTGTCTCATGCTACAGTATCGCTAGAGTATCTAATCTCGGGCAAATG
9592665 ACCAAAAAAGCCCTTTTTTTTCAAAAATTACCGAAATGGGTCAATTATTTA
66 ACCAAAAAAGCCCTTTTTTTTCAAAAATTACCGAAATGGGTCAATTATTTA
9592716 ATTATTTACC
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 105 0.91
116 10 0.09
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (116 bp):
GTGCGTTTAGCTTACTTTTTGTCTCATGCTACAGTATCGCTAGAGTATCTAATCTCGGGCAAATG
ACCAAAAAAGCCCTTTTTTTTCAAAAATTACCGAAATGGGTCAATTATTTA
Found at i:9598974 original size:29 final size:30
Alignment explanation
Indices: 9598939--9599018 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
9598929 AGTGTTGGAA
* *
9598939 AGAAAATGAGAGGAGAAAAAT-ATGTTGGG
1 AGAAAATGAGAGAAGAAAAATGATGTTAGG
* *
9598968 GGAAAATGGGAGAAGAAAAATGATGTTAGG
1 AGAAAATGAGAGAAGAAAAATGATGTTAGG
*
9598998 AGAAATTGAGAGAAGAAAAAT
1 AGAAAATGAGAGAAGAAAAAT
9599019 TTTTTGATAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 18 0.42
30 25 0.58
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.16
Consensus pattern (30 bp):
AGAAAATGAGAGAAGAAAAATGATGTTAGG
Found at i:9603610 original size:272 final size:272
Alignment explanation
Indices: 9603119--9603662 Score: 1052
Period size: 272 Copynumber: 2.0 Consensus size: 272
9603109 GGTGCCTTTG
* *
9603119 AATGTCATATTGGTTAGGTTTAGAATGGGCAATCATATGGTATGTAATTGATGTTTAAAAATGAG
1 AATGGCATATTGGTTAGGTTTAGAATGGGCAATAATATGGTATGTAATTGATGTTTAAAAATGAG
9603184 TTTTTGAATATTTATTTGTAGGTAATGTTAAATGTTTAAATTGTTATCGTAATACCTTGTGACCC
66 TTTTTGAATATTTATTTGTAGGTAATGTTAAATGTTTAAATTGTTATCGTAATACCTTGTGACCC
9603249 CAATCTGGCGACAGAGATGGGTTAGGAGTGTTACACCATTGATAGTGTACACCATGGTGGAAATG
131 CAATCTGGCGACAGAGATGGGTTAGGAGTGTTACACCATTGATAGTGTACACCATGGTGGAAATG
*
9603314 CAAGAATTCAATTGAGTGATTTGACAATTCAGGTTTAGGCAAACTATTTCATTGCCACCCTAAGA
196 CAAGAATTCAATTGAGTGATTTGACAATTCAGGTTTAGGCAAACTATTCCATTGCCACCCTAAGA
9603379 CATCAGAGCACT
261 CATCAGAGCACT
9603391 AATGGCATATTGGTTAGGTTTAGAATGGGCAATAATATGGTATGTAATTGATGTTTAAAAATGAG
1 AATGGCATATTGGTTAGGTTTAGAATGGGCAATAATATGGTATGTAATTGATGTTTAAAAATGAG
9603456 TTTTTGAATATTTATTTGTAGGTAATGTTAAATGTTTAAATTGTTATCGTAATACCTTGTGACCC
66 TTTTTGAATATTTATTTGTAGGTAATGTTAAATGTTTAAATTGTTATCGTAATACCTTGTGACCC
9603521 CAATCTGGCGACAGAGATGGGTTAGGAGTGTTACACCATTGATAGTGTACACCATGGTGGAAATG
131 CAATCTGGCGACAGAGATGGGTTAGGAGTGTTACACCATTGATAGTGTACACCATGGTGGAAATG
*
9603586 CAAGAATTCGATTGAGTGATTTGACAATTCAGGTTTAGGCAAACTATTCCATTGCCACCCTAAGA
196 CAAGAATTCAATTGAGTGATTTGACAATTCAGGTTTAGGCAAACTATTCCATTGCCACCCTAAGA
9603651 CATCAGAGCACT
261 CATCAGAGCACT
9603663 GCACAAGGTT
Statistics
Matches: 268, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 268 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (272 bp):
AATGGCATATTGGTTAGGTTTAGAATGGGCAATAATATGGTATGTAATTGATGTTTAAAAATGAG
TTTTTGAATATTTATTTGTAGGTAATGTTAAATGTTTAAATTGTTATCGTAATACCTTGTGACCC
CAATCTGGCGACAGAGATGGGTTAGGAGTGTTACACCATTGATAGTGTACACCATGGTGGAAATG
CAAGAATTCAATTGAGTGATTTGACAATTCAGGTTTAGGCAAACTATTCCATTGCCACCCTAAGA
CATCAGAGCACT
Found at i:9605467 original size:67 final size:67
Alignment explanation
Indices: 9605387--9605514 Score: 202
Period size: 67 Copynumber: 1.9 Consensus size: 67
9605377 GTCCAAACTA
* ** *
9605387 GTGAGCTTACTGACTTGGGTTACACGGCCAAGCCACACGCCCATATTCTAGGCCGTGTGAAAAAA
1 GTGAGCATACTGACTTGGGACACACGGCCAAGCCACACGCCCATATGCTAGGCCGTGTGAAAAAA
9605452 TG
66 TG
* *
9605454 GTGAGCATACTGACTTGTGACACACGGCCAAGCCACACGCCCATGTGCTAGGCCGTGTGAA
1 GTGAGCATACTGACTTGGGACACACGGCCAAGCCACACGCCCATATGCTAGGCCGTGTGAA
9605515 GCTACTTACT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (67 bp):
GTGAGCATACTGACTTGGGACACACGGCCAAGCCACACGCCCATATGCTAGGCCGTGTGAAAAAA
TG
Found at i:9610294 original size:25 final size:25
Alignment explanation
Indices: 9610266--9610316 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9610256 GGAGAAACAA
9610266 TTTTGGCTAAAAGAAGTCATATTTC
1 TTTTGGCTAAAAGAAGTCATATTTC
9610291 TTTTGGCTAAAAGAAGTCATATTTC
1 TTTTGGCTAAAAGAAGTCATATTTC
9610316 T
1 T
9610317 GGGGCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (25 bp):
TTTTGGCTAAAAGAAGTCATATTTC
Found at i:9612714 original size:26 final size:26
Alignment explanation
Indices: 9612683--9612735 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
9612673 TTGAAAGATT
*
9612683 ATAAAAATTATTATGGTGTAAATAGG
1 ATAAAAATTATTATAGTGTAAATAGG
*
9612709 ATAAAAATTATTGTAGTGTAAATAGG
1 ATAAAAATTATTATAGTGTAAATAGG
9612735 A
1 A
9612736 ATTTAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (26 bp):
ATAAAAATTATTATAGTGTAAATAGG
Found at i:9616883 original size:5 final size:6
Alignment explanation
Indices: 9616868--9616892 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9616858 AAAACCTCAA
9616868 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
9616893 CATTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:9621167 original size:67 final size:67
Alignment explanation
Indices: 9621058--9621194 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
9621048 CCAAAGTTTT
9621058 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
1 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
9621123 GA
66 GA
*
9621125 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCGGTGTGGGAGTTGAGTAGCTATTGTGAT
1 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
9621190 GA
66 GA
9621192 AGA
1 AGA
9621195 TGCCGAAAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.23, C:0.10, G:0.34, T:0.34
