Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 220 of 313
Found at i:67695637 original size:30 final size:30
Alignment explanation
Indices: 67695603--67695709 Score: 97
Period size: 30 Copynumber: 3.6 Consensus size: 30
67695593 AATAGAAGAT
*
67695603 GATGACTATCGATTACGTCCAACAGAAGTC
1 GATGACTACCGATTACGTCCAACAGAAGTC
*** * *** *
67695633 GATGACTGTTGACTACGTCCGTTAGAAGCC
1 GATGACTACCGATTACGTCCAACAGAAGTC
* * *
67695663 GATGGCTACCGATTGCGTCCAACAAAAGTC
1 GATGACTACCGATTACGTCCAACAGAAGTC
*
67695693 GATGACTACCTATTACG
1 GATGACTACCGATTACG
67695710 CCTGATAGAA
Statistics
Matches: 56, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (30 bp):
GATGACTACCGATTACGTCCAACAGAAGTC
Found at i:67695729 original size:60 final size:60
Alignment explanation
Indices: 67695594--67695722 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
67695584 ACAGGGTGCA
** * * * **
67695594 ATAGAAGATGATGACTATCGATTACGTCCAACAGAAGTCGATGACTGTTGACTACGTCCG
1 ATAGAAGCCGATGGCTACCGATTACGTCCAACAAAAGTCGATGACTCCTGACTACGTCCG
* * *
67695654 TTAGAAGCCGATGGCTACCGATTGCGTCCAACAAAAGTCGATGACTACCT-ATTACG-CCTG
1 ATAGAAGCCGATGGCTACCGATTACGTCCAACAAAAGTCGATGACT-CCTGACTACGTCC-G
67695714 ATAGAAGCC
1 ATAGAAGCC
67695723 ATTGGCTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
59 2 0.04
60 53 0.95
61 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (60 bp):
ATAGAAGCCGATGGCTACCGATTACGTCCAACAAAAGTCGATGACTCCTGACTACGTCCG
Found at i:67695933 original size:13 final size:13
Alignment explanation
Indices: 67695915--67695939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67695905 TTCCAAAAAA
67695915 TGCCGCTAAGAAG
1 TGCCGCTAAGAAG
67695928 TGCCGCTAAGAA
1 TGCCGCTAAGAA
67695940 TGATCATTAG
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:0.32, C:0.24, G:0.28, T:0.16
Consensus pattern (13 bp):
TGCCGCTAAGAAG
Found at i:67696085 original size:41 final size:41
Alignment explanation
Indices: 67696018--67696212 Score: 300
Period size: 41 Copynumber: 4.8 Consensus size: 41
67696008 CTTTCGGGGT
* **
67696018 TTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGAAA
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
* * * *
67696059 TTTAGCAGCGTTTTTGAAAAATCGCCGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
*
67696100 TTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
*
67696141 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
*
67696182 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
67696213 AACATTTTAT
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 139 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
Found at i:67696820 original size:7 final size:7
Alignment explanation
Indices: 67696808--67696842 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
67696798 TCCGGGTTAA
67696808 GGTTTAG
1 GGTTTAG
67696815 GGTTTAG
1 GGTTTAG
67696822 GGTTTAG
1 GGTTTAG
67696829 GGTTTAG
1 GGTTTAG
67696836 GGTTTAG
1 GGTTTAG
67696843 ATAAATTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:67697042 original size:7 final size:7
Alignment explanation
Indices: 67697030--67697072 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
67697020 ATTATAAAAG
67697030 AGGGGTT
1 AGGGGTT
67697037 AGGGGTT
1 AGGGGTT
*
67697044 AGAGGTT
1 AGGGGTT
* *
67697051 AAGGATT
1 AGGGGTT
67697058 AGGGGTT
1 AGGGGTT
*
67697065 AAGGGTT
1 AGGGGTT
67697072 A
1 A
67697073 TGGATAGGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:67702000 original size:25 final size:25
Alignment explanation
Indices: 67701950--67702006 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
67701940 CAAAATTTCC
* * *
67701950 TTGATTAAGTAAATGTATTATTTAT
1 TTGATTAAGAAAATGCATTATATAT
*
67701975 TTGATTAAGAAAATGCATTGTATAT
1 TTGATTAAGAAAATGCATTATATAT
*
67702000 TTTATTA
1 TTGATTA
67702007 CCTTGCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (25 bp):
TTGATTAAGAAAATGCATTATATAT
Found at i:67702350 original size:43 final size:42
Alignment explanation
Indices: 67702280--67702625 Score: 249
Period size: 43 Copynumber: 8.1 Consensus size: 42
67702270 TTTTAGTGGT
* * *
67702280 GTTTGTGTG-AAAAGCGCCGTTAAAGGTCTGTTCTATAGTGGC
1 GTTTGTG-GAAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGC
* **
67702322 GTTTGTGGGAAAAAGCGCCGCTAAAGGTCTTTATCTATAGCATC
1 GTTTGT-GGAAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGC
* * *
67702366 GTTTGTGGAACAAA-CGTCGCTAAAAGTCTTGTTCTATAGCGGC
1 GTTTGTGGAA-AAAGCGCCGCTAAAGGTC-TGATCTATAGCGGC
* **
67702409 ATTT-TGTGAAAAAGCATCGCTAAAGGTCCTGATCTATAGCGGC
1 GTTTGTG-GAAAAAGCGCCGCTAAAGGT-CTGATCTATAGCGGC
*** * * **
67702452 GTTTTGTGTG--GTTGTGCCGCTAAAGGTCCTAATCTATAGCAAC
1 G-TTTGTG-GAAAAAGCGCCGCTAAAGGT-CTGATCTATAGCGGC
* *
67702495 GTTTGT-GAAAAAGCGCCGTTAAAGGTCCTAATCTATAGCGGC
1 GTTTGTGGAAAAAGCGCCGCTAAAGGT-CTGATCTATAGCGGC
* * * *
67702537 GTTTGTGG-AAAAGCGTCGCTAAAAGTCTTTATTTATAGCGGC
1 GTTTGTGGAAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGC
* * * *
67702579 ATTT-TCGAAAAATGCGTCGCTAAAGGTCATGATCTATAGCGGA
1 GTTTGTGGAAAAA-GCGCCGCTAAAGGTC-TGATCTATAGCGGC
67702622 GTTT
1 GTTT
67702626 TTGCGGTGCT
Statistics
Matches: 243, Mismatches: 46, Indels: 29
0.76 0.14 0.09
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 83 0.34
43 130 0.53
44 22 0.09
45 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTTTGTGGAAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGC
Found at i:67702603 original size:85 final size:83
Alignment explanation
Indices: 67702280--67702625 Score: 284
Period size: 86 Copynumber: 4.0 Consensus size: 83
67702270 TTTTAGTGGT
* * * * * *
67702280 GTTTGTGTGAAAAGCGCCGTTAAAGGTCTGT-TCTATAGTGGCGTTTGTGGGAAAAAGCGCCGCT
1 GTTTGTG-GAAAAGCGTCGCTAAAAGTCTTTATCTATAGCGGCATTT-T--GAAAAAGCGCCGCT
* * **
67702344 AAAGGTCTTTATCTATAGCATC
62 AAAGGTCCTGATCTATAGCGGC
* **
67702366 GTTTGTGGAACAAACGTCGCTAAAAGTCTTGT-TCTATAGCGGCATTTTGTGAAAAAGCATCGCT
1 GTTTGTGGAA-AAGCGTCGCTAAAAGTCTT-TATCTATAGCGGCA-TTT-TGAAAAAGCGCCGCT
67702430 AAAGGTCCTGATCTATAGCGGC
62 AAAGGTCCTGATCTATAGCGGC
*** * * * * * ** * *
67702452 GTTTTGTGTG-GTTGTGCCGCTAAAGGTCCTAATCTATAGCAACGTTTGTGAAAAAGCGCCGTTA
1 G-TTTGTG-GAAAAGCGTCGCTAAAAGTCTTTATCTATAGCGGCATTT-TGAAAAAGCGCCGCTA
*
67702516 AAGGTCCTAATCTATAGCGGC
63 AAGGTCCTGATCTATAGCGGC
* *
67702537 GTTTGTGGAAAAGCGTCGCTAAAAGTCTTTATTTATAGCGGCATTTTCGAAAAATGCGTCGCTAA
1 GTTTGTGGAAAAGCGTCGCTAAAAGTCTTTATCTATAGCGGCATTTT-GAAAAA-GCGCCGCTAA
* *
67702602 AGGTCATGATCTATAGCGGA
64 AGGTCCTGATCTATAGCGGC
67702622 GTTT
1 GTTT
67702626 TTGCGGTGCT
Statistics
Matches: 205, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
83 2 0.01
84 37 0.18
85 70 0.34
86 73 0.36
87 17 0.08
88 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (83 bp):
GTTTGTGGAAAAGCGTCGCTAAAAGTCTTTATCTATAGCGGCATTTTGAAAAAGCGCCGCTAAAG
GTCCTGATCTATAGCGGC
Found at i:67704830 original size:46 final size:46
