Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 90 of 144
Found at i:27263960 original size:26 final size:26
Alignment explanation
Indices: 27263927--27263976 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27263917 AAACCTTCTA
*
27263927 TTTTCCCCCAAAATTTTTACTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCAC
* *
27263953 TTTTCCCCTAAAACTTTTATTCCC
1 TTTTCCCCCAAAACTTTTACTCCC
27263977 TTCTCATCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTTCCCCCAAAACTTTTACTCCCAC
Found at i:27266643 original size:12 final size:12
Alignment explanation
Indices: 27266626--27266651 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27266616 TAGGGCAAAG
27266626 TTATATCAAAAT
1 TTATATCAAAAT
27266638 TTATATCAAAAT
1 TTATATCAAAAT
27266650 TT
1 TT
27266652 GTTAGTCAAA
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:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTATATCAAAAT
Found at i:27267826 original size:40 final size:40
Alignment explanation
Indices: 27267782--27267903 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
27267772 TGAATATGCC
* *
27267782 TTTAGGGGTATCGAAGTACTAATAGGGGCATGTATGTGCA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCA
* * *
27267822 TTTAGGGGTACCGAAGTACAAATAGGGTCACGTATGTACA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCA
* * * *
27267862 TTCAAGGGTACCAAAGTACAAACAGGGGCATGTATGTGCA
1 TTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCA
27267902 TT
1 TT
27267904 CAGACAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (40 bp):
TTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCA
Found at i:27270351 original size:30 final size:30
Alignment explanation
Indices: 27270312--27270399 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
27270302 CACGGGCTGG
*
27270312 CACATGGGCGTGTGGCCAGCTCATGTGGCT
1 CACACGGGCGTGTGGCCAGCTCATGTGGCT
* * *
27270342 CACACGGGCGTGTGGCCAGCCCGTATGGCT
1 CACACGGGCGTGTGGCCAGCTCATGTGGCT
* * * *
27270372 CACACGAGCATGAGGCCATCTCATGTGG
1 CACACGGGCGTGTGGCCAGCTCATGTGG
27270400 AAATGCCCAG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGGCCAGCTCATGTGGCT
Found at i:27272188 original size:6 final size:6
Alignment explanation
Indices: 27272177--27272220 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
27272167 TAAGTCTAAG
* *
27272177 AAAATA ACAATA AACATA AAAATA AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
27272221 CAAATGGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:27278138 original size:26 final size:26
Alignment explanation
Indices: 27278107--27278163 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
27278097 GTCATCATTC
27278107 TCTCTTATTTTTCTTTTTTGTTCTCT
1 TCTCTTATTTTTCTTTTTTGTTCTCT
27278133 TCTCTTATTTTTCTTTTTTGTTCTCT
1 TCTCTTATTTTTCTTTTTTGTTCTCT
27278159 TCTCT
1 TCTCT
27278164 AAGTACGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.72
Consensus pattern (26 bp):
TCTCTTATTTTTCTTTTTTGTTCTCT
Found at i:27278941 original size:7 final size:7
Alignment explanation
Indices: 27278929--27278969 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
27278919 ATACATTTTC
27278929 ATTATTT
1 ATTATTT
27278936 ATTATTT
1 ATTATTT
27278943 ATTATTT
1 ATTATTT
27278950 ATT-TATT
1 ATTAT-TT
*
27278957 ATTTTTT
1 ATTATTT
27278964 A-TATTT
1 ATTATTT
27278970 TCTAAGGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
6 5 0.16
7 25 0.81
8 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTATTT
Found at i:27278951 original size:11 final size:11
Alignment explanation
Indices: 27278937--27278969 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
27278927 TCATTATTTA
27278937 TTATTTATTAT
1 TTATTTATTAT
27278948 TTATTTATTAT
1 TTATTTATTAT
27278959 TT-TTTA-TAT
1 TTATTTATTAT
27278968 TT
1 TT
27278970 TCTAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 4 0.18
11 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:27278953 original size:18 final size:18
Alignment explanation
Indices: 27278930--27278965 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27278920 TACATTTTCA
27278930 TTATTTATTATTTATTAT
1 TTATTTATTATTTATTAT
*
27278948 TTATTTATTATTTTTTAT
1 TTATTTATTATTTATTAT
27278966 ATTTTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTATTATTTATTAT
Found at i:27287121 original size:16 final size:16
Alignment explanation
Indices: 27287100--27287134 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27287090 GTCTTATTTT
27287100 TGCTGGAACAATTTCA
1 TGCTGGAACAATTTCA
* *
27287116 TGCTGGAATAATTTTA
1 TGCTGGAACAATTTCA
27287132 TGC
1 TGC
27287135 GTCTAGCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (16 bp):
TGCTGGAACAATTTCA
Found at i:27291835 original size:23 final size:21
Alignment explanation
Indices: 27291787--27291846 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
27291777 TAACATAAGC
* *
27291787 AAATAAAATAAAAATTAGAAAAA
1 AAATGAAATAAAAA-CA-AAAAA
27291810 AAATGAAACTAAAAACAAAAAGA
1 AAATGAAA-TAAAAACAAAAA-A
*
27291833 AAATGCAATAAAAA
1 AAATGAAATAAAAA
27291847 TAAATGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 10 0.31
23 16 0.50
24 6 0.19
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.13
Consensus pattern (21 bp):
AAATGAAATAAAAACAAAAAA
Found at i:27292810 original size:23 final size:24
Alignment explanation
Indices: 27292784--27292836 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
27292774 GTGTTTTTCG
* *
27292784 AGTGATTTCTTCAATCTTC-TCTA
1 AGTGATCTCTTAAATCTTCTTCTA
*
27292807 AGTGCTCTCTTAAATCTTCTTCTA
1 AGTGATCTCTTAAATCTTCTTCTA
*
27292831 ATTGAT
1 AGTGAT
27292837 ATTTATAGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (24 bp):
AGTGATCTCTTAAATCTTCTTCTA
Found at i:27303393 original size:36 final size:33
Alignment explanation
Indices: 27303328--27303394 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
27303318 GTGAATGAAG
*
27303328 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
27303361 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
27303395 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:27318865 original size:791 final size:786
Alignment explanation
Indices: 27317326--27319689 Score: 3024
Period size: 779 Copynumber: 3.0 Consensus size: 786
27317316 CATCCACTTG
* * * *
27317326 AAAGGAGCATTCTTATACAATAACTTCATCAAAGGAGATGCGATCAACTAGAACCTTTCCAAAAA
1 AAAGGAGCATTCTTAT-GAATAACTTCGTCAAATGAGATGCGATCAAC-AGAA-C-TTCCACAAA
* * * * * *
27317391 TATCTGATAATACCCTTCCAAACCAAGGAAACTCCAAATCTGTGAGAGAGTTTTAGGTTGTTTCC
62 TCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGTTGTTTCC
* * * * * * *
27317456 ATTTAAGAATAGTTTGGATTCATATTGATTCCCTCAGCAGATACCATATGTCCCAAAAACATAAT
127 ACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCCAAAAACATGAC
* * * * *
27317521 TTCCCTCAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCAGACAATCTACA
192 TTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGGGCTTCTTCTCTCGGAGAATCTATA
* * *
27317586 AAACTACCCTTACATGCTCATCATGCTCAGCCTCAGTCTTAGAGTATACAAAAATATCGTCGATG
257 GAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATG
* * * *
27317651 AACACACTATCACGAACTGATCCAGAAATGGTTGAGACACTCTATTCATAAGATCCATGAATGCG
322 AACA-A-TATGACGAACTGATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGC-
* * * *
27317716 GTCGAAACATTGGCCAAACCGAAAGGCATAACTAAGG-ACTTGTAATGACCATAACAAGACCTAA
384 GTCGAAACATTGGTCAAATCGAAAGGCATAACT-AGGAACTCGTAATGACCATAACGAGACCTAA
* * * * * ** *
27317780 ATGTAGTCTTAAGCACGTCAGATCCTTTCAGTCCCAACTAATGGTACATAGGTCTCAAATTGATC
448 ATGCAGTCTTAGGCAC-TTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATC
* * * * *
27317845 TTATAAAATACTGACGTCCCTCAAAACTGATCAAACAAATTGTCGATCCCTGGCAATGAATATTT
512 TTAGAAAACACTGACGTCCCTCAAAATTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTT
* * * **
27317910 ATTATTTATCATTAACTTATTTAGTTGCCTGTAGTTGATCTACTATAATACAGTGTAACAAATTA
577 ATTATTTACCGTTAACTTATTTAGTTGCCTGTAGTTGATCTA-TATAATTCAGTGTAGTAAATTA
* * * * * * * *
27317975 AACTAGTTTTTGCTCTTAAGGAACTT--A-ACAAACATTGTCGTTATGTTTTAGTTAAGTTTTCG
641 AACTAGTTTTCGCACTTAAGGAGCTTGAATACAAGCATTTTTGTTATGTTTTAGTTAAGATTTCT
* * *
27318037 TATTTTTAATTACATTCAATAAAATGTGTAAATTGAGTCTTTTATTGACCTTAGGGGTCGGATAA
706 TAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAA
*
27318102 GGCCTAAGGATGAGCT
771 GGCCTAAGGGTGAGCT
*
27318118 AAAGGAGTATTCTTATGAATAACTTCGTCAAATGAGATGCGATCAACGAGAAAACTTCCACAAAT
1 AAAGGAGCATTCTTATGAATAACTTCGTCAAATGAGATGCGATCAAC-AG--AACTTCCACAAAT
* * * * *
27318183 CTCTGATAATACCCTTCTAGACCAATGAAACTCGAAATCCGTGAGTCACTTTTACGTTGTTTCCA
63 CTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGTTGTTTCCA
* *
27318248 CTTAAGAATAGTTTGGATCCACACGGATACCCTCAGTAGATACCATATGTCCCAAAAACATGACT
128 CTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCCAAAAACATGACT
27318313 TCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGGGCTTCTTCTCTCGGAGAATCTATAG
193 TCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGGGCTTCTTCTCTCGGAGAATCTATAG
* * * * * * *
27318378 AACCACCCTTAGATGCTCATGATGCCCAACCTTAGTCTTAGAGTTTACAAAAATATCGTTAATGA
258 AACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGA
* *
27318443 ACAATATGACGAACTAATCTAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGCAGT-
323 ACAATATGACGAACTGATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGC-GTC
* * * *
27318507 AAGAACATTGGTCAAATCAAAAGGCATAACTAGGAACTCGTAATGACCATAGCGATACCTAAATG
387 GA-AACATTGGTCAAATCGAAAGGCATAACTAGGAACTCGTAATGACCATAACGAGACCTAAATG
*