Consensus pattern (67 bp):
AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
GA
Found at i:9630431 original size:14 final size:15
Alignment explanation
Indices: 9630405--9630437 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9630395 TCCCAAGCTG
*
9630405 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
9630420 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
9630434 GGAA
1 GGAA
9630438 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:9631142 original size:132 final size:132
Alignment explanation
Indices: 9630960--9631223 Score: 426
Period size: 132 Copynumber: 2.0 Consensus size: 132
9630950 TACTATTTTT
9630960 GATAATCTATTCCTTTCGAGCTATGCTCAGAACCAATTGTATTCTCATCCATTGTTAT-ACCCTT
1 GATAATCTATTCCTTTCGAGCTATGCTCAGAACCAATTGTATTCTCATCCATTGTTATGACCC-T
*
9631024 TTTGCAAGCATGTTGCATTAGAATAATGATTAATGGACTAATAAAACTTTCACGAA-GGAAGTTT
65 TTTGCAAGCATGTTGCACTAGAATAATGATTAATGGACTAATAAAACTTTCAC-AAGGGAAGTTT
9631088 TGCA
129 TGCA
* * *
9631092 GATAATTTATTCCTTTCGAGCTATGCTCAGAACTAACTT-TATTCTTATCCATTGTTATGACCCT
1 GATAATCTATTCCTTTCGAGCTATGCTCAGAACCAA-TTGTATTCTCATCCATTGTTATGACCCT
* *
9631156 TTTGCAAGCATGTTGCACTGGAATAATGATTAATGGACTAATAAAACTTTCACAAGGGAGGTTTT
65 TTTGCAAGCATGTTGCACTAGAATAATGATTAATGGACTAATAAAACTTTCACAAGGGAAGTTTT
9631221 GCA
130 GCA
9631224 TATTACTCTA
Statistics
Matches: 123, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
131 2 0.02
132 115 0.93
133 6 0.05
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (132 bp):
GATAATCTATTCCTTTCGAGCTATGCTCAGAACCAATTGTATTCTCATCCATTGTTATGACCCTT
TTGCAAGCATGTTGCACTAGAATAATGATTAATGGACTAATAAAACTTTCACAAGGGAAGTTTTG
CA
Found at i:9631652 original size:34 final size:34
Alignment explanation
Indices: 9631609--9631679 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
9631599 TATAGTGGGA
9631609 GAATGATAGTACAAATTTTGCGTCCCAATAGATT
1 GAATGATAGTACAAATTTTGCGTCCCAATAGATT
9631643 GAATGATAGTACAAATTTTGCGTCCCAATAGATT
1 GAATGATAGTACAAATTTTGCGTCCCAATAGATT
9631677 GAA
1 GAA
9631680 CTTTGATGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (34 bp):
GAATGATAGTACAAATTTTGCGTCCCAATAGATT
Found at i:9632119 original size:44 final size:44
Alignment explanation
Indices: 9632068--9633153 Score: 775
Period size: 44 Copynumber: 24.9 Consensus size: 44
9632058 AAGATACTAG
**
9632068 TCCTATCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
9632111 GTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAG
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * *
9632156 TCCTATCTCCTTGGTCAACATTGGAATAGGTTGAAGATTTTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
9632200 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAATATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
9632244 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
9632287 GTTCTATCTCCTTGGTTAGCAGTGGAATAGGTTGAAGATTGTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
9632332 TCCTATCTTCCTAGTCAGAAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
9632375 GTCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
9632420 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGT-ACG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-A
*
9632464 TCCTATCTCACTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* ** * *
9632508 TCCTATCTCCCTCGTCAATAGTGAAATAGGTTGAAAATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * * * *
9632552 TCCTAGCTCCCTGAG-CA-CTAGTGGAGTACGTTAAAAATTACTGAA
1 TCCTATCTCCCTG-GTCAGC-AGTGGAATAGGTTGAAGATT-GTGAA
* * * * * * * ** *
9632597 GT--TATTTCCCTAAG-CAGTAGTAGAGTAGATCGAA-AAGGCGAA
1 -TCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * * * ****
9632639 TCTTATATTCCCATGGT-AGTAG-GGAAGTAGATTTAAGCCACT--A
1 TCCTAT-CTCCC-TGGTCAGCAGTGGAA-TAGGTTGAAGATTGTGAA
* * * ** * *
9632682 GCCTTATCTTCATTTTCAGTAGTGGAATAGGTTGACGATTGT-AA
1 TCC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * *
9632726 GTCCTATCCCCCTAGTCAGCAGTGGAATAGGCTGAAAATTGTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
9632771 TCCTATATCCCTGAG-CAGCAGTGGAGTAGGTTGCAA-ATTAT-AGA
1 TCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTG-AAGATTGTGA-A
* * * * ** * * ** * *
9632815 TCTTATCTCCCTAAG-CAGTAGTAGAGCAGATCGAAGACGGCGAT
1 TCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * * * ****
9632859 TCTTATCTTCCCAAGGT-AGTAG-GGAAGTAGATTTAAGCCACT--A
1 TCCTATC-TCCC-TGGTCAGCAGTGGAA-TAGGTTGAAGATTGTGAA
* * * * * *
9632902 GCCTTATCTTCATGGTTAGTAGGGGAATAGGTTGAAGATTGT-AA
1 TCC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
9632946 GTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTAAAGATTGTGAG
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * *
9632991 TCTTATCTCTCTTGTCAACAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * **
9633034 GTACTATCTCCCTGGTAAGCAATGGAATAGG-TG-A-ATCAT--A
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
9633074 T-C--TCTCCCTGGTCA--AGTAGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
9633113 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGT
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
9633154 ACGTCCTATC
Statistics
Matches: 819, Mismatches: 170, Indels: 106
0.75 0.16 0.10
Matches are distributed among these distances:
34 9 0.01
35 2 0.00
36 12 0.01
37 3 0.00
38 1 0.00
39 3 0.00
40 2 0.00
41 4 0.00
42 20 0.02
43 51 0.06
44 670 0.82
45 41 0.05