Alignment explanation
Indices: 67704778--67704872 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
67704768 TGACTTCCTG
* *
67704778 AATTGCTTGGAAATGATGTGTTTATATGACTATTGAAATGTTAACT
1 AATTGCTTAGAAATGATGTGTTTATACGACTATTGAAATGTTAACT
67704824 AATTGCTTAGAAATGATGTGTTTATACGACTATTGAAATGTTAACT
1 AATTGCTTAGAAATGATGTGTTTATACGACTATTGAAATGTTAACT
67704870 AAT
1 AAT
67704873 GAAATTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (46 bp):
AATTGCTTAGAAATGATGTGTTTATACGACTATTGAAATGTTAACT
Found at i:67706730 original size:30 final size:30
Alignment explanation
Indices: 67706694--67706751 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
67706684 AAAATGGACA
*
67706694 TAATTCTACCGTCTTATTGATTGCGTGTAC
1 TAATTCTACCGTCTCATTGATTGCGTGTAC
*
67706724 TAATTCTACCGTCTCATTGATTGTGTGT
1 TAATTCTACCGTCTCATTGATTGCGTGT
67706752 GCTACTCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (30 bp):
TAATTCTACCGTCTCATTGATTGCGTGTAC
Found at i:67715350 original size:22 final size:24
Alignment explanation
Indices: 67715305--67715363 Score: 86
Period size: 22 Copynumber: 2.5 Consensus size: 24
67715295 GGTGCACACT
67715305 CGTATGAGAGCCCTTTGTATGGGA
1 CGTATGAGAGCCCTTTGTATGGGA
*
67715329 CGTATAAGAGCCC-TT-TATGGGA
1 CGTATGAGAGCCCTTTGTATGGGA
*
67715351 CGTTTGAGAGCCC
1 CGTATGAGAGCCC
67715364 CTCGGGGGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 18 0.56
23 2 0.06
24 12 0.38
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (24 bp):
CGTATGAGAGCCCTTTGTATGGGA
Found at i:67719060 original size:18 final size:20
Alignment explanation
Indices: 67719026--67719063 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
67719016 TTTCATATAG
67719026 CTTTCTCTTCATGCTTTCCT
1 CTTTCTCTTCATGCTTTCCT
67719046 CTTTCT-TTCAT-CTTTCCT
1 CTTTCTCTTCATGCTTTCCT
67719064 TTGTATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.05, C:0.34, G:0.03, T:0.58
Consensus pattern (20 bp):
CTTTCTCTTCATGCTTTCCT
Found at i:67719300 original size:54 final size:54
Alignment explanation
Indices: 67719196--67719302 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
67719186 GTGGTTCTCT
* * *
67719196 TATCCTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGGTCTTCG
1 TATCCCCATACGATGCCATAGTCCTAGACTAGGTCTTACACTAGATGGTCTTCG
67719250 TATCCCCATACGATGCCATAGTCCTAGACTAGGTCTTACACTACGA-GGTCTTC
1 TATCCCCATACGATGCCATAGTCCTAGACTAGGTCTTACACTA-GATGGTCTTC
67719303 TTACCGTGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (54 bp):
TATCCCCATACGATGCCATAGTCCTAGACTAGGTCTTACACTAGATGGTCTTCG
Found at i:67724930 original size:42 final size:43
Alignment explanation
Indices: 67724869--67724954 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
67724859 ACGTGTTATA
* * * *
67724869 ATATATCGATGCCATTGTCCCAGGCAAGGTCTTATATGAAATC
1 ATATATCGATGCCAATGTCCCAGACAAGCTCTTACATGAAATC
*
67724912 ATATA-CGATGCCAATGTCCCAGACATGCTCTTACATGAAATC
1 ATATATCGATGCCAATGTCCCAGACAAGCTCTTACATGAAATC
67724954 A
1 A
67724955 CTCCTCGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 33 0.87
43 5 0.13
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATATATCGATGCCAATGTCCCAGACAAGCTCTTACATGAAATC
Found at i:67735228 original size:25 final size:25
Alignment explanation
Indices: 67735183--67735288 Score: 85
Period size: 25 Copynumber: 4.3 Consensus size: 25
67735173 TTTTAGCTTT
*
67735183 TATGAGCTTACCTA-TACTCAGCTCG
1 TATGAGCTTA-CTATTATTCAGCTCG
*
67735208 TATGAGCTTACTATTATTCAGCTTAG
1 TATGAGCTTACTATTATTCAGC-TCG
* **
67735234 -AGGAGCTTACCGTTATTCAGCTCG
1 TATGAGCTTACTATTATTCAGCTCG
* * *
67735258 AAGGAGCTTA-AATT-TTACAGCTCG
1 TATGAGCTTACTATTATT-CAGCTCG
67735282 TATGAGC
1 TATGAGC
67735289 ATACATGTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.03
24 19 0.28
25 44 0.66
26 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (25 bp):
TATGAGCTTACTATTATTCAGCTCG
Found at i:67739312 original size:23 final size:23
Alignment explanation
Indices: 67739268--67739313 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
67739258 TAATATTAGT
* *
67739268 TAATCTTAGTTACATTTGATTAA
1 TAATCTTAGTTACATCTAATTAA
67739291 TAATCTTAGTTA-ATCCTAATTAA
1 TAATCTTAGTTACAT-CTAATTAA
67739314 ATTGAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (23 bp):
TAATCTTAGTTACATCTAATTAA
Found at i:67740386 original size:30 final size:30
Alignment explanation
Indices: 67740329--67740390 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
67740319 ACCACCAAAT
* *
67740329 CCACCACCTGAAGCAACCCCAGAAAACCCA
1 CCACCACCTGAACCAACACCAGAAAACCCA
*
67740359 CCACCACCTGAACCCAA-ACCAGCAAACCCA
1 CCACCACCTGAA-CCAACACCAGAAAACCCA
67740389 CC
1 CC
67740391 TCCTGTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.39, C:0.50, G:0.08, T:0.03
Consensus pattern (30 bp):
CCACCACCTGAACCAACACCAGAAAACCCA
Found at i:67744025 original size:38 final size:38
Alignment explanation
Indices: 67743983--67744058 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
67743973 TATTTAGCCA
* *
67743983 GTTGTCTATATTTATCTAACATTTAGCATATTCAATGC
1 GTTGTATATATTTATCTAAAATTTAGCATATTCAATGC
67744021 GTTGTATATATTTATCTAAAATTTAGCATATTCAATGC
1 GTTGTATATATTTATCTAAAATTTAGCATATTCAATGC
67744059 TTATTTAGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (38 bp):
GTTGTATATATTTATCTAAAATTTAGCATATTCAATGC
Found at i:67747820 original size:74 final size:74
Alignment explanation
Indices: 67747732--67747882 Score: 203
Period size: 74 Copynumber: 2.0 Consensus size: 74
67747722 TGGTAAAAAC
* * * *
67747732 ATTTGAAAACAAATTCTAAGAATCTTTCAGCACAAAACACAAGATGACACAATCTTGTAGAAAAT
1 ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACAATATTGTAGAAAAT
67747797 GCCACACTA
66 GCCACACTA
* ** * * *
67747806 ATTTGAAAACAAATTATAAAAATCTTTCAGCATAAAGTATAAGATAACACTATATTGTCGAAAAT
1 ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACAATATTGTAGAAAAT
*
67747871 GCCACAGTA
66 GCCACACTA
67747880 ATT
1 ATT
67747883 ATGTCTACTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (74 bp):
ATTTGAAAACAAATTATAAAAATCTTTCAGCACAAAACACAAGATAACACAATATTGTAGAAAAT
GCCACACTA
Found at i:67751930 original size:59 final size:59
Alignment explanation
Indices: 67751835--67751951 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
67751825 CTCTTAATTA
* *
67751835 AAGAGTAACTTACTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGGTGCTACAGT
1 AAGAGTAACTTACTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAGT
* * *
67751894 AAGAGTACCTTATTAAGAAGGGAGCTGACACTGAAGAAATGAATATCAGCTGCCACAG
1 AAGAGTAACTTACTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAG
67751952 AAACTGCAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (59 bp):
AAGAGTAACTTACTAAGAAGGGAGCTGACACAGAAGAAATGAATATCAGCTGCCACAGT
Found at i:67757448 original size:31 final size:30
Alignment explanation
Indices: 67757410--67757482 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