27318572 CAGTCTTAGGCACTTAGATCCTTTCACTTTCAACTAATGGTACCCAGATCTCAAATTGATCTTAG
451 CAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAG
* **
27318637 AAAACACTAACGTCCCTCAAAATTGATCAAACAAATCACCGATCCTTGGCAATGAATATTTATTA
516 AAAACACTGACGTCCCTCAAAATTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTATTA
* * * ** *
27318702 TTTACCGTTAACTTATTCAGTTGCCTGCAGTTGATCTGATGTAATTTGGTGTAGTAGATTAAACT
581 TTTACCGTTAACTTATTTAGTTGCCTGTAGTTGATCT-ATATAATTCAGTGTAGTAAATTAAACT
27318767 AGTTTTCGCACTTAAGGAGCTTGAATACAAGCATTTTTGTTATGTTTTAGTTAAGATTTCTTAGT
645 AGTTTTCGCACTTAAGGAGCTTGAATACAAGCATTTTTGTTATGTTTTAGTTAAGATTTCTTAGT
*
27318832 TTTAATTACATTCAATAAAATGTGCAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGCC
710 TTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGCC
27318897 TAAGGGTGAGCT
775 TAAGGGTGAGCT
* *
27318909 AAAGAAGCATTCTTACGCAATAACTTCGTCAAATGAGAT---A-C--C----CTTCCACAAATCT
1 AAAGGAGCATTCTTATG-AATAACTTCGTCAAATGAGATGCGATCAACAGAACTTCCACAAATCT
* * *
27318964 CTGATGATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTATTTCCACT
65 CTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGTTGTTTCCACT
* *
27319029 TAAGAATAGTTTGGATCCACACTGATAACCTCGGCAGATACCATATGTCCC-AAAACATGACTTC
130 TAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCCAAAAACATGACTTC
* * * *
27319093 CCTTAACCAAAACTCACACTTGCTTAATTTAGCATAGGGCTTGTTCTCTCGGAGAACCTATAGAA
195 CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGGGCTTCTTCTCTCGGAGAATCTATAGAA
* * * *
27319158 CTACCCTTACATGCTCATCATGGTCAGCCTTAGTCTTAGAGTATAGAAAAATATTGTTGATGAAT
260 CTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAAC
** * * *
27319223 ACCATGACAAACTGGTCCAGAAACGGTTGAAACACTCTATTCATAGGATCCATGGATATG-GTCG
325 AATATGACGAACTGATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCA-GGA-ATGCGTCG
* * * * * *
27319287 CAGCATTGATCAAATTGAAAGGCATAACTAGGAACTCGTAATAACCATAACGAGACCTAACTGCA
388 AAACATTGGTCAAATCGAAAGGCATAACTAGGAACTCGTAATGACCATAACGAGACCTAAATGCA
* * * * * * *
27319352 GTCTTAGGCA-TGTCAAATACTTTTACTTCCAACTTATGGCATCCAAATCTCAAATTGATCTTAG
453 GTCTTAGGCACT-T-AGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAG
* * ** * * *
27319416 AAAACACTGACATCACTCAAAATTGATTGAATAAATCGTTGATCCTTAG-AAGTGAATATTTATT
516 AAAACACTGACGTCCCTCAAAATTGATCAAACAAATCGTCGATCCTTGGCAA-TGAATATTTATT
* * * * * * *
27319480 ATTTACTGATAACTTATTTAGTTTCTTGTAGTTGATTTTTTATAATTCAGTGTAGTAAAATAAAC
580 ATTTACCGTTAACTTATTTAGTTGCCTGTAGTTGA-TCTATATAATTCAGTGTAGTAAATTAAAC
*
27319545 TAGTTTTCGCA-TTGAAGGAGCCTGAATACAAGCATTTTTGTTATGTTTTAGTTAA-ATTTTCTT
644 TAGTTTTCGCACTT-AAGGAGCTTGAATACAAGCATTTTTGTTATGTTTTAGTTAAGA-TTTCTT
* * * *
27319608 AGTTTTTATTACATTCAATAAAATGTGAAAATTGAGTCTTCTATTGACCTTAGGGGGCGAATAAG
707 AGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAG
*
27319673 GCTTAAGGGTGAGCT
772 GCCTAAGGGTGAGCT
27319688 AA
1 AA
27319690 TGCACTTTGT
Statistics
Matches: 1374, Mismatches: 180, Indels: 49
0.86 0.11 0.03
Matches are distributed among these distances:
777 1 0.00
778 247 0.18
779 395 0.29
780 5 0.00
786 1 0.00
788 178 0.13
789 117 0.09
790 2 0.00
791 389 0.28
792 37 0.03
793 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (786 bp):
AAAGGAGCATTCTTATGAATAACTTCGTCAAATGAGATGCGATCAACAGAACTTCCACAAATCTC
TGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGTTGTTTCCACTT
AAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCCAAAAACATGACTTCC
CTTAACCAGAACTCACACTTGCTCAATTTAGCATAGGGCTTCTTCTCTCGGAGAATCTATAGAAC
TACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAACA
ATATGACGAACTGATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGCGTCGAAA
CATTGGTCAAATCGAAAGGCATAACTAGGAACTCGTAATGACCATAACGAGACCTAAATGCAGTC
TTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAGAAAAC
ACTGACGTCCCTCAAAATTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTATTATTTAC
CGTTAACTTATTTAGTTGCCTGTAGTTGATCTATATAATTCAGTGTAGTAAATTAAACTAGTTTT
CGCACTTAAGGAGCTTGAATACAAGCATTTTTGTTATGTTTTAGTTAAGATTTCTTAGTTTTAAT
TACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGCCTAAGGG
TGAGCT
Found at i:27336043 original size:17 final size:17
Alignment explanation
Indices: 27335988--27336043 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
27335978 ATTTTTAAAA
*
27335988 AAATTATTAAAATATAAT
1 AAATTATT-AAATATTAT
* *
27336006 AAA-AATATAAATTTATAT
1 AAATTAT-TAAATAT-TAT
27336024 AAATTATTAAATATTAT
1 AAATTATTAAATATTAT
27336041 AAA
1 AAA
27336044 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
17 13 0.43
18 15 0.50
19 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTATTAAATATTAT
Found at i:27336050 original size:17 final size:18
Alignment explanation
Indices: 27335987--27336051 Score: 73
Period size: 17 Copynumber: 3.7 Consensus size: 18
27335977 AATTTTTAAA
*
27335987 AAAATTATTAAAATATAAT
1 AAAATTATT-AAATATTAT
*
27336006 AAAAATA-TAAAT-TTAT
1 AAAATTATTAAATATTAT
27336022 ATAAATTATTAAATATTAT
1 A-AAATTATTAAATATTAT
27336041 AAAATT-TTAAA
1 AAAATTATTAAA
27336052 AATACTACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 11 0.28
19 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATTAAATATTAT
Found at i:27340114 original size:83 final size:83
Alignment explanation
Indices: 27340013--27340178 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
27340003 CTTTTCTTCT
27340013 TTAATATTTTAAAAGCTTGGGTTCGGTAGAAATATATTAATATCATGTTGCACTTGAAGTTGCAA
1 TTAATATTTTAAAAGCTTGGGTTCGGTAGAAATATATTAATATCATGTTGCACTTGAAGTTGCAA
27340078 GAATTTTTAGCTTAGTGA
66 GAATTTTTAGCTTAGTGA
27340096 TTAATATTTTAAAAGCTTGGGTTCGGTAGAAATATATTAATATCATGTTGCACTTGAAGTTGCAA
1 TTAATATTTTAAAAGCTTGGGTTCGGTAGAAATATATTAATATCATGTTGCACTTGAAGTTGCAA
27340161 GAATTTTTAGCTTAGTGA
66 GAATTTTTAGCTTAGTGA
27340179 GCATAACTCT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (83 bp):
TTAATATTTTAAAAGCTTGGGTTCGGTAGAAATATATTAATATCATGTTGCACTTGAAGTTGCAA
GAATTTTTAGCTTAGTGA
Found at i:27343820 original size:19 final size:20
Alignment explanation
Indices: 27343783--27343823 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27343773 CTATAGATGA
*
27343783 TAATTAGTTCAATTGAATCT
1 TAATTAATTCAATTGAATCT
*
27343803 TAATTAATT-AATTTAATCT
1 TAATTAATTCAATTGAATCT
27343822 TA
1 TA
27343824 GTTTACCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
TAATTAATTCAATTGAATCT
Found at i:27347733 original size:26 final size:26
Alignment explanation
Indices: 27347687--27347743 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27347677 AAAGGAAATC
* * * *
27347687 CTTTCATATTCCTCCATAAAGGTTTT
1 CTTTCATATTACACCACAAAGGCTTT
27347713 CTTTCATATTACACCACAAAGGCTTT
1 CTTTCATATTACACCACAAAGGCTTT
27347739 -TTTCA
1 CTTTCA
27347744 CTGACGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (26 bp):
CTTTCATATTACACCACAAAGGCTTT
Found at i:27349825 original size:50 final size:50
Alignment explanation
Indices: 27349730--27349876 Score: 159
Period size: 50 Copynumber: 2.8 Consensus size: 50
27349720 AGATCTCATG
* * *
27349730 TAAGACCATGTCTGGGACATGGCATTGGCACTATTGAGGTTATGAGAGGTCCCATA
1 TAAGACCATGTATGGGACATGGCATTGGCAC---CGA-G--ATGAGAGGTCCCACA
* * *
27349786 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACA
* * *
27349836 TAAGACCATGTATGGGACATGGCATGGGCGCCGATATGAGA
1 TAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGA
27349877 ACTCTCATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 49 0.60
52 1 0.01
53 2 0.02
56 30 0.37
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTATGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACA
Found at i:27350192 original size:20 final size:20
Alignment explanation
Indices: 27350167--27350205 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27350157 TGAGTTATTT
27350167 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
27350187 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
27350206 GAAGAGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:27355752 original size:50 final size:50
Alignment explanation
Indices: 27355652--27355890 Score: 178
Period size: 50 Copynumber: 4.7 Consensus size: 50
27355642 GATAAGATCT
* **
27355652 CATGTAAGACCATGTCTGGGACATGTCATTGGCATTATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGGTCC
*
27355708 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * **
27355758 CCCGTAAGACCATGTATGGGACATGG-AATGCGCACCAATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATGAGAGGTCC
* * * * * * * * **
27355808 TATGTAAGACCATATTTGGGATATGGCATTGGTA--GTATAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
*
27355857 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
27355891 TGTTATTATC
Statistics
Matches: 148, Mismatches: 32, Indels: 13
0.77 0.17 0.07
Matches are distributed among these distances:
49 39 0.26
50 71 0.48
51 3 0.02
52 1 0.01
53 3 0.02
56 31 0.21
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:27356118 original size:20 final size:20
Alignment explanation
Indices: 27356093--27356141 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27356083 TGAGTTATTT
27356093 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
27356113 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
27356133 AAG-AAGCAA
1 AAGTAAGCAA
27356142 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:27361214 original size:23 final size:23
Alignment explanation
Indices: 27361172--27361215 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
27361162 CTTCCTCCTT
*
27361172 TCCTTGTTTTCTCCTCTTTTCAC
1 TCCTTGTTTTCCCCTCTTTTCAC
27361195 TCCTT-TTTTCCCCTCATTTTC