46 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
Found at i:9632952 original size:220 final size:218
Alignment explanation
Indices: 9632486--9632989 Score: 692
Period size: 219 Copynumber: 2.3 Consensus size: 218
9632476 GGTCAGCAGT
* ** *
9632486 GGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTCGTCAATAGTGAAATAGGTTGAAAATTGTG
1 GGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTAGTCAGCAGTGGAATAGG-TGAAAATTGTG
* * *
9632550 AATCCTAGCTCCCTGAGCACTAGTGGAGTACGTTAAAAATTACTGAAGTTATTTCCCTAAGCAGT
64 AATCCTAGATCCCTGAGCACTAGTGGAGTACGTTAAAAATTACTGAACTTATCTCCCTAAGCAGT
* *
9632615 AGTAGAGTAGATCGAAAAGGCGAATCTTATATTCCCATGGTAGTAGGGAAGTAGATTTAAGCCAC
129 AGTAGAGCAGATCGAAAAGGCGAATCTTATATTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCAC
* *
9632680 TAGCCTTATCTTCATTTTCAGTAGT
194 TAGCCTTATCTTCATGTTCAGTAGG
* *
9632705 GGAATAGGTTGACGATTGTAAGTCCTATCCCCCTAGTCAGCAGTGGAATAGGCTGAAAATTGTGA
1 GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGG-TGAAAATTGTGA
* * ** *
9632770 ATCCTATATCCCTGAGCAGC-AGTGGAGTAGGTTGCAAATTA-TAGATCTTATCTCCCTAAGCAG
65 ATCCTAGATCCCTGAGCA-CTAGTGGAGTACGTTAAAAATTACT-GAACTTATCTCCCTAAGCAG
* * *
9632833 TAGTAGAGCAGATCGAAGACGGCGATTCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCC
128 TAGTAGAGCAGATCGAA-AAGGCGAATCTTATATTCCCAAGGTAGTAGGGAAGTAGATTTAAGCC
9632898 ACTAGCCTTATCTTCATGGTT-AGTAGG
192 ACTAGCCTTATCTTCAT-GTTCAGTAGG
* * *
9632925 GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTAAAGATTGTGA
1 GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAAA-ATTGTGA
9632990 GTCTTATCTC
Statistics
Matches: 252, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
218 3 0.01
219 126 0.50
220 121 0.48
221 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (218 bp):
GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAAAATTGTGAA
TCCTAGATCCCTGAGCACTAGTGGAGTACGTTAAAAATTACTGAACTTATCTCCCTAAGCAGTAG
TAGAGCAGATCGAAAAGGCGAATCTTATATTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTA
GCCTTATCTTCATGTTCAGTAGG
Found at i:9633242 original size:44 final size:44
Alignment explanation
Indices: 9633179--9633419 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 44
9633169 CTCAGCCTTG
* * *
9633179 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTGA
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTA
* * * * **
9633223 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAC-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAG-ATCTTA
* * * * *** *
9633267 TCTTCCC-AAGGTAGTAG-GGAAGCAGATT-TAAGCCACTAG-CCTTA
1 TC-TCCCTAA-GCAGTAGTGG-AGTAGGTTGAAAATTAC-AGATCTTA
* * * ** *
9633311 TCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTGTAGACCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTA
* * * * *
9633355 TCTCCTTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTA
*
9633399 TCTCCCTAAGCAATAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
9633420 CAGATCGATG
Statistics
Matches: 145, Mismatches: 42, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
43 18 0.12
44 109 0.75
45 17 0.12
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTA
Found at i:9633479 original size:176 final size:176
Alignment explanation
Indices: 9633174--9633516 Score: 571
Period size: 176 Copynumber: 1.9 Consensus size: 176
9633164 TCACACTCAG
* * * *
9633174 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTGATCTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTGATCTCCCTAAGCAATAG
9633239 TGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
66 TGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
* *
9633304 AGCCTTATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTGTAGA
131 AGCCTTATCTCCCTGAACAGTAGTGGAATAAGTTGAAGATTGTAGA
* *
9633350 CCTTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAATAG
1 CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTGATCTCCCTAAGCAATAG
* *
9633415 TGGAGCAGATCGATGAC-AGCGAATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCAC
66 TGGAGCAGATCGAAGACGA-CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
*
9633479 TAGCCTTATCTCCCTGAACAGTAGTGGAGTAAGTTGAA
130 TAGCCTTATCTCCCTGAACAGTAGTGGAATAAGTTGAA
9633517 AATTACAGAT
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 1 0.01
176 154 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (176 bp):
CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTGATCTCCCTAAGCAATAG
TGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
AGCCTTATCTCCCTGAACAGTAGTGGAATAAGTTGAAGATTGTAGA
Found at i:9633487 original size:88 final size:87
Alignment explanation
Indices: 9633222--9633507 Score: 244
Period size: 88 Copynumber: 3.3 Consensus size: 87
9633212 TACAGATCTG
*
9633222 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-CGAATCTTATCTTCCCAATGTAGTAGGGA
9633287 AGCAGATTTAAGCCACTAGCCTT
65 AGCAGATTTAAGCCACTAGCCTT
* ** * * * * * * *
9633310 ATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTG-TAGACCTTATC-T-CC-TTG-AGCAGCA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGCGA-ATCTTATCTTCCCAATGTAGTAG--
* * * * *** *
9633370 GTAGAGTAGGTTAAAAATTAC-AGATCTT
62 GGA-AGCAGATT-TAAGCCACTAG-CCTT
* *
9633398 ATCTCCCTAAGCAATAGTGGAGCAGATCGATGACAGCGAATCTTATCTTCCCAATGTAGTAGGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCTTCCCAATGTAGTAGGGA
9633463 AGCAGATTTAAGCCACTAGCCTT
65 AGCAGATTTAAGCCACTAGCCTT
9633486 ATCTCCCTGAA-CAGTAGTGGAG