67757400 CTATCCTAAG
* * *
67757410 CTTGTCCAAAAGTACCTAGTTTGTACTTG-AA
1 CTTGTCCAAAAGCACCTA-ATTGTAC-CGAAA
67757441 CTTGTCCAAAAAGCACCTAATTGTACCGAAA
1 CTTGTCC-AAAAGCACCTAATTGTACCGAAA
67757472 CTTGTCCAAAA
1 CTTGTCCAAAA
67757483 AGTATACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.14
31 22 0.59
32 10 0.27
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (30 bp):
CTTGTCCAAAAGCACCTAATTGTACCGAAA
Found at i:67757535 original size:20 final size:19
Alignment explanation
Indices: 67757485--67757531 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
67757475 GTCCAAAAAG
67757485 TATACTTTTTAAAATTAGTT
1 TATA-TTTTTAAAATTAGTT
*
67757505 TATATTTTTAAAA-TATTT
1 TATATTTTTAAAATTAGTT
*
67757523 TTTATTTTT
1 TATATTTTT
67757532 TTAATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATATTTTTAAAATTAGTT
Found at i:67758865 original size:41 final size:41
Alignment explanation
Indices: 67758795--67758947 Score: 206
Period size: 41 Copynumber: 3.7 Consensus size: 41
67758785 ACCAAAAATT
67758795 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAGTATTTTAAAAA
67758839 TATTTTAAAATTAAAAAAAATT-AAAAAAGTATTTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAGTA-TTTTAAAAA
* * *
67758880 -ATTTAAAAACTTTAAAAAAATTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAA-TTAAAAAAAATTAAAAAAAGTATTTTAAAAA
67758921 TATTTTAAAATT-AAAAAAA-TAAAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAA
67758948 TAAAAATATT
Statistics
Matches: 101, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
39 8 0.08
40 24 0.24
41 37 0.37
42 20 0.20
43 6 0.06
44 6 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:67760077 original size:15 final size:15
Alignment explanation
Indices: 67760057--67760087 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67760047 TTTGAATAGT
*
67760057 TAAAAGAATTTTTAC
1 TAAAAGAACTTTTAC
67760072 TAAAAGAACTTTTAC
1 TAAAAGAACTTTTAC
67760087 T
1 T
67760088 TGATTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (15 bp):
TAAAAGAACTTTTAC
Found at i:67770501 original size:17 final size:17
Alignment explanation
Indices: 67770479--67770521 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
67770469 TCCATTATTG
*
67770479 AAAACATTATTGGTTAC
1 AAAACATTATTGATTAC
67770496 AAAACATTATTGATTAC
1 AAAACATTATTGATTAC
*
67770513 CAAAC-TTAT
1 AAAACATTAT
67770522 GAAATTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (17 bp):
AAAACATTATTGATTAC
Found at i:67776113 original size:23 final size:23
Alignment explanation
Indices: 67776087--67776140 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
67776077 CACAATGACT
*
67776087 ACATGCCAAGTTGGTCATTCAAA
1 ACATACCAAGTTGGTCATTCAAA
67776110 ACATACCAAGTTGGTCATTCAAA
1 ACATACCAAGTTGGTCATTCAAA
67776133 ACATACCA
1 ACATACCA
67776141 TCATTTGACC
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:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (23 bp):
ACATACCAAGTTGGTCATTCAAA
Found at i:67780447 original size:57 final size:58
Alignment explanation
Indices: 67780327--67780445 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 58
67780317 TTTCAAGTCT
*
67780327 TTTTCATTTTTCACTTTGGAGAAAACCACATTCATTTCCAAATGATTTTATTTCTCCA
1 TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGATTTTATTTCTCCA
* *
67780385 TTTTCA-TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCCTATTTCTCCA
1 TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGATTT--TATTTCTCCA
67780443 TTT
1 TTT
67780446 CACCATTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
56 3 0.05
57 34 0.61
58 19 0.34
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (58 bp):
TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGATTTTATTTCTCCA
Found at i:67782512 original size:28 final size:28
Alignment explanation
Indices: 67782466--67782521 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
67782456 AGTTGAGTTA
* * *
67782466 ACCACAGTTTATCCAATGATAATTTCCC
1 ACCACAGTTTAACCAATGACAATGTCCC
* *
67782494 ACCATAGTTTAACCGATGACAATGTCCC
1 ACCACAGTTTAACCAATGACAATGTCCC
67782522 TACATAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
ACCACAGTTTAACCAATGACAATGTCCC
Found at i:67786529 original size:18 final size:18
Alignment explanation
Indices: 67786508--67786557 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
67786498 AAGGTGCAGA
67786508 TGAGGAAGAAGATGCGAC
1 TGAGGAAGAAGATGCGAC
* *
67786526 TGAGGAATAAGATGCGAT
1 TGAGGAAGAAGATGCGAC
67786544 TGAGGAAGAAGATG
1 TGAGGAAGAAGATG
67786558 TAGGTGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.38, T:0.16
Consensus pattern (18 bp):
TGAGGAAGAAGATGCGAC
Found at i:67789612 original size:21 final size:23
Alignment explanation
Indices: 67789577--67789625 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
67789567 TCATCCGCCT
* *
67789577 ATTTATAACAAAAAATTATTTTA
1 ATTTATAACAAAAAATAATTTAA
67789600 ATTTAT-A-AAAAAATAATTTAA
1 ATTTATAACAAAAAATAATTTAA
67789621 ATTTA
1 ATTTA
67789626 ACTTAGTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 1 0.04
23 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTATAACAAAAAATAATTTAA
Found at i:67792095 original size:20 final size:20
Alignment explanation
Indices: 67792057--67792097 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
67792047 GATTTTTGTA
*
67792057 TCCTCCATAATAGACAGACT
1 TCCTCCATAATAGAAAGACT
* *
67792077 TCCTCCATATTGGAAAGACT
1 TCCTCCATAATAGAAAGACT
67792097 T
1 T
67792098 TAAAAGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (20 bp):
TCCTCCATAATAGAAAGACT
Found at i:67798597 original size:45 final size:45
Alignment explanation
Indices: 67798533--67798621 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
67798523 ATAAAGGCTA
* *
67798533 GTGTTGCATATACCACAATCGATGTAGAGGGATATGGTTGGTCGG
1 GTGTTGCATATACCACAATCAATGTAGAGGGATATGGTTCGTCGG
*
67798578 GTGTTGGATATACCACAATCAATGTAGAGGGATATGGTTCGTCG
1 GTGTTGCATATACCACAATCAATGTAGAGGGATATGGTTCGTCG
67798622 ATATAGAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.29
Consensus pattern (45 bp):
GTGTTGCATATACCACAATCAATGTAGAGGGATATGGTTCGTCGG
Found at i:67817686 original size:25 final size:25
Alignment explanation
Indices: 67817652--67817723 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
67817642 GGGATAGAGT
67817652 TGCTTACACGAGTTGTGAATATAAA
1 TGCTTACACGAGTTGTGAATATAAA
67817677 TGCTTACACGAGTTGTGAATATAAA
1 TGCTTACACGAGTTGTGAATATAAA
* * *
67817702 TACTCACACGAGCTGTGAATAT
1 TGCTTACACGAGTTGTGAATAT
67817724 GGCTCTGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (25 bp):
TGCTTACACGAGTTGTGAATATAAA
Found at i:67819050 original size:27 final size:28
Alignment explanation
Indices: 67819020--67819080 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
67819010 TGAGACTGGC
*
67819020 CTGCTGCTGGGTTG-CTGGGTAGGGCTA