1 TCCTTGTTTTCCCCTC-TTTTC
27361216 CTTTCCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.05, C:0.36, G:0.02, T:0.57
Consensus pattern (23 bp):
TCCTTGTTTTCCCCTCTTTTCAC
Found at i:27362682 original size:40 final size:40
Alignment explanation
Indices: 27362601--27362682 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
27362591 TACTGGCATC
* * * * **
27362601 TTGTCTACAATACTAGCAATTTATTTGTATTACTGGTAGT
1 TTGTCCACAATACTAGCAACTTATTTGCAATACTGACAGT
27362641 TTGTCCACAATACTAGCAACTTATTTGCAATACTGACAGT
1 TTGTCCACAATACTAGCAACTTATTTGCAATACTGACAGT
27362681 TT
1 TT
27362683 ATCTACATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (40 bp):
TTGTCCACAATACTAGCAACTTATTTGCAATACTGACAGT
Found at i:27362741 original size:59 final size:60
Alignment explanation
Indices: 27362629--27362746 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 60
27362619 ATTTATTTGT
*
27362629 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATTTGCAATACTGACAGTTTATCTAC
1 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGACAGTTTATCTAC
* * * * **
27362689 ATTACTGGTGGTTTGT-CACAATATTGGCAGC-TAGTCTGCAATACTGGTAGTTTATCTA
1 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTA-TCTGCAATACTGACAGTTTATCTA
27362747 TAATAGTGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 2 0.04
59 33 0.66
60 15 0.30
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (60 bp):
ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGACAGTTTATCTAC
Found at i:27366702 original size:23 final size:23
Alignment explanation
Indices: 27366675--27366734 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
27366665 CAAACAGACG
27366675 CTTTGTGGCGTATTCTATAAAGC
1 CTTTGTGGCGTATTCTATAAAGC
* *
27366698 CTTTGTGGCATAATCTATAAAGC
1 CTTTGTGGCGTATTCTATAAAGC
27366721 CTTTGTGGCGTATT
1 CTTTGTGGCGTATT
27366735 GGGTAACGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (23 bp):
CTTTGTGGCGTATTCTATAAAGC
Found at i:27369464 original size:62 final size:61
Alignment explanation
Indices: 27369395--27369517 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 61
27369385 ATGTTTATGA
27369395 ACCGCTCCAATATCCTGTACCAAGCTAGCTCAAGTACATATTTTTTATGCATGTTTATTTT
1 ACCGCTCCAATATCCTGTACCAAGCTAGCTCAAGTACATATTTTTTATGCATGTTTATTTT
*
27369456 NACCGCTCCAATTTCCTGTACCAAGCTAGCTCAAGTACATATTTTTTATGCATGTTTATTTT
1 -ACCGCTCCAATATCCTGTACCAAGCTAGCTCAAGTACATATTTTTTATGCATGTTTATTTT
27369518 TTTATTTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.40
Consensus pattern (61 bp):
ACCGCTCCAATATCCTGTACCAAGCTAGCTCAAGTACATATTTTTTATGCATGTTTATTTT
Found at i:27376312 original size:49 final size:49
Alignment explanation
Indices: 27376255--27376373 Score: 166
Period size: 49 Copynumber: 2.4 Consensus size: 49
27376245 CTGCAAAATT
* *
27376255 TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTTTACATTATC
1 TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTCTACACTATC
* * * *
27376304 TGGTGGCTTGACCACAATATTTTGTATCTGGTAGCTTGTCTACACTATC
1 TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTCTACACTATC
* *
27376353 AGGTGGCTTGACCATATTATT
1 TGGTGGCTTGACCATAATATT
27376374 GGTGTGATAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (49 bp):
TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTCTACACTATC
Found at i:27380601 original size:39 final size:40
Alignment explanation
Indices: 27380498--27380720 Score: 230
Period size: 39 Copynumber: 5.7 Consensus size: 40
27380488 TTGAATGATG
*
27380498 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
27380536 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27380577 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27380616 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27380655 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * * *
27380694 AACCGGGCTATGTCTCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27380721 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 91 0.57
40 56 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27400614 original size:91 final size:91
Alignment explanation
Indices: 27400485--27400658 Score: 237
Period size: 91 Copynumber: 1.9 Consensus size: 91
27400475 TACATTATAA
* *
27400485 TTGAAAATATCCAATGTGGTATTGAAACTATCAATTTGTGTAATATTTGG-AACATGTACTTT-C
1 TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGTAAC-TGTA-TTTCC
*
27400548 ATAAAATGTCGAATGTGGTATATGTACT
64 ATAAAATGTCCAATGTGGTATATGTACT
* * * *
27400576 TTGAAAATGTCCAAAGTGGTACCT-AAACTATTAATTTGTGTATTATTTGGTATCTGTATTTCCA
1 TTGAAAATATCCAAAGTGGTA-CTGAAACTATCAATTTGTGTAATATTTGGTAACTGTATTTCCA
27400640 TAAAATGTCCAATGTGGTA
65 TAAAATGTCCAATGTGGTA
27400659 CATGAACTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.04
91 67 0.92
92 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (91 bp):
TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGTAACTGTATTTCCAT
AAAATGTCCAATGTGGTATATGTACT
Found at i:27401284 original size:26 final size:26
Alignment explanation
Indices: 27401255--27401320 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
27401245 TTATGAAATG
*
27401255 GCTCACACAAGCTTCAGATC-AAGGTT
1 GCTCACACAAGCTT-AGATCGAAGATT
* *
27401281 GCTCACACAAGCTTAGTTCGATGATT
1 GCTCACACAAGCTTAGATCGAAGATT
*
27401307 GCTCACATAAGCTT
1 GCTCACACAAGCTT
27401321 TAGAGAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (26 bp):
GCTCACACAAGCTTAGATCGAAGATT
Found at i:27403222 original size:19 final size:20
Alignment explanation
Indices: 27403200--27403237 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27403190 TCGAAAACTT
27403200 AGTCC-AAAAAAAAATTAAA
1 AGTCCGAAAAAAAAATTAAA
*
27403219 AGTCCGAAAAAAAACTTAA
1 AGTCCGAAAAAAAAATTAA
27403238 TTAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.13, G:0.08, T:0.16
Consensus pattern (20 bp):
AGTCCGAAAAAAAAATTAAA
Found at i:27406254 original size:23 final size:23
Alignment explanation
Indices: 27406228--27406281 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
27406218 CTAGATATTT
27406228 TTCTAAATATTACCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
*
27406251 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
27406274 TTCTAAAT
1 TTCTAAAT
27406282 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCTAAATATTACCACTAAATAA
Found at i:27406892 original size:10 final size:10
Alignment explanation
Indices: 27406879--27406903 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27406869 CATTTTTTTG
27406879 TTTTTTTATT
1 TTTTTTTATT
27406889 TTTTTTTATT
1 TTTTTTTATT
27406899 TTTTT
1 TTTTT
27406904 CAAACGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:27411052 original size:34 final size:34
Alignment explanation
Indices: 27411009--27411075 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
27410999 ATATTCAACT
27411009 TTGTGTTGGGTTGGCCCATTGCCTCATAAACATA
1 TTGTGTTGGGTTGGCCCATTGCCTCATAAACATA
27411043 TTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
1 TTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
27411076 TAAATTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (34 bp):
TTGTGTTGGGTTGGCCCATTGCCTCATAAACATA
Found at i:27416441 original size:3 final size:3
Alignment explanation
Indices: 27416433--27416561 Score: 249
Period size: 3 Copynumber: 43.0 Consensus size: 3
27416423 ATTTTTAATT
*
27416433 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27416481 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27416529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27416562 GTTACTTTAT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 124 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:27419145 original size:30 final size:30
Alignment explanation
Indices: 27419106--27419164 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27419096 GGAGGTGGGA
* *
27419106 TGGGAAGGGAATAAAAGTTTTAGGGGGAAAG
1 TGGGAAGGGAATAAAAATTTT-GGCGGAAAG
*
27419137 TGGG-AGGGAGTAAAAATTTTGGCGGAAA
1 TGGGAAGGGAATAAAAATTTTGGCGGAAA
27419165 ATAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 14 0.56
31 4 0.16
ACGTcount: A:0.37, C:0.02, G:0.41, T:0.20
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTTGGCGGAAAG
Found at i:27419313 original size:30 final size:31
Alignment explanation
Indices: 27419270--27419330 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
27419260 GGGTTGGGAG
* * *
27419270 GGGAGGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
27419301 GGGAAGGG-GTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
27419331 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:27419393 original size:9 final size:9
Alignment explanation
Indices: 27419379--27419415 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27419369 TATAGTTTGA
27419379 TATTCGAAT
1 TATTCGAAT
27419388 TATTCGAAT
1 TATTCGAAT
*
27419397 TATTCGAGT
1 TATTCGAAT
*
27419406 TATTTGAAT
1 TATTCGAAT
27419415 T
1 T
27419416 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27419483 original size:9 final size:9
Alignment explanation
Indices: 27419469--27419499 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
27419459 TCGAGTTGAT
27419469 TCGAATAAC
1 TCGAATAAC
27419478 TCGAATAAC
1 TCGAATAAC
27419487 TCGAATAAC
1 TCGAATAAC
27419496 TCGA
1 TCGA
27419500 TTCGCTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27424139 original size:17 final size:18
Alignment explanation
Indices: 27424108--27424142 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27424098 GGTAGGAAAT
*