1 ATCTCCCT-AAGCAGTAGTGGAG
9633508 TAAGTTGAAA
Statistics
Matches: 143, Mismatches: 40, Indels: 30
0.67 0.19 0.14
Matches are distributed among these distances:
84 4 0.03
85 1 0.01
86 4 0.03
87 10 0.07
88 101 0.71
89 13 0.09
90 4 0.03
91 2 0.01
92 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGCGAATCTTATCTTCCCAATGTAGTAGGGAA
GCAGATTTAAGCCACTAGCCTT
Found at i:9633593 original size:44 final size:44
Alignment explanation
Indices: 9633545--9633687 Score: 175
Period size: 44 Copynumber: 3.3 Consensus size: 44
9633535 CCCTAGGTGT
*
9633545 AGTGGAGAAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
*** * * *
9633589 AGTGGAGCAGATT-AAAATAATAGATCTTATCTCCCTG--GTTGT
1 AGTGGAGCAGATTGAAGCCAGTA-ATCCTATCTCCCTGAAGTTGC
* *
9633631 AGGGGAGTAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
9633675 AGTGGAGCAGATT
1 AGTGGAGCAGATT
9633688 AAAATAATAG
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
42 28 0.36
43 10 0.13
44 40 0.51
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
Found at i:9633649 original size:86 final size:86
Alignment explanation
Indices: 9633523--9633704 Score: 312
Period size: 86 Copynumber: 2.1 Consensus size: 86
9633513 TGAAAATTAC
* *
9633523 AGATTTTATTCTCCCTAGGTGTAGTGGAGAAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTG
1 AGATCTTA-TCTCCCTAGGTGTAGGGGAGAAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTG
9633588 CAGTGGAGCAGATTAAAATAAT
65 CAGTGGAGCAGATTAAAATAAT
*
9633610 AGATCTTATCTCCCT-GGTTGTAGGGGAGTAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTG
1 AGATCTTATCTCCCTAGG-TGTAGGGGAGAAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTG
9633674 CAGTGGAGCAGATTAAAATAAT
65 CAGTGGAGCAGATTAAAATAAT
9633696 AGATCTTAT
1 AGATCTTAT
9633705 TTATCTGACG
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
85 2 0.02
86 82 0.90
87 7 0.08
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (86 bp):
AGATCTTATCTCCCTAGGTGTAGGGGAGAAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAATAAT
Found at i:9633721 original size:44 final size:44
Alignment explanation
Indices: 9633572--9633704 Score: 164
Period size: 44 Copynumber: 3.1 Consensus size: 44
9633562 CCAGTAATCC
9633572 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
* * * *** * *
9633616 TATCTCCCTG--GTTGTAGGGGAGTAGATTGAAGCCAGTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATAATAGATCT
9633658 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
9633702 TAT
1 TAT
9633705 TTATCTGACG
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
42 28 0.41
43 10 0.14
44 31 0.45
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCT
Found at i:9633749 original size:86 final size:85
Alignment explanation
Indices: 9633553--9633772 Score: 266
Period size: 86 Copynumber: 2.6 Consensus size: 85
9633543 GTAGTGGAGA
*
9633553 AGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCTTA
1 AGATCGAAGCCAG-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCTTA
* * * *
9633618 TCTCCCTGGTTGTAGGGGAGT
65 TCTACCTGGTTGCAGAGGAAT
*
9633639 AGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCTTA
1 AGATCGAAGCCAG-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCTTA
* *
9633704 TTTATCTGACGTTGCAGTAGGAAT
65 TCTACCTG--GTTGCAG-AGGAAT
* * *
9633728 AGATCGCA-TCAG-A-CCTCATCTCCCTGAAGTTGCAGCGGAGCAGAT
1 AGATCGAAGCCAGAATCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGAT
9633773 CGAAGAAGCA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
85 3 0.03
86 98 0.82
88 9 0.08
89 10 0.08
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (85 bp):
AGATCGAAGCCAGAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGATCTTAT
CTACCTGGTTGCAGAGGAAT
Found at i:9634090 original size:10 final size:10
Alignment explanation
Indices: 9634077--9634104 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9634067 AAATAAATAA
9634077 AAATAAAACC
1 AAATAAAACC
9634087 AAATAAAACC
1 AAATAAAACC
9634097 AAATAAAA
1 AAATAAAA
9634105 AATAATAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.14, G:0.00, T:0.11
Consensus pattern (10 bp):
AAATAAAACC
Found at i:9634833 original size:7 final size:7
Alignment explanation
Indices: 9634811--9634844 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
9634801 AATAGGTATA
9634811 TTTATATT
1 TTTAT-TT
*
9634819 TATATTT
1 TTTATTT
9634826 TTTATTT
1 TTTATTT
9634833 TTTATTT
1 TTTATTT
9634840 TTTAT
1 TTTAT
9634845 AATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTATTT
Found at i:9640667 original size:43 final size:43
Alignment explanation
Indices: 9640524--9640874 Score: 456
Period size: 43 Copynumber: 8.2 Consensus size: 43
9640514 CGAAAAAAAT
* * * *
9640524 GCCGCTAAAGGTCAGGGTCTTTAGC-G-GCATTTTCCTACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCC-ACAAAC
* * * *
9640566 GCCGCTAAAGGTCATGTTTTTTAGCGGCACTTTTTCAACAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCAC-AAAC
*
9640610 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCTACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* *
9640653 GCCACTAAAGATCATGTTCTTTAGTGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
*
9640696 GCCGCTAAAGATCATGTTCCTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
*
9640739 GCCGCTAAAGATCATGTTCTTTAGCGGTGCTTTTTCCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * * **
9640782 GCCGTTAAAGATAATGTTCTTTAGCGGCGCTTCTTCTGCAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * * *
9640825 GCCACTACAGGTCATGTTCTTTTAGCGGCG-TTTTTACACAAAC
1 GCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTTCCACAAAC
9640868 GCCGCTA
1 GCCGCTA
9640875 TTTGTTTGGT
Statistics
Matches: 271, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
42 22 0.08
43 194 0.72
44 55 0.20
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (43 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:9646575 original size:53 final size:53
Alignment explanation
Indices: 9646518--9646697 Score: 128
Period size: 53 Copynumber: 3.1 Consensus size: 53
9646508 AAGATATAAT
9646518 ATATATCACGGTAACTTATAAGAATATTTAAGTTATGTGAGTTATGCCATATC
1 ATATATCACGGTAACTTATAAGAATATTTAAGTTATGTGAGTTATGCCATATC
* * * * * **
9646571 ATATATTTA-TGTAAGTTATGTAAGTTATGTATTAAGTATGTAAGTTATTATGTAAGTTAAGATA
1 ATATA-TCACGGTAACTTA--TAAG--A---A-T-A-T-T-TAAG---TTATGTGAGTTATGCCA
**
9646635 TAAT
50 TATC
9646639 ATATATCACGGTAACTTATAAGAATATTTAAGTTATGTGAGTTATGCCATATC
1 ATATATCACGGTAACTTATAAGAATATTTAAGTTATGTGAGTTATGCCATATC
9646692 ATATAT
1 ATATAT
9646698 TTATGTAAGT
Statistics
Matches: 92, Mismatches: 18, Indels: 34
0.64 0.12 0.24
Matches are distributed among these distances:
53 33 0.36
54 2 0.02
55 4 0.04
56 4 0.04
57 2 0.02
58 1 0.01
59 1 0.01
60 2 0.02
61 2 0.02
62 1 0.01
63 1 0.01
64 2 0.02
65 4 0.04
66 4 0.04
67 2 0.02
68 27 0.29
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (53 bp):
ATATATCACGGTAACTTATAAGAATATTTAAGTTATGTGAGTTATGCCATATC
Found at i:9646591 original size:9 final size:9
Alignment explanation
Indices: 9646577--9646601 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9646567 TATCATATAT
9646577 TTATGTAAG
1 TTATGTAAG
9646586 TTATGTAAG
1 TTATGTAAG
9646595 TTATGTA
1 TTATGTA
9646602 TTAAGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9646612 original size:20 final size:20
Alignment explanation
Indices: 9646577--9646627 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
9646567 TATCATATAT
9646577 TTATGTAAGTTATGTAAGTTA
1 TTATGTAAG-TATGTAAGTTA
9646598 TGTAT-TAAGTATGTAAGTTA
1 T-TATGTAAGTATGTAAGTTA
9646618 TTATGTAAGT
1 TTATGTAAGT
9646628 TAAGATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 5 0.18
22 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (20 bp):
TTATGTAAGTATGTAAGTTA
Found at i:9646699 original size:121 final size:121
Alignment explanation
Indices: 9646473--9646729 Score: 505
Period size: 121 Copynumber: 2.1 Consensus size: 121
9646463 TAGGAATAAA
9646473 TTATGTATTAAGGTATGTAAGTTATTATGTAAGTTAAGATATAATATATATCACGGTAACTTATA
1 TTATGTATTAA-GTATGTAAGTTATTATGTAAGTTAAGATATAATATATATCACGGTAACTTATA
9646538 AGAATATTTAAGTTATGTGAGTTATGCCATATCATATATTTATGTAAGTTATGTAAG
65 AGAATATTTAAGTTATGTGAGTTATGCCATATCATATATTTATGTAAGTTATGTAAG
9646595 TTATGTATTAAGTATGTAAGTTATTATGTAAGTTAAGATATAATATATATCACGGTAACTTATAA
1 TTATGTATTAAGTATGTAAGTTATTATGTAAGTTAAGATATAATATATATCACGGTAACTTATAA
9646660 GAATATTTAAGTTATGTGAGTTATGCCATATCATATATTTATGTAAGTTATGTAAG
66 GAATATTTAAGTTATGTGAGTTATGCCATATCATATATTTATGTAAGTTATGTAAG
9646716 TTATGTATTAAGTA
1 TTATGTATTAAGTA
9646730 AATTATGTAA
Statistics
Matches: 135, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 124 0.92
122 11 0.08
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (121 bp):
TTATGTATTAAGTATGTAAGTTATTATGTAAGTTAAGATATAATATATATCACGGTAACTTATAA
GAATATTTAAGTTATGTGAGTTATGCCATATCATATATTTATGTAAGTTATGTAAG
Found at i:9646712 original size:9 final size:9
Alignment explanation
Indices: 9646698--9647019 Score: 230
Period size: 9 Copynumber: 38.2 Consensus size: 9
9646688 TATCATATAT
9646698 TTATGTAAG
1 TTATGTAAG
9646707 TTATGTAAG
1 TTATGTAAG
9646716 TTATGT-A-
1 TTATGTAAG
* *
9646723 TTAAGTAAA
1 TTATGTAAG
9646732 TTATGTAAG
1 TTATGTAAG
9646741 TTATGT-A-
1 TTATGTAAG
* *
9646748 TTAAGTAAA
1 TTATGTAAG
9646757 TTATGTAAG
1 TTATGTAAG
9646766 TTATGT-A-
1 TTATGTAAG
9646773 TTATGTAAG
1 TTATGTAAG
9646782 TTATGTAAG
1 TTATGTAAG
*
9646791 TTGTGT-A-
1 TTATGTAAG
*
9646798 TTGTGTAAG
1 TTATGTAAG
9646807 TTATGT-A-
1 TTATGTAAG
* *
9646814 TTAAGTAGG
1 TTATGTAAG
9646823 TTATGTAAG
1 TTATGTAAG
9646832 TTATGT-A-
1 TTATGTAAG
9646839 TTATGTAAG
1 TTATGTAAG
9646848 TTATGTAAG
1 TTATGTAAG
*
9646857 TTGTGT-A-
1 TTATGTAAG
9646864 TTATGTAAG
1 TTATGTAAG
9646873 TTATGT-A-
1 TTATGTAAG
* *
9646880 TTAAGTAGG
1 TTATGTAAG
9646889 TTATGTAAG
1 TTATGTAAG
9646898 TTATGT-A-
1 TTATGTAAG
9646905 TTATGTAAG
1 TTATGTAAG
9646914 TTATGTAAG
1 TTATGTAAG
*
9646923 TT-T-T-TG
1 TTATGTAAG
* *
9646929 TTTTCGTGTA-
1 TTAT-GT-AAG
*
9646939 TTATGTAAC
1 TTATGTAAG
* *
9646948 TTATTTAAT
1 TTATGTAAG
*
9646957 TTATGTAGG
1 TTATGTAAG
9646966 TTATGTATTA-
1 TTATGTA--AG
9646976 TTATGTAAG
1 TTATGTAAG
*
9646985 TTAT-TATG
1 TTATGTAAG
*
9646993 -TA-GGATA-
1 TTATGTA-AG
9647000 TTATGTAAG
1 TTATGTAAG
9647009 TTATGTAAG
1 TTATGTAAG
9647018 TT
1 TT
9647020 TTTGTTTTTT
Statistics
Matches: 249, Mismatches: 32, Indels: 64
0.72 0.09 0.19
Matches are distributed among these distances:
6 3 0.01
7 54 0.22
8 25 0.10
9 157 0.63
10 10 0.04
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9646776 original size:41 final size:41
Alignment explanation
Indices: 9646731--9646920 Score: 213
Period size: 41 Copynumber: 4.4 Consensus size: 41
9646721 TATTAAGTAA
*
9646731 ATTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGT
1 ATTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