1 CTGCTGCTGGGCTGACTGGGTAGGGCTA
* *
67819047 CTGCTGTTGGGCTGACTGGGTTGGGCTA
1 CTGCTGCTGGGCTGACTGGGTAGGGCTA
67819075 CTGCTG
1 CTGCTG
67819081 GAGTGGGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.07, C:0.20, G:0.43, T:0.31
Consensus pattern (28 bp):
CTGCTGCTGGGCTGACTGGGTAGGGCTA
Found at i:67819069 original size:14 final size:13
Alignment explanation
Indices: 67819034--67819077 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
67819024 TGCTGGGTTG
*
67819034 CTGGGTAGGGCTA
1 CTGGGTTGGGCTA
*
67819047 CTGCTGTTGGGCTGA
1 CTG-GGTTGGGCT-A
67819062 CTGGGTTGGGCTA
1 CTGGGTTGGGCTA
67819075 CTG
1 CTG
67819078 CTGGAGTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.27
14 15 0.58
15 4 0.15
ACGTcount: A:0.09, C:0.18, G:0.43, T:0.30
Consensus pattern (13 bp):
CTGGGTTGGGCTA
Found at i:67819130 original size:14 final size:14
Alignment explanation
Indices: 67819093--67819137 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
67819083 GTGGGTCTGT
*
67819093 TGTTGGGCTATTGC
1 TGTTGGGCTGTTGC
67819107 TGTTGGGCTGTTGC
1 TGTTGGGCTGTTGC
* *
67819121 TGTTGAGCTGCTGC
1 TGTTGGGCTGTTGC
67819135 TGT
1 TGT
67819138 GATTACAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.04, C:0.16, G:0.38, T:0.42
Consensus pattern (14 bp):
TGTTGGGCTGTTGC
Found at i:67819591 original size:74 final size:73
Alignment explanation
Indices: 67819435--67820879 Score: 1696
Period size: 74 Copynumber: 19.5 Consensus size: 73
67819425 GTAACTCGAA
* * *
67819435 GCTCAACTTACCTCTTGGATTATGAGTTGATATTTGAAAAAATAGAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG-AAAAAT--AAATTGAAAATACCTCGGCG
**
67819500 TGCGAATCGAG
63 TGCGACCCGAG
** ** * *
67819511 GCTCAACTCACCTCTCAAATTATTTGTTGATTTTTCAAAAATATAATTGAAAATACCTCGGTGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATA-AATTGAAAATACCTCGGCGTG
*
67819576 CGACCCGAA
65 CGACCCGAG
* * * **
67819585 GCTCAACTCACCTCTCAGATTATGAGTTGATTTTTGAAAAACGAAATTAAAAATACCTCAACGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAA-TAAATTGAAAATACCTCGGCGTG
*
67819650 CGACCGGAG
65 CGACCCGAG
* * * *
67819659 GCTCAACTCACCTCTCGAATTATGAGTTGAATTTTGAAAAATGAATTTGAAAATACCTCGACGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAT-AAATTGAAAATACCTCGGCGTG
*
67819724 CAACCCGAG
65 CGACCCGAG
* * *
67819733 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAGTGT
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG--AAAAATAAATTGAAAATACCTCGGCGT
67819798 GCGACCCGAG
64 GCGACCCGAG
* * **
67819808 GCTCAACTCACCTCTCGGATTATAAGTTGATTTTTGAATAACA-AAACTGAAAATACCTTAGCGT
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAA-AA-ATAAATTGAAAATACCTCGGCGT
* *
67819872 CCGACTCGAG
64 GCGACCCGAG
* * *
67819882 GCTCAACTCACCTCTCGGATTATGAGTTGAATTTTGAAAAAGGAAATTGAAAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAA-TAAATTGAAAATACCTCGGCGTG
67819947 CGACCCGAG
65 CGACCCGAG
* *
67819956 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAA-AAACTGAAAATACCTCAGCGT-C
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAAATTGAAAATACCTCGGCGTGC
* *
67820019 TGACTCGGG
66 -GACCCGAG
* * * * *
67820028 GCTCGACTCACCTCTCAGATTATGAGTTGAATTTTGAAAAAAGAAATTGAAAATACCTCAGCGT-
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG-AAAAATAAATTGAAAATACCTCGGCGTG
* *
67820092 CTGACTCGGG
65 C-GACCCGAG
* * * * *
67820102 GCTCGACTCACCTCTCAGATTATGAGTTGAATTTTGAAAAAAGAAATTGAAAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTG-AAAAATAAATTGAAAATACCTCGGCGTG
67820167 CGACCCGAG
65 CGACCCGAG
*
67820176 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAGAACA-AAATTGAAAATACCTCGGTGT
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAA-AA-ATAAATTGAAAATACCTCGGCGT
* *
67820240 GCGACCCAAA
64 GCGACCCGAG
* * * * * *
67820250 GATCAATTCAGCTCTCAGATTATGAGTTGATTTTTGAAAAATGAAATTGAAAATACCTCAGCATG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAT-AAATTGAAAATACCTCGGCGTG
*
67820315 CGACCCAAG
65 CGACCCGAG
* ** * * * *
67820324 GCTCAACTCACCTTTTAGATTATGAGTTGGTTTTTGAAAAATGAAATTGAAAATACCTTGGCATA
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAT-AAATTGAAAATACCTCGGCGTG
*
67820389 CGACCCGAT
65 CGACCCGAG
* * * *
67820398 GCTCAACTTACCTCTCGGATTATGAGTTGATTTTTGAAAAAGAAAATTGAAAATACCTCAGCATG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAA-TAAATTGAAAATACCTCGGCGTG
67820463 CGACCCGAG
65 CGACCCGAG
* *
67820472 GCTCAACTCACCTCTCAGATTATGAGTTGATTTTTGAAAAATGAAATTGAAAATACCTCGGCGTA
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAT-AAATTGAAAATACCTCGGCGTG
**
67820537 CGACTTGAG
65 CGACCCGAG
* * *
67820546 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTTTGAAAAACGAAATTGAGAATACCTCGGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGA--TTTTTGAAAAA-TAAATTGAAAATACCTCGGCG
* *
67820611 TGTGACCTGAG
63 TGCGACCCGAG
* * * * *
67820622 GGTCAACTCACCTCTTGAATTATGAGTTGATTTTTGAAAAACGAAATTGAAAATACCTTGGCGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAA-TAAATTGAAAATACCTCGGCGTG
* * *
67820687 CGGCACAAG
65 CGACCCGAG
** *
67820696 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTTTTAAAA-AAATTGAGAATACCTCGGCGTG
1 GCTCAACTCACCTCTCGGATTATGAGTTGA-TTTTTGAAAAATAAATTGAAAATACCTCGGCGTG
67820760 CGACCCGAG
65 CGACCCGAG
* * * * *
67820769 GCTCAACTCACCTCTCAGATTATGTGTTGATTTTTTTGAAAAATGAAATTGACAATACCTCGACA
1 GCTCAACTCACCTCTCGGATTATGAGTTGA--TTTTTGAAAAAT-AAATTGAAAATACCTCGGCG
67820834 TGCGACCCGAG
63 TGCGACCCGAG
*
67820845 GTTCAACTCACCTCTCGGATTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTT
67820880 TTAAAACAGA
Statistics
Matches: 1199, Mismatches: 144, Indels: 54
0.86 0.10 0.04
Matches are distributed among these distances:
71 1 0.00
72 61 0.05
73 68 0.06
74 837 0.70
75 80 0.07
76 152 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAATAAATTGAAAATACCTCGGCGTGC
GACCCGAG
Found at i:67821987 original size:23 final size:23
Alignment explanation
Indices: 67821961--67822009 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
67821951 GGCTCAGCCG
* *
67821961 GAGGTAGAGTCTAGCGGTCGGAA
1 GAGGTAGAGTCCAGCGGCCGGAA
*
67821984 GAGGTAGGGTCCAGCGGCCGGAA
1 GAGGTAGAGTCCAGCGGCCGGAA
67822007 GAG
1 GAG
67822010 CACCGCACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.47, T:0.12
Consensus pattern (23 bp):
GAGGTAGAGTCCAGCGGCCGGAA
Found at i:67826318 original size:18 final size:18
Alignment explanation
Indices: 67826290--67826334 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
67826280 CGTTCGTTTC
*
67826290 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
67826307 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
67826326 CAAAACGTT
1 CAAAACGTT
67826335 TTTTTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:67833274 original size:10 final size:10
Alignment explanation
Indices: 67833261--67833320 Score: 81
Period size: 10 Copynumber: 6.2 Consensus size: 10