27424108 TTTATAAAATGTGCATCG
1 TTTATAAAATATGCATCG
27424126 TTTA-AAAATATGCATCG
1 TTTATAAAATATGCATCG
27424143 ACATGTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
TTTATAAAATATGCATCG
Found at i:27439707 original size:47 final size:45
Alignment explanation
Indices: 27439638--27439747 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 45
27439628 GGCCAGATTC
* *
27439638 AAAAAA-A-AAAAGAAAAAAATCAAAATCAAAATCATAATCAAAGT
1 AAAAAAGAGAAAAG-AAAAAATCAAAATCAAAATCAAAATCAAAAT
* *
27439682 AAAAAAGAAGAAATAGAAAAAATCAAAATCAAAGTCAAAATGAAAAT
1 AAAAAAG-AGAAA-AGAAAAAATCAAAATCAAAATCAAAATCAAAAT
*
27439729 GAAAAAGAGAAAAGAAAAA
1 AAAAAAGAGAAAAGAAAAA
27439748 GGAAAAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 6 0.11
45 7 0.12
46 6 0.11
47 36 0.63
48 2 0.04
ACGTcount: A:0.73, C:0.06, G:0.10, T:0.11
Consensus pattern (45 bp):
AAAAAAGAGAAAAGAAAAAATCAAAATCAAAATCAAAATCAAAAT
Found at i:27439745 original size:13 final size:13
Alignment explanation
Indices: 27439723--27439764 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27439713 AAGTCAAAAT
27439723 GAAAATGAAAAAGA
1 GAAAA-GAAAAAGA
27439737 GAAAAGAAAAAG-
1 GAAAAGAAAAAGA
*
27439749 GAAAAAGAAAAGGA
1 G-AAAAGAAAAAGA
27439763 GA
1 GA
27439765 GGCCAAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (13 bp):
GAAAAGAAAAAGA
Found at i:27442167 original size:44 final size:44
Alignment explanation
Indices: 27442117--27442353 Score: 194
Period size: 44 Copynumber: 5.2 Consensus size: 44
27442107 AGTCTAAGGA
* *
27442117 AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGG
1 AGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGG
* * * *
27442161 AGCAGATTGAGGCTAGTAATCCTATCTCCCTGAGATTATAGTGG
1 AGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGG
* ** * *
27442205 AGCGGATT-AAAATA-AAGGATCCTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGCTAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--G
*
27442254 ATTGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGG
1 A--G---CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGG
* *
27442303 AGCAGATTGAAGCTAG-TATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGG
*
27442346 AGCGGATT
1 AGCAGATT
27442354 AAAATAAAGG
Statistics
Matches: 153, Mismatches: 24, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.01
43 35 0.23
44 76 0.50
47 4 0.03
49 4 0.03
51 4 0.03
54 22 0.14
55 5 0.03
56 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGG
Found at i:27442337 original size:43 final size:44
Alignment explanation
Indices: 27442261--27442353 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 44
27442251 TAGATTGCAT
*
27442261 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* *
27442305 CAGATTGAAGCTAG-TATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
*
27442348 CGGATT
1 CAGATT
27442354 AAAATAAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 31 0.69
44 14 0.31
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:27444396 original size:24 final size:26
Alignment explanation
Indices: 27444369--27444423 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
27444359 ATAACATCTC
27444369 ATATTTTT-TATA-TATGTACATATA
1 ATATTTTTATATACTATGTACATATA
*
27444393 ATATTTTTAGTATACGTATGTATATATA
1 ATATTTTTA-TATAC-TATGTACATATA
27444421 ATA
1 ATA
27444424 ATATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
26 4 0.15
28 14 0.54
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (26 bp):
ATATTTTTATATACTATGTACATATA
Found at i:27452739 original size:42 final size:42
Alignment explanation
Indices: 27452661--27452752 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
27452651 AGTCAGTGAT
*
27452661 TTACACGGCCTGGCACACGAGCGTGTGTGGCAACTCAGAAAG
1 TTACACGGCCTGGCACACGAGAGTGTGTGGCAACTCAGAAAG
* **
27452703 TTACACGGCCTGGCACAC-AGGAGTGTAG-GGCTACTCAGTGAG
1 TTACACGGCCTGGCACACGA-GAGTGT-GTGGCAACTCAGAAAG
27452745 TTACACGG
1 TTACACGG
27452753 GCTGTGACAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 42 0.95
43 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (42 bp):
TTACACGGCCTGGCACACGAGAGTGTGTGGCAACTCAGAAAG
Found at i:27465344 original size:22 final size:21
Alignment explanation
Indices: 27465294--27465349 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
27465284 AAGAAAATTT
27465294 AAAGAACAAAAAACTAGAAGC
1 AAAGAACAAAAAACTAGAAGC
***
27465315 ATTCAACAAGAAAATCTA-AAGC
1 AAAGAACAA-AAAA-CTAGAAGC
*
27465337 AAAGAACATAAAA
1 AAAGAACAAAAAA
27465350 GGAACAAGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
21 10 0.38
22 13 0.50
23 3 0.12
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (21 bp):
AAAGAACAAAAAACTAGAAGC
Found at i:27465873 original size:21 final size:22
Alignment explanation
Indices: 27465844--27465884 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27465834 TCTTCCTTGG
*
27465844 AAGATGGATATCGTGATACCCA
1 AAGATGGATATCGCGATACCCA
27465866 AAGA-GGATATCGCGATACC
1 AAGATGGATATCGCGATACC
27465885 ACTGAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
AAGATGGATATCGCGATACCCA
Found at i:27466324 original size:10 final size:10
Alignment explanation
Indices: 27466309--27466342 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27466299 CAATCTCTTA
*
27466309 TTTTAATTTG
1 TTTTAATCTG
27466319 TTTTAATCTG
1 TTTTAATCTG
*
27466329 TTTTAATCTA
1 TTTTAATCTG
27466339 TTTT
1 TTTT
27466343 CGCGGGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (10 bp):
TTTTAATCTG
Found at i:27475523 original size:97 final size:96
Alignment explanation
Indices: 27475457--27475655 Score: 292
Period size: 97 Copynumber: 2.0 Consensus size: 96
27475447 TTAAATTTAT
* *
27475457 TTTTTAATTAATTAATTCTTTTATTTATATAAATAAA-ATAATAATTATATAATTATATAATAAA
1 TTTTTAATTAA-TAACTCATTTATTTATATAAATAAATA-AAT-ATTATATAATTATATAATAAA
27475521 ATTATATATTTTATATATATCATTATGTTAAAATA
63 ATTATATATTTTATATATATCA-TATGTTAAAATA
*
27475556 TTTTTAATTAATAACTCATTTATTTATATAAATAAATAAATATTATATAATTATATAATAAAAAT
1 TTTTTAATTAATAACTCATTTATTTATATAAATAAATAAATATTATATAATTATATAATAAAATT
* * *
27475621 ATATTTTTTATATTTATCATTATATTAAAATA
66 ATATATTTTATATATATCA-TATGTTAAAATA
27475653 TTT
1 TTT
27475656 ATTTTTTAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
97 55 0.59
98 26 0.28
99 12 0.13
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (96 bp):
TTTTTAATTAATAACTCATTTATTTATATAAATAAATAAATATTATATAATTATATAATAAAATT
ATATATTTTATATATATCATATGTTAAAATA
Found at i:27475650 original size:32 final size:35
Alignment explanation
Indices: 27475595--27475663 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 35
27475585 AAATAAATAA
27475595 ATATTATATAATTATATAATAAAA-ATATATTTTTT
1 ATATTATATAATTATAT-ATAAAATATATATTTTTT
* *
27475630 ATATT-TATCATTATAT-TAAAATATTTATTTTTT
1 ATATTATATAATTATATATAAAATATATATTTTTT
27475663 A
1 A
27475664 ATAACAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.16
33 11 0.35
34 10 0.32
35 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (35 bp):
ATATTATATAATTATATATAAAATATATATTTTTT
Found at i:27476804 original size:18 final size:18
Alignment explanation
Indices: 27476781--27476819 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27476771 ACACTAATTT
*
27476781 ATTATTTAAA-TTATTTGA
1 ATTA-TTAAATTTATTCGA
27476799 ATTATTAAATTTATTCGA
1 ATTATTAAATTTATTCGA
27476817 ATT
1 ATT
27476820 GTGGAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTATTAAATTTATTCGA
Found at i:27478852 original size:30 final size:32
Alignment explanation
Indices: 27478791--27478856 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
27478781 ACTTAACAAG
27478791 CAAACGCCTCTAAAATAATAAAAAGAAATTAA
1 CAAACGCCTCTAAAATAATAAAAAGAAATTAA
* * *
27478823 CAAATGCCTTTAAAATAAT-AACA-AAATTAA
1 CAAACGCCTCTAAAATAATAAAAAGAAATTAA
27478853 CAAA
1 CAAA
27478857 GCAATCAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 11 0.35
31 3 0.10
32 17 0.55
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (32 bp):
CAAACGCCTCTAAAATAATAAAAAGAAATTAA
Found at i:27485420 original size:15 final size:15
Alignment explanation
Indices: 27485400--27485446 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
27485390 GTTTGAAATG
27485400 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
*
27485415 TTACGTTATTATGTTA-
1 TTACGTT-TTA-GTCAC
*
27485431 TTACATTTTAGTCAC
1 TTACGTTTTAGTCAC
27485446 T
1 T
27485447 GAACTAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 9 0.35
17 3 0.12
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:27485860 original size:16 final size:16
Alignment explanation
Indices: 27485839--27485890 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
27485829 GAAGAGAATG
27485839 AAAAAAAGAAAAAAGA
1 AAAAAAAGAAAAAAGA
***
27485855 AAAAAAAGAAAAGTTA
1 AAAAAAAGAAAAAAGA
* *
27485871 AAAAAAACATAAAAGA
1 AAAAAAAGAAAAAAGA
27485887 AAAA
1 AAAA
27485891 GTTAAATTGC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGA
Found at i:27485873 original size:23 final size:24
Alignment explanation
Indices: 27485847--27485896 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
27485837 TGAAAAAAAG
27485847 AAAAAAGAA-AAAAAAG-AAAAGTT
1 AAAAAA-AACAAAAAAGAAAAAGTT
*
27485870 AAAAAAAACATAAAAGAAAAAGTT
1 AAAAAAAACAAAAAAGAAAAAGTT
27485894 AAA
1 AAA
27485897 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 2 0.08
23 12 0.50
24 10 0.42
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (24 bp):
AAAAAAAACAAAAAAGAAAAAGTT
Found at i:27486280 original size:24 final size:24