* *
9646772 ATTATGTAAGTTATGTAAGTTGTGTATTGTGTAAGTTATGT-A-TTAAGT
1 ATTATGTAAGTTATGT-A----T-TA---AGTAAGTTATGTAAGTTATGT
* *
9646820 AGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
1 A--TTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
*
9646863 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
9646904 ATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
9646921 AGTTTTTGTT
Statistics
Matches: 128, Mismatches: 8, Indels: 26
0.79 0.05 0.16
Matches are distributed among these distances:
41 82 0.64
42 2 0.02
43 5 0.04
44 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 6 0.05
49 2 0.02
50 25 0.20
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.47
Consensus pattern (41 bp):
ATTATGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGT
Found at i:9646785 original size:66 final size:66
Alignment explanation
Indices: 9646731--9646924 Score: 361
Period size: 66 Copynumber: 2.9 Consensus size: 66
9646721 TATTAAGTAA
**
9646731 ATTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
1 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
9646796 T
66 T
*
9646797 ATTGTGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
1 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
9646862 T
66 T
9646863 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTT
1 ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTT
9646925 TTTGTTTTCG
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 124 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (66 bp):
ATTATGTAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
T
Found at i:9646891 original size:16 final size:16
Alignment explanation
Indices: 9646698--9646920 Score: 166
Period size: 16 Copynumber: 14.0 Consensus size: 16
9646688 TATCATATAT
9646698 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
9646715 GTTATGT-A-TTAAGTAAA
1 -TTATGTAAGTTATGT--A
9646732 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
9646748 TTAAGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
9646765 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
9646781 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
9646798 TTGTGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
9646814 TTAAGTAGGTTATGTAA
1 TTATGTAAGTTATGT-A
9646831 GTTATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
9646847 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
9646864 TTATGTAAGTTATG--
1 TTATGTAAGTTATGTA
*
9646878 -TAT-TAAG-TA-G-G
1 TTATGTAAGTTATGTA
9646889 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
9646905 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
9646921 AGTTTTTGTT
Statistics
Matches: 172, Mismatches: 16, Indels: 36
0.77 0.07 0.16
Matches are distributed among these distances:
10 1 0.01
11 2 0.01
12 7 0.04
13 7 0.04
14 2 0.01
15 1 0.01
16 110 0.64
17 11 0.06
18 31 0.18
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:9646924 original size:25 final size:26
Alignment explanation
Indices: 9646699--9646920 Score: 220
Period size: 25 Copynumber: 8.9 Consensus size: 26
9646689 ATCATATATT
9646699 TATGTAAGTTATGTAAGTTATGTA-T
1 TATGTAAGTTATGTAAGTTATGTAGT
* *
9646724 TAAGTAAATTATGTAAGTTATGTA-T
1 TATGTAAGTTATGTAAGTTATGTAGT
* *
9646749 TAAGTAAATTATGTAAGTTATGTA-T
1 TATGTAAGTTATGTAAGTTATGTAGT
*
9646774 TATGTAAGTTATGTAAGTTGTGTA-T
1 TATGTAAGTTATGTAAGTTATGTAGT
* *
9646799 TGTGTAAGTTATGT-A-TTAAGTAGGT
1 TATGTAAGTTATGTAAGTTATGTA-GT
9646824 TATGTAAGTTATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-AGT
*
9646849 TATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-AGT
* *
9646874 TATGT-A-TTAAGTAGGTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-AGT
9646899 TATGT-A-TTATGTAAGTTATGTA
1 TATGTAAGTTATGTAAGTTATGTA
9646921 AGTTTTTGTT
Statistics
Matches: 176, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
23 9 0.05
24 3 0.02
25 163 0.93
26 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (26 bp):
TATGTAAGTTATGTAAGTTATGTAGT
Found at i:9646963 original size:25 final size:24
Alignment explanation
Indices: 9646707--9647016 Score: 136
Period size: 25 Copynumber: 12.7 Consensus size: 24
9646697 TTTATGTAAG
*
9646707 TTATGTAAGTTATGT-ATTAAGTAAA
1 TTATGTAAGTTATGTAATTATGT--A
*
9646732 TTATGTAAGTTATGT-ATTAAGTAAA
1 TTATGTAAGTTATGTAATTATGT--A
9646757 TTATGTAAGTTATGT-ATTATGTAA
1 TTATGTAAGTTATGTAATTATGT-A
* *
9646781 GTTATGTAAGTTGTGT-ATTGTGTAA
1 -TTATGTAAGTTATGTAATTATGT-A
* *
9646806 GTTATGT-A-TTAAGTAGGTTATGTAA
1 -TTATGTAAGTTATGTA-ATTATGT-A
9646831 GTTATGT-A-TTATGTAAGTTATGTAA
1 -TTATGTAAGTTATGTAA-TTATGT-A
*
9646856 GTTGTGT-A-TTATGTAAGTTATGTA
1 -TTATGTAAGTTATGTAA-TTATGTA
* *
9646880 TTAAGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAA-TTATGTA
* *
9646905 TTATGTAAGTTATGTAAGTTTTTGTT
1 TTATGTAAGTTATGTAA--TTATGTA
* *
9646931 TTCGTGT-A-TTATGTAACTTATTTAA
1 TT-ATGTAAGTTATGTAA-TTATGT-A
*
9646956 TTTATGTAGGTTATG----TAT-TA
1 -TTATGTAAGTTATGTAATTATGTA
*
9646976 TTATGTAAGTTAT-T-ATGTAGGATA
1 TTATGTAAGTTATGTAAT-TATG-TA
9647000 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
9647017 GTTTTTGTTT
Statistics
Matches: 238, Mismatches: 27, Indels: 39
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.05
20 1 0.00
21 1 0.00
22 5 0.02
23 8 0.03
24 23 0.10
25 169 0.71
26 11 0.05
27 8 0.03
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (24 bp):