67833251 TATTTTCTTT
67833261 TTTCTTTTTC
1 TTTCTTTTTC
67833271 TTTC--TTTC
1 TTTCTTTTTC
67833279 TTTCTTTTTC
1 TTTCTTTTTC
67833289 TTT-TTCTTTC
1 TTTCTT-TTTC
*
67833299 CTTCTTTTTC
1 TTTCTTTTTC
67833309 TTTCTTTTTC
1 TTTCTTTTTC
67833319 TT
1 TT
67833321 CTCCTTCTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 8 0.18
9 2 0.05
10 32 0.73
11 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:67833276 original size:4 final size:4
Alignment explanation
Indices: 67833254--67833315 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
67833244 CCATTTTTAT
*
67833254 TTTC TTT- TTTC -TT- TTTC TTTC TTTC TTTC TTT- TTCTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC
*
67833299 CTTC -TT- TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTT
67833316 TTCTTCTCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 13 0.27
4 34 0.69
5 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:67833280 original size:14 final size:14
Alignment explanation
Indices: 67833253--67833315 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 14
67833243 ACCATTTTTA
67833253 TTTTCTTT-TTTCT
1 TTTTCTTTCTTTCT
67833266 TTTTCTTTCTTTC-
1 TTTTCTTTCTTTCT
67833279 -TTTC-TT-TTTCT
1 TTTTCTTTCTTTCT
*
67833290 TTTTCTTTCCTTCT
1 TTTTCTTTCTTTCT
67833304 TTTTCTTTCTTT
1 TTTTCTTTCTTT
67833316 TTCTTCTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
10 4 0.09
11 2 0.05
12 8 0.19
13 10 0.23
14 19 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:67833291 original size:24 final size:24
Alignment explanation
Indices: 67833254--67833328 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 24
67833244 CCATTTTTAT
*
67833254 TTTCTTTTTTCTTTTTCTTTCTTTC
1 TTTC-TTTTTCTTTTTCTTTCCTTC
67833279 TTTCTTTTTCTTTTTCTTTCCTTC
1 TTTCTTTTTCTTTTTCTTTCCTTC
67833303 TTT-TTCTTTCTTTTTCTTCTCCTTC
1 TTTCTT-TTTCTTTTTCTT-TCCTTC
67833328 T
1 T
67833329 CTCGACTCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 2 0.04
24 34 0.72
25 11 0.23
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTCTTTTTCTTTCCTTC
Found at i:67833295 original size:30 final size:29
Alignment explanation
Indices: 67833253--67833320 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 29
67833243 ACCATTTTTA
67833253 TTTTCTTTTTTCTTT-TTCTTTCTTTCTTTCT
1 TTTTC-TTTTTCTTTCTTC-TT-TTTCTTTCT
67833284 TTTTCTTTTTCTTTCCTTCTTTTTCTTTCT
1 TTTTCTTTTTCTTT-CTTCTTTTTCTTTCT
67833314 TTTTCTT
1 TTTTCTT
67833321 CTCCTTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 25 0.71
31 7 0.20
32 3 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTCTTTTTCTTTCTTCTTTTTCTTTCT
Found at i:67833434 original size:16 final size:16
Alignment explanation
Indices: 67833415--67833457 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
67833405 CTTCTCATTC
67833415 TCTCTTCTTTCTTCTT
1 TCTCTTCTTTCTTCTT
* *
67833431 TCTCATCTTTTTTCTT
1 TCTCTTCTTTCTTCTT
*
67833447 T-TCTCCTTTCT
1 TCTCTTCTTTCT
67833458 CTTCTTCAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (16 bp):
TCTCTTCTTTCTTCTT
Found at i:67833434 original size:24 final size:25
Alignment explanation
Indices: 67833395--67833462 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
67833385 CAGCGCTTTC
*
67833395 CTTTTTTTCTCTTCTCATTCTCTCTT
1 CTTTTCTTCT-TTCTCATTCTCTCTT
* *
67833421 C-TTTCTTCTTTCTCA-TCTTTTTT
1 CTTTTCTTCTTTCTCATTCTCTCTT
*
67833444 CTTTTCTCCTTTCTC-TTCT
1 CTTTTCTTCTTTCTCATTCT
67833463 TCAAATCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 7 0.19
24 21 0.58
25 7 0.19
26 1 0.03
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (25 bp):
CTTTTCTTCTTTCTCATTCTCTCTT
Found at i:67833950 original size:30 final size:29
Alignment explanation
Indices: 67833889--67833992 Score: 109
Period size: 29 Copynumber: 3.4 Consensus size: 29
67833879 GTCAAAATAA
67833889 AATTTTAGGAAAAGTTTAGAGGTCAAAAATGT
1 AATTTTAGGAAAAG-TTAG-GGT-AAAAATGT
* *
67833921 AATTTTAGGAGAAGTTAAGGGTTAAAATGT
1 AATTTTAGGAAAAGTT-AGGGTAAAAATGT
* ***
67833951 AATTTTAGAAAAAGTTAGGACCAAAATGT
1 AATTTTAGGAAAAGTTAGGGTAAAAATGT
*
67833980 AATTTTAGAAAAA
1 AATTTTAGGAAAA
67833993 ACTGGGGGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 23 0.36
30 21 0.33
31 5 0.08
32 15 0.23
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (29 bp):
AATTTTAGGAAAAGTTAGGGTAAAAATGT
Found at i:67833986 original size:29 final size:30
Alignment explanation
Indices: 67833889--67833992 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
67833879 GTCAAAATAA
* * *
67833889 AATTTTAGGAAAAGTTTAGAGGTCAAAAATGT
1 AATTTTAGAAAAAG-TTA-AGGACCAAAATGT
* * ***
67833921 AATTTTAGGAGAAGTTAAGGGTTAAAATGT
1 AATTTTAGAAAAAGTTAAGGACCAAAATGT
67833951 AATTTTAGAAAAAGTT-AGGACCAAAATGT
1 AATTTTAGAAAAAGTTAAGGACCAAAATGT
67833980 AATTTTAGAAAAA
1 AATTTTAGAAAAA
67833993 ACTGGGGGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 23 0.37
30 24 0.38
31 3 0.05
32 13 0.21
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (30 bp):
AATTTTAGAAAAAGTTAAGGACCAAAATGT
Found at i:67833993 original size:30 final size:29
Alignment explanation
Indices: 67833944--67834013 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 29
67833934 GTTAAGGGTT
* *
67833944 AAAATGTAATTTTAGAAAAAGTTAGGACC
1 AAAATGTAATTTTAGAAAAACTGAGGACC
* *
67833973 AAAATGTAATTTTAGAAAAAACTGGGGGCC
1 AAAATGTAATTTTAG-AAAAACTGAGGACC
67834003 AAAATGTAATT
1 AAAATGTAATT
67834014 AGTAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAAACTGAGGACC
Found at i:67842999 original size:15 final size:15
Alignment explanation
Indices: 67842965--67842999 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67842955 CGGTTTCAAT
67842965 CATGTATGACAAATA
1 CATGTATGACAAATA
* *
67842980 TATGTATGACAAGTA
1 CATGTATGACAAATA
67842995 CATGT
1 CATGT
67843000 GACATTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (15 bp):
CATGTATGACAAATA
Found at i:67844636 original size:26 final size:26
Alignment explanation
Indices: 67844597--67844668 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
67844587 ACATTCTTAT
* *
67844597 TTTACCCTTAGTAAAATTTTGAC-AA
1 TTTATCCTTGGTAAAATTTTGACGAA
*
67844622 TTTTATTCTTGGTAAAATTTTGACGAA
1 -TTTATCCTTGGTAAAATTTTGACGAA
*
67844649 TTTGTCCTTGGTAAAATTTT
1 TTTATCCTTGGTAAAATTTT
67844669 AAGAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (26 bp):
TTTATCCTTGGTAAAATTTTGACGAA
Found at i:67844829 original size:6 final size:6
Alignment explanation
Indices: 67844811--67844849 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
67844801 AGGATTGCAA
* * *
67844811 ATTTTC ATCTTC ATTTTC ATCTTC ATTTTC ATTTCC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATT
67844850 CTCCATTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTTC
Found at i:67844849 original size:12 final size:12
Alignment explanation
Indices: 67844811--67844842 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