Alignment explanation
Indices: 27486253--27486304 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27486243 TTAGTAAGTC
*
27486253 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
27486277 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
27486301 AAAT
1 AAAT
27486305 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:27488239 original size:24 final size:24
Alignment explanation
Indices: 27488212--27488263 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27488202 TTAGTAAGTC
*
27488212 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
27488236 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
27488260 AAAT
1 AAAT
27488264 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:27489563 original size:19 final size:20
Alignment explanation
Indices: 27489541--27489592 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
27489531 ATTTGCTTTT
* *
27489541 AGAATATTTTT-TCTGTTGC
1 AGAATATTTTTGACTATTGC
* *
27489560 AGAAAATCTTTTGACTATTGT
1 AGAATAT-TTTTGACTATTGC
27489581 AGAATATTTTTG
1 AGAATATTTTTG
27489593 GTTGAGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 11 0.42
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (20 bp):
AGAATATTTTTGACTATTGC
Found at i:27502958 original size:42 final size:43
Alignment explanation
Indices: 27502906--27502986 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
27502896 AAGGAATTTG
* *
27502906 GAAGATGAAAAGTCA-CATGGAAAAAG-AAGAGAAGAAAATTGA
1 GAAGAAGAAAAGTCACCA-GGAAAAAGAAAGAGAAAAAAATTGA
*
27502948 GAAGAAGAAAAGTGACCAGGAAAAAGAAAGAGAAAAAAA
1 GAAGAAGAAAAGTCACCAGGAAAAAGAAAGAGAAAAAAA
27502987 AGAAGGTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.62, C:0.05, G:0.26, T:0.07
Consensus pattern (43 bp):
GAAGAAGAAAAGTCACCAGGAAAAAGAAAGAGAAAAAAATTGA
Found at i:27503061 original size:21 final size:21
Alignment explanation
Indices: 27503036--27503075 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27503026 AAAAGAAAAA
27503036 ATTTTAAAAATATTT-TTATTG
1 ATTTTAAAAAT-TTTATTATTG
*
27503057 ATTTTTAAAATTTTATTAT
1 ATTTTAAAAATTTTATTAT
27503076 GACATCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTAAAAATTTTATTATTG
Found at i:27509539 original size:106 final size:106
Alignment explanation
Indices: 27509354--27509817 Score: 928
Period size: 106 Copynumber: 4.4 Consensus size: 106
27509344 TGACTTAAAT
27509354 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
1 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
27509419 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
66 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
27509460 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
1 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
27509525 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
66 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
27509566 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
1 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
27509631 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
66 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
27509672 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
1 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
27509737 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
66 TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
27509778 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGT
1 TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGT
27509818 ATTTTTGTAT
Statistics
Matches: 358, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 358 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.45
Consensus pattern (106 bp):
TTAATTTGTATTAGGTTGATTGCATTTCATCCACTTAAGTTATTAAAATTATGTTTGTGTTGTTA
TAGGCCATGGTAAGTTGTTTGATTAAGTAAAATCATGGTAA
Found at i:27516436 original size:22 final size:19
Alignment explanation
Indices: 27516411--27516452 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
27516401 TGATAATAAC
27516411 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
27516433 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
27516452 T
1 T
27516453 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:27516443 original size:16 final size:15
Alignment explanation
Indices: 27516411--27516449 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27516401 TGATAATAAC
27516411 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
27516427 TTATTATAATATATAT
1 TAATTATAAT-TATAT
27516443 TAATTAT
1 TAATTAT
27516450 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:27523896 original size:31 final size:31
Alignment explanation
Indices: 27523821--27523902 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
27523811 AGTGATTGTA
*
27523821 TTATTAGGTACTTTGTATCGATGTTCATATC
1 TTATTAGGTACTATGTATCGATGTTCATATC
* * * * *
27523852 ATATCAGGCACTATGTGTC-AGTGTTTATATC
1 TTATTAGGTACTATGTATCGA-TGTTCATATC
27523883 TTATTAGGTACTATGTATCG
1 TTATTAGGTACTATGTATCG
27523903 GTGATGGATA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (31 bp):
TTATTAGGTACTATGTATCGATGTTCATATC
Found at i:27525560 original size:14 final size:14
Alignment explanation
Indices: 27525541--27525578 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
27525531 GTCTTCTTTT
27525541 GAGTCCGCA-TATAA
1 GAGTCCGCATTA-AA
27525555 GAGTCCGCATTAAA
1 GAGTCCGCATTAAA
27525569 GAGTCCGCAT
1 GAGTCCGCAT
27525579 GATTGTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (14 bp):
GAGTCCGCATTAAA
Found at i:27527196 original size:27 final size:27
Alignment explanation
Indices: 27527165--27527483 Score: 365
Period size: 27 Copynumber: 11.9 Consensus size: 27
27527155 CACAAATTAT
*
27527165 CGAAATACCCCCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
** * *
27527192 CGAAATACCTTCGAAGGTTAAAATAAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
27527219 CGAAATACCCCCAAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
27527246 CAAAATACGCCCGAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * *
27527273 CGAAATAACCTCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
27527300 CGAAATACCCCTGAAAGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
** *
27527327 TAAAATACCTCCG-AGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * * *
27527353 TGAAATACCCTCGAAGGGTAAAATAAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
27527380 CAAAATACCCCC-ATAGGGTAAAATGAC
1 CGAAATACCCCCGA-AGGGTAAAATGAC
* * * *
27527407 CAAAATACCCACGAGGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
27527434 CGAAATACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
27527461 CGAAATACCCCAGAA-GGTAAAAT
1 CGAAATACCCCCGAAGGGTAAAAT
27527484 TACTATTATA
Statistics
Matches: 242, Mismatches: 47, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
26 31 0.13
27 210 0.87
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
CGAAATACCCCCGAAGGGTAAAATGAC
Found at i:27532430 original size:20 final size:20
Alignment explanation
Indices: 27532393--27532430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27532383 ATAGAAAAAA
*
27532393 AAACATATCATATTAATAGC
1 AAACATATCATATCAATAGC
27532413 AAACATATC-TAATCAATA
1 AAACATATCAT-ATCAATA
27532431 ATTATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (20 bp):
AAACATATCATATCAATAGC
Found at i:27540458 original size:31 final size:29
Alignment explanation
Indices: 27540420--27540496 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
27540410 CTAACGGCTC
* *
27540420 AGTGACTAAAACGTTACAACGTGATAACATA
1 AGTGACTAAAACGTAAC-ACGTCA-AACATA
**
27540451 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAACGTAACACGTCAAACATA
*
27540480 AGTGACTAAAATGTAAC
1 AGTGACTAAAACGTAAC
27540497 CTGAACCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 22 0.54
30 3 0.07
31 16 0.39
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAACGTAACACGTCAAACATA
Found at i:27543709 original size:65 final size:66
Alignment explanation
Indices: 27543632--27543760 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
27543622 AATCTGACTT
* *
27543632 AGACATGCAATAATGTTGAA-CAATCTAAGACATAATTAATA-GACTTGAAACAACTAAA-AACA
1 AGACATGCAATAATGCTGAAGCAAT-TAAAACATAATTAATATGA-TTGAAACAACTAAAGAACA
27543694 ATC
64 ATC
* * *
27543697 AGACATGTAATAATGCTGAATGGAATTAAAACATAATTAATATGATTGAAATAACTAAAGAACA
1 AGACATGCAATAATGCTGAA-GCAATTAAAACATAATTAATATGATTGAAACAACTAAAGAACA
27543761 TTTAAGTCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
65 18 0.33
66 28 0.51
67 9 0.16
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (66 bp):
AGACATGCAATAATGCTGAAGCAATTAAAACATAATTAATATGATTGAAACAACTAAAGAACAAT
C
Found at i:27547967 original size:31 final size:31
Alignment explanation
Indices: 27547932--27548015 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
27547922 GTATATATTT
*
27547932 TATACATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
27547963 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
27547994 TATATATTACCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
27548016 AGCATTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 8 0.16
31 41 0.84
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:27549637 original size:66 final size:66
Alignment explanation
Indices: 27549522--27549650 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
27549512 AATCTGACTT
* *
27549522 AGACATGTAATAATGTTGTACAAACTAAGACATAATTAATAAACTTGAAACAACTAAA-AACAAT
1 AGACATGTAATAATGTTGCACAAACTAAAACATAATTAATAAACTTGAAACAACTAAAGAACAAT