TTATGTAAGTTATGTAATTATGTA
Found at i:9646990 original size:12 final size:12
Alignment explanation
Indices: 9646973--9647012 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
9646963 AGGTTATGTA
9646973 TTATTATGTAAG
1 TTATTATGTAAG
*
9646985 TTATTATGTAGG
1 TTATTATGTAAG
*
9646997 ATATTATGTAAG
1 TTATTATGTAAG
9647009 TTAT
1 TTAT
9647013 GTAAGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:9650109 original size:44 final size:44
Alignment explanation
Indices: 9649972--9650558 Score: 310
Period size: 44 Copynumber: 13.5 Consensus size: 44
9649962 TCGATCTGTC
* * * * *
9649972 CCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCAATCCGCT
* * * * * * * *
9650016 CCGCTGCAACCTCAGGGAGATAA-AAC-CTGA-TGCGATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
* * * *
9650057 CTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
* * * *
9650101 CCACTACAACTTCAGGGAGATAGGAT-TATTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTATT-ACTTCAATCCGCT
* * *** * *
9650145 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTG-T
1 CCACTGCAACTTCAGGGAGATAAGATCTATTA-CTTCAATCCGCT
* * * * ***
9650189 CCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTTTACT
1 -CCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCAATCCGCT
* * * * * *
9650234 CCGCTGCAACCTCAGGGAGATAAGACCTA--A-TGCGATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
* * * *
9650275 CTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
* * ** *
9650319 CCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCAATCCGCT
* ** *
9650363 CCACTGCAACCTCAGGGAGATAAGAT-T-TTCCATCTTTGATCTG-T
1 CCACTGCAACTTCAGGGAGATAAGATCTATT--A-CTTCAATCCGCT
* * * * *
9650407 CCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCT
1 -CCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCAATCCGCT
* * * * * *
9650452 CCGCTGCAACCTCAGGGAGATAAGA-C--TTAATGCGATCCACT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
* * * * *
9650493 CTAATGCAACTTTAGAGAGATAAGATCTATTACTTTAATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
*
9650537 CCACTACAACTTCAGGGAGATA
1 CCACTGCAACTTCAGGGAGATA
9650559 GGATTTGTGG
Statistics
Matches: 403, Mismatches: 113, Indels: 54
0.71 0.20 0.09
Matches are distributed among these distances:
40 3 0.01
41 79 0.20
42 3 0.01
43 14 0.03
44 230 0.57
45 69 0.17
46 3 0.01
48 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCT
Found at i:9650226 original size:218 final size:218
Alignment explanation
Indices: 9649876--9650563 Score: 1214
Period size: 218 Copynumber: 3.2 Consensus size: 218
9649866 TGGTGCTTCG
* * * * **
9649876 ATCCACTCCACTATAACTTCAGGGGGATAGGATTATCGGCTTTAATCTGCTTTACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
9649941 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* * *
9650006 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAAACCTGATGCGATCCACTCTACTACAACTTCA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCA
9650071 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
*
9650094 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
9650159 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* * *
9650224 TCAGTTTACTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGTAACTTCA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCA
9650289 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
9650312 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* *
9650377 GGGAGATAAGATTTTCCATCTTTGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* * *
9650442 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACTTAATGCGATCCACTCTAATGCAACTTTA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCA
9650507 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
9650530 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATT
9650564 TGTGGCTTAA
Statistics
Matches: 448, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 448 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (218 bp):
ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCA
GAGAGATAAGATCTATTACTTTA
Found at i:9650423 original size:45 final size:44
Alignment explanation
Indices: 9649881--9650563 Score: 246
Period size: 44 Copynumber: 15.7 Consensus size: 44
9649871 CTTCGATCCA
** * * * *
9649881 CTCCACTATAACTTCAGGGGGATAGGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCAATCTG
** * * *
9649925 CTTTACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCAATCTG
* ** * *
9649970 -TCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCAGTCTG
1 CT-CCACTGCAACTTCAGGGAGATAAGA--TTATCAGCTTCAATCTG
* * * * * * * **
9650014 CTCCGCTGCAACCTCAGGGAGATAA-A--ACCTGATGCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCAATCTG
* * * * * *
9650055 CTCTACTACAACTTCAGAGAGATAAGATCTATTA-CTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCAATCTG
* * **
9650099 CTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCAATCTG
* * *
9650143 CTCCACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCAATCTG
* ** * * * *
9650188 -TCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCAGTTTA
1 CT-CCACTGCAACTTCAGGGAGATAAGA--TTATCAGCTTCAATCTG
* * * * * **
9650232 CTCCGCTGCAACCTCAGGGAGATAAGACCTA--A--TGCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCAGCTTCAATCTG
* * * * * *
9650273 CTCTACTGTAACTTCAGAGAGATAAGATCTATTA-CTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCAATCTG
* * *
9650317 CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCAATCTG
* * * **
9650361 CTCCACTGCAACCTCAGGGAGATAAGATTTTCCATCTTTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-CAGCTTCAATCTG
* ** * *
9650406 -TCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCAGTCTG
1 CT-CCACTGCAACTTCAGGGAGATAAGA--TTATCAGCTTCAATCTG
* * * * **
9650450 CTCCGCTGCAACCTCAGGGAGATAAGACTTA--A--TGCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCAGCTTCAATCTG
* * * * * * *
9650491 CTCTAATGCAACTTTAGAGAGATAAGATCTATTA-CTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCAATCTG
* *
9650535 CTCCACTACAACTTCAGGGAGATAGGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
9650564 TGTGGCTTAA
Statistics
Matches: 464, Mismatches: 138, Indels: 75
0.69 0.20 0.11
Matches are distributed among these distances:
40 1 0.00
41 78 0.17
42 1 0.00
43 16 0.03
44 258 0.56
45 101 0.22
46 3 0.01
47 4 0.01
48 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCAATCTG
Found at i:9651249 original size:130 final size:129
Alignment explanation
Indices: 9650549--9651434 Score: 1407
Period size: 129 Copynumber: 6.9 Consensus size: 129
9650539 ACTACAACTT
* * * * *
9650549 CAGGGAGATAGGATTTGTGGCTTAAATCTACTTCCTTACACTTGAAGTTAAGATTCGCCATCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
9650614 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCTACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
*
9650678 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
9650743 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* *
9650807 CGGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
9650872 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * * ** *
9650936 CAGGGATATAGGAATTGTGGCTTAAATCTGCTTCCTTACTCCTGAAGATAAGATTCATCGTCTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
9651001 GATCTGCTCCGCTACTGCTTAAGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGTTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
9651065 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCCTGAAGATAAGATTCGCCGCCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * *
9651130 GATCTGCTTCGCTCCTGCTTAGGGAGACAAGATCTGCT-ATATTCCCAGCCTATTCCACTACTGA
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTG-TAAT-TTCCCAACCTATTCCACTGCTGA
9651194 C
129 C
* *
9651195 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCCTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
9651260 GATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGCT-ATATTCCCAGCCTATTCCACTACTGA
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTG-TAAT-TTCCCAACCTATTCCACTGCTGA
9651324 C
129 C
* *
9651325 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
9651390 GATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCC
9651435 TGATCTGTTC
Statistics
Matches: 715, Mismatches: 39, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
129 467 0.65
130 248 0.35
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (129 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
Found at i:9652651 original size:7 final size:7
Alignment explanation
Indices: 9652641--9652674 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
9652631 TATTTTTTAC
9652641 TTTTTCA
1 TTTTTCA
9652648 TTTTTCA
1 TTTTTCA
9652655 TTTTTCA
1 TTTTTCA
9652662 TTTTTCA
1 TTTTTCA
*
9652669 TATTTC
1 TTTTTC
9652675 TCCGACTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:9652665 original size:21 final size:22
Alignment explanation
Indices: 9652632--9652674 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9652622 TAGCCTCTCT
* *
9652632 ATTTTTTACTTTTTCATTTTTC
1 ATTTTTCACTTTTTCATATTTC
9652654 ATTTTTCA-TTTTTCATATTTC
1 ATTTTTCACTTTTTCATATTTC
9652675 TCCGACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTTCACTTTTTCATATTTC
Found at i:9654380 original size:35 final size:29
Alignment explanation
Indices: 9654308--9654365 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9654298 GTATAAATTC
9654308 ATGAATAATTATTTGTACCATACGATTAT
1 ATGAATAATTATTTGTACCATACGATTAT
9654337 ATGAATAATTATTTGTACCATACGATTAT
1 ATGAATAATTATTTGTACCATACGATTAT
9654366 GAATGAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
ATGAATAATTATTTGTACCATACGATTAT
Found at i:9654386 original size:35 final size:32
Alignment explanation
Indices: 9654308--9654386 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 32
9654298 GTATAAATTC
9654308 ATGAATAATTATTTGTACCATACGATTATATGA
1 ATGAATAA-TATTTGTACCATACGATTATATGA
9654341 AT-AAT--TATTTGTACCATACGATTATGAATGA
1 ATGAATAATATTTGTACCATACGATTAT--ATGA
9654372 ATGAATAATAATTTG
1 ATGAATAAT-ATTTG
9654387 GAAGAAAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
29 20 0.50
31 6 0.15
32 6 0.15
33 2 0.05
34 1 0.03
35 5 0.12
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (32 bp):
ATGAATAATATTTGTACCATACGATTATATGA
Found at i:9658696 original size:23 final size:22
Alignment explanation
Indices: 9658639--9658698 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
9658629 AAAACATGTC
9658639 AATAATAATTTAAAATAATAGT
1 AATAATAATTTAAAATAATAGT
* * *
9658661 -ATATTACATTTTAAAATTATATT
1 AATAATA-A-TTTAAAATAATAGT
9658684 AATAATAAGTTTAAA
1 AATAATAA-TTTAAA
9658699 GGTAATGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 19 0.63
24 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (22 bp):
AATAATAATTTAAAATAATAGT
Done.