67844801 AGGATTGCAA
67844811 ATTTTCATCTTC
1 ATTTTCATCTTC
67844823 ATTTTCATCTTC
1 ATTTTCATCTTC
67844835 ATTTTCAT
1 ATTTTCAT
67844843 TTCCATTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTCATCTTC
Found at i:67846073 original size:15 final size:15
Alignment explanation
Indices: 67846053--67846082 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
67846043 TTTACATATA
67846053 TATACAATTATAAAT
1 TATACAATTATAAAT
67846068 TATACAATTATAAAT
1 TATACAATTATAAAT
67846083 AATAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TATACAATTATAAAT
Found at i:67852132 original size:25 final size:25
Alignment explanation
Indices: 67852092--67852157 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
67852082 AAAAAATACA
67852092 TCTTTGCATTCATTTTCGAGCCAA-TAT
1 TCTTT-CATTC-TTTTCGAG-CAATTAT
* *
67852119 TCATTT-ATTCTTTTTGAGTAATTAT
1 TC-TTTCATTCTTTTCGAGCAATTAT
67852144 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
67852158 GGATTTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.15
25 20 0.59
26 4 0.12
27 2 0.06
28 3 0.09
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.56
Consensus pattern (25 bp):
TCTTTCATTCTTTTCGAGCAATTAT
Found at i:67852906 original size:30 final size:34
Alignment explanation
Indices: 67852872--67852963 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 34
67852862 AAAATCAATC
67852872 AAAATCAAAATAAAAAACAAA-AA-A-GGAAG-A
1 AAAATCAAAATAAAAAACAAAGAAGAGGGAAGAA
* *
67852902 AAAATCAAAATCAAAATCAAAGAAGAGGGAAGAA
1 AAAATCAAAATAAAAAACAAAGAAGAGGGAAGAA
** * *
67852936 AAAAGAAAAATAAAAAAGAAAGGAGAGG
1 AAAATCAAAATAAAAAACAAAGAAGAGG
67852964 TCAAAGCGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 19 0.38
31 2 0.04
32 1 0.02
33 5 0.10
34 23 0.46
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (34 bp):
AAAATCAAAATAAAAAACAAAGAAGAGGGAAGAA
Found at i:67855111 original size:44 final size:43
Alignment explanation
Indices: 67855061--67855199 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
67855051 GATAGCAGAT
*
67855061 CTTGCCTTCCTGCAATGATAGTGAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCTGC-ATGATAGCGAAGCAGATCAAAGACACAAGC
* ** * * ** * *
67855105 CTTGCCTCCCTCGGTTG-TAGCGGAGCAGGTTGAAGATA-ACAGAT
1 CTTGCCTTCCT-GCATGATAGCGAAGCAGATCAAAGACACA-AG-C
*
67855149 CTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCTGCAT-GATAGCGAAGCAGATCAAAGACACAAGC
67855193 CTTGCCT
1 CTTGCCT
67855200 CCCTCGGTTG
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 1 0.01
43 19 0.28
44 30 0.43
45 18 0.26
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (43 bp):
CTTGCCTTCCTGCATGATAGCGAAGCAGATCAAAGACACAAGC
Found at i:67855196 original size:88 final size:88
Alignment explanation
Indices: 67855047--67855450 Score: 524
Period size: 88 Copynumber: 4.6 Consensus size: 88
67855037 AACAGATAAG
* *
67855047 TGAAGATAGCAGATCTTGCCTTCCTGCA-ATGATAGTGAAGCAGATCAAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATA-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
67855111 TCCCTCGGTTGTAGCGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * *
67855135 TGAAGATAACAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
67855200 CCCTCGGTTGTAGTGGAGCAAGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * * * *
67855223 TGAAGATGGCAAATCTTGCCTTCCTACATCGACAGTGAAGCGGATCGAAGAAACAAGCCTTGTCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
67855288 TCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * * * *
67855311 TGAAGACAGCAAATCTTGCATTCCTGCATTGACAGCGAAGTAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
67855376 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
67855399 TGAAGATAGTAGATATCT-CCTTCCTGCCTCGACAGTGAAGTAGATCGAAGAC
1 TGAAGATAGCAGATCT-TGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGAC
67855451 GGCGAATATT
Statistics
Matches: 275, Mismatches: 39, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
88 273 0.99
89 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:67856466 original size:13 final size:14
Alignment explanation
Indices: 67856438--67856465 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67856428 CGGAGGCAGT
67856438 ATCAATACAAAAAA
1 ATCAATACAAAAAA
67856452 ATCAATACAAAAAA
1 ATCAATACAAAAAA
67856466 TTGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
ATCAATACAAAAAA
Found at i:67861041 original size:13 final size:13
Alignment explanation
Indices: 67861023--67861051 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
67861013 GCCATGTGCT
67861023 TCATTGCTAAGAA
1 TCATTGCTAAGAA
67861036 TCATTGCTAAGAA
1 TCATTGCTAAGAA
67861049 TCA
1 TCA
67861052 AGCTCTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
TCATTGCTAAGAA
Found at i:67861215 original size:21 final size:21
Alignment explanation
Indices: 67861191--67861231 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67861181 CAACGTGGCA
*
67861191 AGTTAACTGGTCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
67861212 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
67861232 GGTCCTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:67863987 original size:31 final size:32
Alignment explanation
Indices: 67863916--67863989 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
67863906 AATAAAGTCC
*
67863916 TTTT-TAAAAAAATTACGAAAATAGACCAATT
1 TTTTATAAAAAAATTACAAAAATAGACCAATT
** *
67863947 TTTTA-AAAAAAATTACAAAAATAGGTC-GTT
1 TTTTATAAAAAAATTACAAAAATAGACCAATT
67863977 TTTTATAAAAAAA
1 TTTTATAAAAAAA
67863990 AAACACTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (32 bp):
TTTTATAAAAAAATTACAAAAATAGACCAATT
Found at i:67864934 original size:12 final size:13
Alignment explanation
Indices: 67864904--67864947 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
67864894 ATAGAACACG
67864904 AAAAAATATTAAT
1 AAAAAATATTAAT
*
67864917 AAAAAATATTTAT
1 AAAAAATATTAAT
*
67864930 TAAAAATATTAAT
1 AAAAAATATTAAT
67864943 AAAAA
1 AAAAA
67864948 TAGAATTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:67864981 original size:16 final size:17
Alignment explanation
Indices: 67864941--67864981 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
67864931 AAAAATATTA
67864941 ATAAAAATAGAATTTAG
1 ATAAAAATAGAATTTAG
*
67864958 ATAGAAATA-AATTTTAG
1 ATAAAAATAGAA-TTTAG
67864975 -TAAAAAT
1 ATAAAAAT
67864982 TTTAAGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
ATAAAAATAGAATTTAG
Found at i:67865053 original size:31 final size:31
Alignment explanation
Indices: 67864987--67865057 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
67864977 AAAATTTTAA
** **
67864987 GAGAGAATTTGAGAGATTTTTGAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAAGAGAGTAAATT
67865019 GAGAAATTTGAGAGATTTAAGAGAG-AAATGT
1 GAGAAATTTGAGAGATTTAAGAGAGTAAAT-T
67865050 GAGAAATT