27549586 C
66 C
** * * *
27549587 AGACATGTAATAATGTTGCATGGAATTAAAACATAATTAATATGA-TTGAAATAACTAAAGAACA
1 AGACATGTAATAATGTTGCA-CAAACTAAAACATAATTAATA-AACTTGAAACAACTAAAGAACA
27549651 TTTAAATCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 19 0.35
66 30 0.56
67 5 0.09
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (66 bp):
AGACATGTAATAATGTTGCACAAACTAAAACATAATTAATAAACTTGAAACAACTAAAGAACAAT
C
Found at i:27565005 original size:13 final size:13
Alignment explanation
Indices: 27564987--27565011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27564977 AAATTGGATT
27564987 TTAATTAATTAAA
1 TTAATTAATTAAA
27565000 TTAATTAATTAA
1 TTAATTAATTAA
27565012 TTGAAGTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:27566777 original size:20 final size:20
Alignment explanation
Indices: 27566754--27566939 Score: 76
Period size: 20 Copynumber: 9.3 Consensus size: 20
27566744 ATGTGAATTT
27566754 AGGGGTACCGAAGTACAATC
1 AGGGGTACCGAAGTACAATC
* ** * * *
27566774 AGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTACAATC
*
27566794 AGGGG-ACCGAAGTGCAATC
1 AGGGGTACCGAAGTACAATC
* * * *
27566813 AGGGGCA-CGTATGTGCATTC
1 AGGGGTACCG-AAGTACAATC
* * **
27566833 AAGGGTACCGGAGTACAAAA
1 AGGGGTACCGAAGTACAATC
* *
27566853 AGGGGTA-CGAATGTGCATTC
1 AGGGGTACCGAA-GTACAATC
*** *
27566873 AGGGGTATTAAAGTACAACC
1 AGGGGTACCGAAGTACAATC
* * *
27566893 AAGGGCA-CGAA-TGAGCATTC
1 AGGGGTACCGAAGT-A-CAATC
*
27566913 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAATC
27566933 AGGGGTA
1 AGGGGTA
27566940 GGAATGTGCA
Statistics
Matches: 116, Mismatches: 41, Indels: 18
0.66 0.23 0.10
Matches are distributed among these distances:
18 1 0.01
19 23 0.20
20 82 0.71
21 9 0.08
22 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAATC
Found at i:27566788 original size:40 final size:39
Alignment explanation
Indices: 27566725--27566992 Score: 241
Period size: 40 Copynumber: 6.7 Consensus size: 39
27566715 GAGTTATTGG
* ** * *
27566725 AGTATAAACAGGGGCATGTATGTGAATTTAGGGGTACCGA
1 AGTACAAACAGGGGCA-CAATGTGCATTCAGGGGTACCGA
*
27566765 AGTACAATCAGGGGCACATATGTGCATTCAGGGG-ACCGA
1 AGTACAAACAGGGGCACA-ATGTGCATTCAGGGGTACCGA
* * * * *
27566804 AGTGCAATCAGGGGCACGTATGTGCATTCAAGGGTACCGG
1 AGTACAAACAGGGGCAC-AATGTGCATTCAGGGGTACCGA
* * ***
27566844 AGTACAAAAAGGGGTACGAATGTGCATTCAGGGGTATTAA
1 AGTACAAACAGGGGCAC-AATGTGCATTCAGGGGTACCGA
* * *
27566884 AGTACAACCAAGGGCACGAATGAGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCAC-AATGTGCATTCAGGGGTACCGA
* * * * *
27566924 AGTACAAACAGGGGTAGGAATGTGCATTTAGTGGTACCAA
1 AGTACAAACAGGGGCA-CAATGTGCATTCAGGGGTACCGA
*
27566964 AGTACAAACAGGGACACAAATGTGCATTC
1 AGTACAAACAGGGGCAC-AATGTGCATTC
27566993 TTCAATAATT
Statistics
Matches: 183, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
39 35 0.19
40 148 0.81
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (39 bp):
AGTACAAACAGGGGCACAATGTGCATTCAGGGGTACCGA
Found at i:27566825 original size:79 final size:80
Alignment explanation
Indices: 27566733--27566992 Score: 281
Period size: 80 Copynumber: 3.3 Consensus size: 80
27566723 GGAGTATAAA
* * * *
27566733 CAGGGGCATGTATGTGAATTTAGGGGTACCGAAGTACAATCAGGGGCAC-ATATGTGCATTCAGG
1 CAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGA-ATGTGCATTCAGG
* * *
27566797 GG-ACCGAAGTGCAAT
65 GGTACCAAAGTACAAC
* * * *
27566812 CAGGGGCACGTATGTGCATTCAAGGGTACCGGAGTACAAAAAGGGGTACGAATGTGCATTCAGGG
1 CAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCATTCAGGG
**
27566877 GTATTAAAGTACAAC
66 GTACCAAAGTACAAC
* * * * * * *
27566892 CAAGGGCACGAATGAGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGCATTTAGTG
1 CAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCATTCAGGG
*
27566957 GTACCAAAGTACAAA
66 GTACCAAAGTACAAC
* **
27566972 CAGGGACACAAATGTGCATTC
1 CAGGGGCACGTATGTGCATTC
27566993 TTCAATAATT
Statistics
Matches: 150, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 56 0.37
80 94 0.63
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.20
Consensus pattern (80 bp):
CAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGAATGTGCATTCAGGG
GTACCAAAGTACAAC
Found at i:27567090 original size:28 final size:28
Alignment explanation
Indices: 27567050--27567106 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27567040 TTTACAAGTA
27567050 AAACTATTTAAGTATTGAAATACTATGG
1 AAACTATTTAAGTATTGAAATACTATGG
27567078 AAACTATTTAAGTATTGAAATACTATGG
1 AAACTATTTAAGTATTGAAATACTATGG
27567106 A
1 A
27567107 CTTATCTACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (28 bp):
AAACTATTTAAGTATTGAAATACTATGG
Found at i:27579304 original size:13 final size:13
Alignment explanation
Indices: 27579286--27579321 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27579276 CAGGGTTGTA
27579286 ATGAGCTCGCAGG
1 ATGAGCTCGCAGG
27579299 ATGAGCTCGCAGG
1 ATGAGCTCGCAGG
27579312 -TCGAGCTCGC
1 AT-GAGCTCGC
27579322 TCTCTTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 1 0.05
13 21 0.95
ACGTcount: A:0.19, C:0.28, G:0.36, T:0.17
Consensus pattern (13 bp):
ATGAGCTCGCAGG
Found at i:27586358 original size:10 final size:10
Alignment explanation
Indices: 27586343--27586372 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27586333 TCCAAGTGCC
27586343 ATTTTATCTT
1 ATTTTATCTT
*
27586353 ATTTTATTTT
1 ATTTTATCTT
27586363 ATTTTATCTT
1 ATTTTATCTT
27586373 TTATTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTATCTT
Found at i:27586828 original size:25 final size:25
Alignment explanation
Indices: 27586793--27586841 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
27586783 ATGTTAGAGT
*
27586793 ACTTAGTCTTTGATGTTAGCATGAC
1 ACTTAGCCTTTGATGTTAGCATGAC
27586818 ACTTAGCCTTTGATGTTAGCATGA
1 ACTTAGCCTTTGATGTTAGCATGA
27586842 TGACAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
ACTTAGCCTTTGATGTTAGCATGAC
Found at i:27592017 original size:37 final size:37
Alignment explanation
Indices: 27591959--27592048 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
27591949 TATAATAAAG
* * *
27591959 GTTAGCTGATTTAAGATCACAACTTAAAGTTT-TTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAA-TTTCCTTGA
*
27591996 GTTAACTGATTTAAGAACACAACCTAAATTTCCTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAATTTCCTTGA
*
27592033 GTTAGCTAATTTAAGA
1 GTTAGCTGATTTAAGA
27592049 TCGCAACTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 3 0.07
37 43 0.93
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (37 bp):
GTTAGCTGATTTAAGAACACAACCTAAATTTCCTTGA
Found at i:27593990 original size:50 final size:50
Alignment explanation
Indices: 27593887--27594077 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 50
27593877 GGGAATGAGA
**
27593887 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCATTGAGATTATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGAG---ATGAGAAG
* * *
27593943 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
** * * * * *
27593993 TCCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
* *
27594043 TCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
27594078 TAGTACAGAA
Statistics
Matches: 113, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 75 0.66
53 5 0.04
56 33 0.29
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
Found at i:27594344 original size:12 final size:12
Alignment explanation
Indices: 27594327--27594365 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27594317 ATGAGTTATT
27594327 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
27594339 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
27594351 TAAGTGAGTAAG
1 TAAGTAAGCAAG
27594363 TAA
1 TAA
27594366 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:27595886 original size:34 final size:34
Alignment explanation
Indices: 27595848--27596063 Score: 290
Period size: 34 Copynumber: 6.4 Consensus size: 34
27595838 GTCATAATTG
* *
27595848 TAACATGCATAAA-AGCCACATTTGGACATCATTA
1 TAACATGCA-AAACAACCACATTTGGACAACATTA
* * *
27595882 TAACATGCAAAACAGCCGCATTTGGACAACATTT
1 TAACATGCAAAACAACCACATTTGGACAACATTA
* * *
27595916 TAATATGCAAAACAACCACATTTGAAGAACATTA
1 TAACATGCAAAACAACCACATTTGGACAACATTA
* *
27595950 AAACATGCAAAACAACCACATTTGGACACCATTA
1 TAACATGCAAAACAACCACATTTGGACAACATTA
* *
27595984 AAACATGCAAAACAACCACATTTGGACAGCATTA
1 TAACATGCAAAACAACCACATTTGGACAACATTA
*
27596018 TAATATGCAAAACAACCACATTTGGACAACATTA
1 TAACATGCAAAACAACCACATTTGGACAACATTA
*
27596052 TAACATGAAAAA
1 TAACATGCAAAA
27596064 ATTCAGCAGC
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
33 3 0.02
34 158 0.98
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (34 bp):
TAACATGCAAAACAACCACATTTGGACAACATTA
Found at i:27600793 original size:23 final size:23
Alignment explanation
Indices: 27600736--27600793 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
27600726 GGTTATATTG
27600736 GTGAAATTGATTGAATGTTCAATA
1 GTGAAA-TGATTGAATGTTCAATA
* *
27600760 G-GAGAAGGATTGAATGTTTACA-A
1 GTGA-AATGATTGAATGTTCA-ATA
27600783 GTGAAATGATT
1 GTGAAATGATT
27600794 ACTTAGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (23 bp):
GTGAAATGATTGAATGTTCAATA
Found at i:27603755 original size:23 final size:23
Alignment explanation
Indices: 27603728--27603772 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
27603718 TCTAATAGAG
*
27603728 TGGAGTAATATGTATTTTCTCAT
1 TGGAGTAATATATATTTTCTCAT
27603751 TGGAGTAATATATATTTTCTCA
1 TGGAGTAATATATATTTTCTCA
27603773 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (23 bp):