1 GAGAAATT
67865058 AGTAAGTAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (31 bp):
GAGAAATTTGAGAGATTTAAGAGAGTAAATT
Found at i:67869791 original size:69 final size:69
Alignment explanation
Indices: 67869680--67869816 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
67869670 TCCAAGCCTG
* *
67869680 TAACGGCTAACACTGGGAGATTAAATGGAACCGGGGAAGCAAATCTAGCAAAAAACGGAAGTTCA
1 TAACGGCTAACACTGGGAGATTAAATGGAACCGAGGAAGCAAATCTAGCAAAAAACAGAAGTTCA
67869745 AGCT
66 AGCT
* *
67869749 TAACGGCTAACACTGGGAGATTAAATGGAACTGAGGAAGCAAATCTAGCAAAAACCAGAAGTTCA
1 TAACGGCTAACACTGGGAGATTAAATGGAACCGAGGAAGCAAATCTAGCAAAAAACAGAAGTTCA
67869814 AGC
66 AGC
67869817 CTACGAGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.16
Consensus pattern (69 bp):
TAACGGCTAACACTGGGAGATTAAATGGAACCGAGGAAGCAAATCTAGCAAAAAACAGAAGTTCA
AGCT
Found at i:67873542 original size:44 final size:45
Alignment explanation
Indices: 67873494--67873579 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 45
67873484 TCTATTCCGA
67873494 TCAACCAAAACTAA-GAATT-CT-ATTACAGCTCTATTCCATTCCAT
1 TCAACC-AAAC-AATGAATTACTGATTACAGCTCTATTCCATTCCAT
67873538 TCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 TCAACCAAACAA-TGAATTACTGATTACAGCTCTATTCCATT
67873580 ACAGCTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
42 2 0.05
43 4 0.11
44 11 0.29
45 2 0.05
46 19 0.50
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (45 bp):
TCAACCAAACAATGAATTACTGATTACAGCTCTATTCCATTCCAT
Found at i:67878635 original size:39 final size:41
Alignment explanation
Indices: 67878540--67878723 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
67878530 TTGAATGATG
*
67878540 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
67878579 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
67878619 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
67878658 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
67878698 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67878724 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:67878675 original size:79 final size:81
Alignment explanation
Indices: 67878540--67878723 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
67878530 TTGAATGATG
67878540 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
67878603 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
67878618 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
67878679 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
67878698 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
67878724 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:67878745 original size:79 final size:79
Alignment explanation
Indices: 67878592--67878756 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
67878582 GGACTAAGAT
* ** *
67878592 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
67878657 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
67878671 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
67878733 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
67878750 CCGAAGG
1 CCGAAGG
67878757 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:67886767 original size:79 final size:81
Alignment explanation
Indices: 67886658--67886840 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
67886648 TACTCGTTCA
* *
67886658 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
67886721 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
67886738 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
67886801 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
67886817 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
67886841 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:67886840 original size:40 final size:40
Alignment explanation
Indices: 67886637--67886840 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
67886627 CGGAATTTAA
** *
67886637 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67886677 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67886717 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
67886756 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
67886796 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
67886836 CCGGA
1 CCGGA
67886841 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:67888051 original size:56 final size:56
Alignment explanation
Indices: 67887984--67888215 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
67887974 TATTAGTTTA
67887984 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
67888040 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
67888096 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
67888152 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
67888208 TTGCCCAT
1 TTGCCCAT
67888216 CATCCCTTGT
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:67903171 original size:39 final size:39
Alignment explanation
Indices: 67903107--67903349 Score: 270
Period size: 39 Copynumber: 6.2 Consensus size: 39
67903097 AAGTTAGATG
** * *
67903107 TTGTACTTCAATACCCTTGATTGCACATACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
*** * ** *
67903146 TTGTACTTCGGTATTGCTAAATGCACATACGTGCCATTG
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
* * * *
67903185 TTGTACGTCGGTACCCCTGATTGTACATACGTGCCCCTG
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
* * *
67903224 TAGTACTTCGGTACCCCTGAATGCACATATGTGGCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
* *
67903263 TTGTACTTTGGTACCCCTGATTGCACATACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
* * * *
67903302 TTGTACTTCGGTACCCTTGAATGCATATACGTGCCGCTG
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
67903341 TTGTACTTC
1 TTGTACTTC
67903350 AATATCACTG
Statistics
Matches: 166, Mismatches: 38, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 166 1.00
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTA
Found at i:67903210 original size:20 final size:20
Alignment explanation
Indices: 67903185--67903317 Score: 78
Period size: 20 Copynumber: 6.8 Consensus size: 20
67903175 CGTGCCATTG
*
67903185 TTGTACGTCGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
*
67903205 TTGTACATAC-GTGCCCCTG-
1 TTGTACAT-CGGTACCCCTGA
* *
67903224 TAGTACTTCGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
* * ** **
67903244 ATGCACATATGTGGCCCT-A
1 TTGTACATCGGTACCCCTGA
* *
67903263 TTGTACTTTGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
* *
67903283 TTGCACATAC-GTGCCCCT-A
1 TTGTACAT-CGGTACCCCTGA
*
67903302 TTGTACTTCGGTACCC
1 TTGTACATCGGTACCC
67903318 TTGAATGCAT
Statistics
Matches: 80, Mismatches: 27, Indels: 13
0.67 0.22 0.11
Matches are distributed among these distances:
18 2 0.03
19 38 0.47
20 39 0.49
21 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (20 bp):