TGGAGTAATATATATTTTCTCAT
Found at i:27611429 original size:24 final size:20
Alignment explanation
Indices: 27611375--27611421 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
27611365 ATGAAGAATC
*
27611375 TTCAAGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
27611395 TTCATGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
27611415 TTCATGT
1 TTCATGT
27611422 AAATTCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (20 bp):
TTCATGTTCTTTAATAAATA
Found at i:27611642 original size:43 final size:43
Alignment explanation
Indices: 27611581--27611672 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
27611571 TTTAACCATA
* **
27611581 CTAATATATGCATAGTACAAACTAGATGAAAGATTATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
*
27611624 CTAATATATGCATAGTACAAACTAGAGGGAAGACGATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
27611667 CTAATA
1 CTAATA
27611673 CAAAATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (43 bp):
CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
Found at i:27612830 original size:25 final size:25
Alignment explanation
Indices: 27612796--27612845 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27612786 TCTTTGTGAA
27612796 TATCTTTTAAAACTTAAAAGTTTAT
1 TATCTTTTAAAACTTAAAAGTTTAT
27612821 TATCTTTTAAAACTTAAAAGTTTAT
1 TATCTTTTAAAACTTAAAAGTTTAT
27612846 CTTCCTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (25 bp):
TATCTTTTAAAACTTAAAAGTTTAT
Found at i:27615288 original size:16 final size:15
Alignment explanation
Indices: 27615267--27615296 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27615257 TATTTTCACA
27615267 CCTTTTTTTTCATTTT
1 CCTTTTTTTT-ATTTT
27615283 CCTTTTTTTTATTT
1 CCTTTTTTTTATTT
27615297 GTGCTCGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
CCTTTTTTTTATTTT
Found at i:27622910 original size:31 final size:31
Alignment explanation
Indices: 27622867--27622928 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27622857 GCACTAGGTC
27622867 TTTCACTAATGCCCATCATGGTCGATTTACG
1 TTTCACTAATGCCCATCATGGTCGATTTACG
*
27622898 TTTCCCTAATGCCCATCATGGTCGATTTACG
1 TTTCACTAATGCCCATCATGGTCGATTTACG
27622929 GAGGGTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTCACTAATGCCCATCATGGTCGATTTACG
Found at i:27623453 original size:18 final size:18
Alignment explanation
Indices: 27623432--27623470 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27623422 TTTTTGTAAT
*
27623432 ATTTAAAA-ATTTTAAGAA
1 ATTTAAAATATTATAA-AA
27623450 ATTTAAAATATTATAAAA
1 ATTTAAAATATTATAAAA
27623468 ATT
1 ATT
27623471 ATTAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTTAAAATATTATAAAA
Found at i:27635439 original size:25 final size:25
Alignment explanation
Indices: 27635411--27635537 Score: 77
Period size: 25 Copynumber: 5.1 Consensus size: 25
27635401 TAGCTCTTTC
*
27635411 GAGCCATATAACGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAA
** **
27635436 GAGCTGTATATTGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* **
27635461 GAGCCATA-AATCAGGAAGCTCATGC
1 GAGCCATATAA-CGGGAAGCTCATAA
*
27635486 GAGCCA-ATTATCGGGAATG-TCA-AGA
1 GAGCCATA-TAACGGGAA-GCTCATA-A
*
27635511 AAG-CAT-TAATCGGGAAGCTCATAA
1 GAGCCATATAA-CGGGAAGCTCATAA
27635535 GAG
1 GAG
27635538 AGCTTTTAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
23 3 0.04
24 16 0.22
25 53 0.72
26 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:27635662 original size:24 final size:25
Alignment explanation
Indices: 27635586--27635664 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
27635576 GATGGTCCTT
* * *
27635586 AGAGCTAAATAACGAGAAGCTCGTG
1 AGAGCCAAATATCGAGAAGCTCATG
*
27635611 AGAGCCAAATATC-AGAAAGCTCAAG
1 AGAGCCAAATATCGAG-AAGCTCATG
* *
27635636 AGAGCC-AATGTCGAGATGCTCATG
1 AGAGCCAAATATCGAGAAGCTCATG
27635660 AGAGC
1 AGAGC
27635665 TAATAACGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (25 bp):
AGAGCCAAATATCGAGAAGCTCATG
Found at i:27641467 original size:40 final size:40
Alignment explanation
Indices: 27641423--27641501 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
27641413 ACAACTTGAC
* *
27641423 CCAAAATTTTAGAGAAATTGTGAAATTAACCTATTGGTAT
1 CCAAAATTTTAAAGAAATTGTAAAATTAACCTATTGGTAT
27641463 CCAAAATTTTAAAGAAATTGTAAAATTAACCTATTGGTA
1 CCAAAATTTTAAAGAAATTGTAAAATTAACCTATTGGTA
27641502 ATTTTTGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (40 bp):
CCAAAATTTTAAAGAAATTGTAAAATTAACCTATTGGTAT
Found at i:27644781 original size:116 final size:116
Alignment explanation
Indices: 27644577--27644812 Score: 463
Period size: 116 Copynumber: 2.0 Consensus size: 116
27644567 TTTAAAAGGG
27644577 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
27644642 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
27644693 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
*
27644758 CTGCAAATCTCATACAACTAAATGTAATACTAGTCATTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
27644809 AATT
1 AATT
27644813 CTTTTCTCGG
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (116 bp):
AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
Found at i:27646599 original size:31 final size:31
Alignment explanation
Indices: 27646558--27646619 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
27646548 TACCCGTTAT
*
27646558 AGAGAGAATATGTTCAAAAATAGAAAGAAAG
1 AGAGAGAATATGTTCAAAAATAAAAAGAAAG
*
27646589 AGAGATAATATGTTCAAAAATAAAAAGAAAG
1 AGAGAGAATATGTTCAAAAATAAAAAGAAAG
27646620 TAATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.60, C:0.03, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAGAGAATATGTTCAAAAATAAAAAGAAAG
Found at i:27646792 original size:32 final size:31
Alignment explanation
Indices: 27646740--27646814 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 31
27646730 TAACAAGTTC
* * *
27646740 AATTAATTTATATGAGTTATTTAATTTAATT
1 AATTAATTTATATGAGTTATTAAATTAAAGT
27646771 AATTAATTTATCATGAGTTATTAAATTAAAGT
1 AATTAATTTAT-ATGAGTTATTAAATTAAAGT
*
27646803 AATCAATTTATA
1 AATTAATTTATA
27646815 AATTTATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 12 0.31
32 27 0.69
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (31 bp):
AATTAATTTATATGAGTTATTAAATTAAAGT
Found at i:27646793 original size:18 final size:17
Alignment explanation
Indices: 27646741--27646794 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
27646731 AACAAGTTCA
27646741 ATTAATTTATATGAGTT
1 ATTAATTTATATGAGTT
*
27646758 ATTTAATTTA-AT---TA
1 A-TTAATTTATATGAGTT
27646772 ATTAATTTATCATGAGTT
1 ATTAATTTAT-ATGAGTT
27646790 ATTAA
1 ATTAA
27646795 ATTAAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 2 0.07
17 3 0.10
18 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
ATTAATTTATATGAGTT
Found at i:27650730 original size:49 final size:48
Alignment explanation
Indices: 27650651--27650819 Score: 148
Period size: 49 Copynumber: 3.5 Consensus size: 48
27650641 AAAAAGTGAT
* * *
27650651 ATGGGCCACTGGTAAGGCATGTCAGCTGCTAACAAGAATGGCGGATGAG
1 ATGGGCCACTGGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGAT-AG
* * *
27650700 ATGGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGACTGACGGATA-
1 ATGGGCCACTGGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATAG
** ** *
27650747 A-GAGATCACTAATAGGGCGTGTTAGTTGCTAA-ACAGAATGGCGGATATG
1 ATG-GGCCACTGGTAGGGCATGTTAGTTGCTAACA-AGAATGGCGGATA-G
* *
27650796 -TCGGGTCACTGGGAGGGCATGTTA
1 AT-GGGCCACTGGTAGGGCATGTTA
27650820 TTTGTTAAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
46 1 0.01
47 36 0.38
48 1 0.01
49 56 0.59
50 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.22
Consensus pattern (48 bp):
ATGGGCCACTGGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATAG
Found at i:27652058 original size:27 final size:26
Alignment explanation
Indices: 27652019--27652079 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
27652009 TCTTTGTATT
* *
27652019 TTTGAAAACATTTTATTTTTCTCAATA
1 TTTGAAAACA-TTTAGTTTTCTCAACA
* *
27652046 TTTGAGAATATTTAGTTTTCTCAACA
1 TTTGAAAACATTTAGTTTTCTCAACA
27652072 TTTGAAAA
1 TTTGAAAA
27652080 TTAGAGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTGAAAACATTTAGTTTTCTCAACA
Found at i:27653928 original size:25 final size:25
Alignment explanation
Indices: 27653900--27653982 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
27653890 GGACACACCA
* *
27653900 CAGCTCGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGTTTACTGATTCT
27653924 GCAGCTCGTGA-GAGTTTACTGATTCT
1 -CAGCTCGT-ATGAGTTTACTGATTCT
*
27653950 CAGCTCGTATGAGTTTACTGATTCA
1 CAGCTCGTATGAGTTTACTGATTCT
*
27653975 CAACTCGT
1 CAGCTCGT
27653983 GAGAGCATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTACTGATTCT
Found at i:27653998 original size:50 final size:51
Alignment explanation
Indices: 27653900--27654013 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 51
27653890 GGACACACCA
* ** * **
27653900 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGTTTACTGATTC-T
1 CAGCTCGTATGAGTTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
*
27653950 CAGCTCGTATGAGTTTACTGATTCACAACTCGTGAGAGCATA-TCGATTCAT
1 CAGCTCGTATGAGTTTACCGATTCACAACTCGTGAGAGCATACT-GATTCAT
*
27654001 -AGCTTGTATGAGT
1 CAGCTCGTATGAGT
27654014 ATACATGTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 52 0.96
51 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (51 bp):
CAGCTCGTATGAGTTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
Found at i:27654204 original size:30 final size:30
Alignment explanation
Indices: 27654165--27654226 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
27654155 TACATGGAAT
27654165 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
27654196 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
27654225 AC
1 AC
27654227 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:27655735 original size:63 final size:63
Alignment explanation
Indices: 27655633--27655828 Score: 347
Period size: 63 Copynumber: 3.1 Consensus size: 63
27655623 TTTTTAAAAG
* * * **
27655633 CACTTCTCAAAAGCAATGCTAAACTAGCCCTAAATATATTGACTAGAGAATACTCTCATAGCT
1 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
27655696 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
1 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
27655759 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
1 CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
27655822 CACTTCT
1 CACTTCT
27655829 TTGCTATTTT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 128 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (63 bp):
CACTTCTCAAAGGTAACGCTAAACTAGCCCTAAGCATATTGACTAGAGAATACTCTCATAGCT
Found at i:27655906 original size:67 final size:67
Alignment explanation
Indices: 27655796--27655993 Score: 281
Period size: 67 Copynumber: 2.9 Consensus size: 67
27655786 CCCTAAGCAT
* * *
27655796 ATTGACTAGAGAATACTCTCATAGCTCACTTCTTTGCTATTTTCATTAAAAAGTTAATTTTAATC
1 ATTGATTAGAGAATACTC-CA-AACTCACTTCTTTACTATTTTCATTAAAAAGTTAATTTTAATC
27655861 CCAC
64 CCAC
* * *
27655865 ATTGATTAGAGAATACTCCACACTCACTTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCTC
1 ATTGATTAGAGAATACTCCAAACTCACTTCTTTACTATTTTCATTAAAAAGTTAATTTTAATCCC
27655930 AC
66 AC
* * *
27655932 ATCGATTAAAGAATACTCCATAACTCACTTCTTTACTATTTTCATTAAAAA-ATAATTTTAAT
1 ATTGATTAGAGAATACTCCA-AACTCACTTCTTTACTATTTTCATTAAAAAGTTAATTTTAAT
27655994 AATATAAAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
67 70 0.60
68 30 0.26
69 17 0.15
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (67 bp):
ATTGATTAGAGAATACTCCAAACTCACTTCTTTACTATTTTCATTAAAAAGTTAATTTTAATCCC
AC
Found at i:27656334 original size:72 final size:71
Alignment explanation
Indices: 27656226--27656365 Score: 174
Period size: 72 Copynumber: 2.0 Consensus size: 71
27656216 CATTAAAATT
* * * * * * *
27656226 TTAATTTTAATCTTATGTTGACTAGAGAATATTTTCATACCTCA-TTTTTGTCACTATTTACATT
1 TTAATTTTAATCCTATATTGACTAAAGAAAAATTTCATAACTCACTTCTT-T-ACTATTTACATT
27656290 AAAAAAAG
64 AAAAAAAG
* *
27656298 TTAATTTTATTCCTATATTGACTAAAGAAAAATTTCATAACTCACTTCTTTACTATTTCCATTAA
1 TTAATTTTAATCCTATATTGACTAAAGAAAAATTTCATAACTCACTTCTTTACTATTTACATTAA
27656363 AAA
66 AAA
27656366 TTAATTTTGC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
71 16 0.28
72 38 0.66
73 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (71 bp):
TTAATTTTAATCCTATATTGACTAAAGAAAAATTTCATAACTCACTTCTTTACTATTTACATTAA
AAAAAG
Found at i:27656835 original size:12 final size:12
Alignment explanation
Indices: 27656820--27656845 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27656810 GTTGTTTTAT
27656820 TATTATAATCAA
1 TATTATAATCAA
27656832 TATTATAATCAA
1 TATTATAATCAA
27656844 TA
1 TA
27656846 GTATCATCTG
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTATAATCAA
Found at i:27656901 original size:15 final size:16
Alignment explanation
Indices: 27656874--27656903 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27656864 AAATTATTTA
27656874 AATTTACTTATTAAAT
1 AATTTACTTATTAAAT
27656890 AATTTA-TTATTAAA
1 AATTTACTTATTAAA
27656904 CTTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTACTTATTAAAT
Found at i:27657055 original size:19 final size:18
Alignment explanation
Indices: 27657001--27657056 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
27656991 TAGTTTTGTA
27657001 ATAATTTTCTAAT-ATTTT
1 ATAATTTT-TAATCATTTT
*
27657019 ATAA-ATTTATATCAATTTT
1 ATAATTTTTA-ATC-ATTTT
27657038 CATAATTTTTAATCATTTT
1 -ATAATTTTTAATCATTTT
27657057 TATGGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.06
17 4 0.13
18 4 0.13
19 10 0.32
20 7 0.23
21 4 0.13
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTTTAATCATTTT
Found at i:27663658 original size:172 final size:176
Alignment explanation
Indices: 27663364--27663699 Score: 513
Period size: 172 Copynumber: 1.9 Consensus size: 176
27663354 AATTTGTATG
*
27663364 CTAACATTAAATTATTTTGAGGTATTGTTGTTTTGGATTATGCAACATCCAAGCTATTTTCAATA
1 CTAACATTAAATAATTTTGAGGTATTGTTGTTTTGGATTATGCAACA-CC-AGCTATTTTCAATA
* * *
27663429 TCTTCTATTCACACTTGACTTTTTAGGCACTATTAGTTTGTTGATAATCCAACACTGAAGGGCTG
64 TCTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCAACACTGAAGGGCTG
*
27663494 TTATCTCATATTCCAGGAATATCATGGCATCATTCAGTAATTTATAAA
129 TTATCTCACATTCCAGGAATATCATGGCATCATTCAGTAATTTATAAA
* * *
27663542 CTAA-ATTAAATAATTTTGAGGTATTGTTGTTTCTGGATTGTGC-A-A-C-GCTGTTTTCAGTAT
1 CTAACATTAAATAATTTTGAGGTATTGTTGTTT-TGGATTATGCAACACCAGCTATTTTCAATAT
27663602 CTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATACC-ACACTGAAGGGCTG
65 CTTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAAT-CCAACACTGAAGGGCTG
*
27663666 TTATCTCACATTCCAGGAATATCTTGGCATCATT
129 TTATCTCACATTCCAGGAATATCATGGCATCATT
27663700 TCGGCATAGT
Statistics
Matches: 147, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
172 102 0.69
173 2 0.01
174 1 0.01
176 1 0.01
177 28 0.19
178 13 0.09
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (176 bp):
CTAACATTAAATAATTTTGAGGTATTGTTGTTTTGGATTATGCAACACCAGCTATTTTCAATATC
TTCTATGCACACTTGACCTTTTAGGCACTATTAGTTGGTTGATAATCCAACACTGAAGGGCTGTT
ATCTCACATTCCAGGAATATCATGGCATCATTCAGTAATTTATAAA
Found at i:27669370 original size:62 final size:62
Alignment explanation
Indices: 27669294--27669471 Score: 347
Period size: 62 Copynumber: 2.9 Consensus size: 62
27669284 TCACGCTTCG
27669294 TAGCTTAATTTAATCTTTACAAAATGTGAGGGGCAACTCTGTAAGTATTGGGTCACATTTCA
1 TAGCTTAATTTAATCTTTACAAAATGTGAGGGGCAACTCTGTAAGTATTGGGTCACATTTCA
27669356 TAGCTTAATTTAATCTTTACAAAATGTGAGGGGCAACTCTGTAAGTATTGGGTCACATTTCA
1 TAGCTTAATTTAATCTTTACAAAATGTGAGGGGCAACTCTGTAAGTATTGGGTCACATTTCA
27669418 TAGCTTAATTTAATCTTTACAAAATGTGAGGGGACAACTCTGTAAGTATTGGGT
1 TAGCTTAATTTAATCTTTACAAAATGTGAGGGG-CAACTCTGTAAGTATTGGGT
27669472 TGAATGGTAA
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 95 0.83
63 20 0.17
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (62 bp):
TAGCTTAATTTAATCTTTACAAAATGTGAGGGGCAACTCTGTAAGTATTGGGTCACATTTCA
Found at i:27674142 original size:30 final size:29
Alignment explanation
Indices: 27674075--27674146 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
27674065 TCAATTTGAT
* * *
27674075 AAATTTTAGTTTTTGTATTTTTTGAATTA
1 AAATTTTAATTTTTATATTTTTTAAATTA
*
27674104 ATTTATTTTAATTTTTATATTTTTTAAATTTA
1 A--AATTTTAATTTTTATATTTTTTAAA-TTA
27674136 AAATTTTAATT
1 AAATTTTAATT
27674147 CTAACTAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 9 0.26
31 21 0.60
32 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (29 bp):
AAATTTTAATTTTTATATTTTTTAAATTA
Found at i:27674891 original size:5 final size:5
Alignment explanation
Indices: 27674881--27674920 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
27674871 TGAGTTGACT
27674881 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
27674921 GTGGTTCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:27675527 original size:19 final size:19
Alignment explanation
Indices: 27675505--27675566 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
27675495 TTTATGTTAT
27675505 AAATTATAAATTACTTCAA
1 AAATTATAAATTACTTCAA
* *
27675524 AAATTATAAA-TAATGTCAT
1 AAATTATAAATTACT-TCAA
27675543 AAATTATAAATTACTTCAA
1 AAATTATAAATTACTTCAA
*
27675562 TAATT
1 AAATT
27675567 TTATAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTATAAATTACTTCAA
Found at i:27675546 original size:38 final size:40
Alignment explanation
Indices: 27675498--27675576 Score: 126
Period size: 38 Copynumber: 2.0 Consensus size: 40
27675488 TCAATAATTT
*
27675498 ATGTTATAAATTATAAATTACTTCAA-AA-ATTATAAATA
1 ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
*
27675536 ATGTCATAAATTATAAATTACTTCAATAATTTTATAAATA
1 ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
27675576 A
1 A
27675577 AAATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 25 0.68
39 2 0.05
40 10 0.27
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (40 bp):
ATGTCATAAATTATAAATTACTTCAATAATATTATAAATA
Found at i:27675645 original size:26 final size:25
Alignment explanation
Indices: 27675571--27675650 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
27675561 ATAATTTTAT
* *
27675571 AAATAAAAATTATATTGATAAATTAA
1 AAATAAAACTTAAATT-ATAAATTAA
* *
27675597 AATATTAAACTTATATTATAAATTAA
1 AA-ATAAAACTTAAATTATAAATTAA
* * *
27675623 AAATAAAATTTAAATTTTAAAATAA
1 AAATAAAACTTAAATTATAAATTAA
27675648 AAA
1 AAA
27675651 ATTATTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
25 21 0.46
26 13 0.28
27 12 0.26
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
AAATAAAACTTAAATTATAAATTAA
Found at i:27675904 original size:20 final size:20
Alignment explanation
Indices: 27675879--27675917 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27675869 AATAATTATT
27675879 AAATATAATTTAATAAAATA
1 AAATATAATTTAATAAAATA
27675899 AAATATAATTTAATAAAAT
1 AAATATAATTTAATAAAAT
27675918 TCTTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATAATTTAATAAAATA
Done.