TTGTACATCGGTACCCCTGA
Found at i:67903240 original size:19 final size:20
Alignment explanation
Indices: 67903187--67903243 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
67903177 TGCCATTGTT
* *
67903187 GTACGTCGGTACCCCTGATT
1 GTACTTCGGTACCCCTGATA
* *
67903207 GTACATAC-GTGCCCCTG-TA
1 GTAC-TTCGGTACCCCTGATA
67903226 GTACTTCGGTACCCCTGA
1 GTACTTCGGTACCCCTGA
67903244 ATGCACATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 12 0.43
21 1 0.04
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.28
Consensus pattern (20 bp):
GTACTTCGGTACCCCTGATA
Found at i:67903345 original size:78 final size:76
Alignment explanation
Indices: 67903105--67903349 Score: 301
Period size: 78 Copynumber: 3.1 Consensus size: 76
67903095 AGAAGTTAGA
** * ** *
67903105 TGTTGTACTTCAATACCCTTGATTGCACATACGTGCCCCTATTGTACTTCGGTATTGCTAAATGC
1 TGTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAATGC
*
67903170 ACATACGTGCCAT
65 ACATACGTGCC-C
* * * *
67903183 TGTTGTACGTCGGTACCCCTGATTGTACATACGTGCCCCTGTAGTACTTCGGTACCCCTGAATGC
1 TGTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGAATGC
*
67903248 ACATATGTGGCCC
65 ACATACGT-GCCC
* *
67903261 TATTGTACTTTGGTACCCCTGATTGCACATACGTGCCCCTATTGTACTTCGGTACCCTTGAATGC
1 TGTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTGTACTTCGGTACCC-TGAATGC
*
67903326 ATATACGTGCCGC
65 ACATACGTGCC-C
67903339 TGTTGTACTTC
1 TGTTGTACTTC
67903350 AATATCACTG
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
77 6 0.04
78 132 0.94
79 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (76 bp):
TGTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTGTACTTCGGTACCCTGAATGCA
CATACGTGCCC
Found at i:67906849 original size:43 final size:43
Alignment explanation
Indices: 67906802--67906979 Score: 141
Period size: 42 Copynumber: 4.2 Consensus size: 43
67906792 GAACACATAA
*
67906802 CAACCCCTTTCATAATAAAAGATACCGTGGAATCAGCACTTAG
1 CAACCCCTTTCATAATCAAAGATACCGTGGAATCAGCACTTAG
* ** * *
67906845 CAACCACCTTT-ATATTCAGTGATA-CGGGGAATCAGCACATAG
1 CAACC-CCTTTCATAATCAAAGATACCGTGGAATCAGCACTTAG
* * * * *
67906887 CAACCCCTTTCACAATCAAATATACAGTAGAATCAGCACTTAA
1 CAACCCCTTTCATAATCAAAGATACCGTGGAATCAGCACTTAG
** * * **
67906930 CTGCCACGTTT-AGAATCAATA-ATTTCG-GGAATCAGCACTTAG
1 CAACC-CCTTTCATAATCAA-AGATACCGTGGAATCAGCACTTAG
67906972 CAACCCCT
1 CAACCCCT
67906980 CGAGAATCTG
Statistics
Matches: 102, Mismatches: 28, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
41 7 0.07
42 45 0.44
43 40 0.39
44 10 0.10
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (43 bp):
CAACCCCTTTCATAATCAAAGATACCGTGGAATCAGCACTTAG
Found at i:67906881 original size:42 final size:41
Alignment explanation
Indices: 67906750--67906896 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 41
67906740 CTCGGTGGAT
* * * *
67906750 TCAGCACTTAGCAAGCACTTTAAATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCCCTTTATATTCAGTGATACGGGGAA
* * * * * ** *
67906791 TGAACACATAACAACCCCTTTCATAATAAAAGATACCGTGGAA
1 TCAGCACATAGCAACCCCTTT-ATATTCAGTGATA-CGGGGAA
*
67906834 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTATATTCAGTGATACGGGGAA
67906876 TCAGCACATAGCAACCCCTTT
1 TCAGCACATAGCAACCCCTTT
67906897 CACAATCAAA
Statistics
Matches: 81, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
41 20 0.25
42 29 0.36
43 27 0.33
44 5 0.06
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTATATTCAGTGATACGGGGAA
Found at i:67906891 original size:85 final size:84
Alignment explanation
Indices: 67906744--67906928 Score: 262
Period size: 85 Copynumber: 2.2 Consensus size: 84
67906734 CCGTTACTCG
* * *
67906744 GTGGATTCAGCACTTAGCAAGCACTTTAAATTCAGTGATACGGGGAATGAACACATAACAACCCC
1 GTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCCC
* *
67906809 TTTCATAATAAAAGATACC
66 TTTCACAATAAAAGATACA
* * *
67906828 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCA-CTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCC
* *
67906893 CTTTCACAATCAAATATACA
65 CTTTCACAATAAAAGATACA
*
67906913 GTAGAATCAGCACTTA
1 GTGGAATCAGCACTTA
67906929 ACTGCCACGT
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 21 0.24
85 68 0.76
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCCC
TTTCACAATAAAAGATACA
Found at i:67906960 original size:85 final size:85
Alignment explanation
Indices: 67906750--67906979 Score: 223
Period size: 85 Copynumber: 2.7 Consensus size: 85
67906740 CTCGGTGGAT
* * * * * * *
67906750 TCAGCACTTAGCAAGCA-CTTTA-AATTCAGTGATACGGGGAATGAACACATAACAACCCCTTTC
1 TCAGCACTTAACAACCACCTTTAGAA-TCAATAATACGGGGAATCAGCACATAGCAACCCCTTTC
* * *
67906813 ATAATAAAAGATACCGTGGAA
65 ACAATAAAAGATACAGTAGAA
* * * * *
67906834 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAACAACCACCTTTAGAATCAATAATACGGGGAATCAGCACATAGCAACCCCTTTCA
* *
67906899 CAATCAAATATACAGTAGAA
66 CAATAAAAGATACAGTAGAA
** * * *
67906919 TCAGCACTTAACTGCCACGTTTAGAATCAATAATTTC-GGGAATCAGCACTTAGCAACCCCT
1 TCAGCACTTAACAACCACCTTTAGAATCAATAA-TACGGGGAATCAGCACATAGCAACCCCT
67906980 CGAGAATCTG
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
84 16 0.13
85 104 0.85
86 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (85 bp):
TCAGCACTTAACAACCACCTTTAGAATCAATAATACGGGGAATCAGCACATAGCAACCCCTTTCA
CAATAAAAGATACAGTAGAA
Found at i:67907377 original size:30 final size:29
Alignment explanation
Indices: 67907343--67907404 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
67907333 TCCTTAACTC
67907343 AAACTTTGGCAAAATTACAATTTTTCCTCT
1 AAACTTTGGCAAAATTACAATTTTTCC-CT
* * * *
67907373 AAACTTTTGCATATTTACACTTTTTCCCT
1 AAACTTTGGCAAAATTACAATTTTTCCCT
67907402 AAA
1 AAA
67907405 GCTCAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (29 bp):
AAACTTTGGCAAAATTACAATTTTTCCCT
Found at i:67912408 original size:85 final size:84
Alignment explanation
Indices: 67912258--67912447 Score: 213
Period size: 85 Copynumber: 2.2 Consensus size: 84
67912248 CGGTAGATTT
* * *
67912258 AGCACTTAGCAATCACCTTAAATTCAGTGATACGGGGAATCAGCACATAACAATCCCGTTCACAA
1 AGCACTTAGCAACCACTTTAAATTCAGTGATACGAGGAATCAGCACATAACAATCCCGTTCACAA
* *
67912323 TCAAAGGTATGATGGAATC
66 TCAAAGATACGATGGAATC
* * * * *
67912342 TGCACTTAGCAACCACTTTTATATTCAGTGATACGAGGAATTAGCACATAGCAA-CCTC-TTGTA
1 AGCACTTAGCAACCAC-TTTAAATTCAGTGATACGAGGAATCAGCACATAACAATCC-CGTT-CA
* *
67912405 CAATCAAATATACGGTGGAATC
63 CAATCAAAGATACGATGGAATC
*
67912427 AACACTTAGCAACCACCTTTA
1 AGCACTTAGCAACCA-CTTTA
67912448 GAATCAATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
84 18 0.20
85 69 0.78
86 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (84 bp):
AGCACTTAGCAACCACTTTAAATTCAGTGATACGAGGAATCAGCACATAACAATCCCGTTCACAA
TCAAAGATACGATGGAATC
Found at i:67912439 original size:43 final size:42
Alignment explanation
Indices: 67912344--67912482 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
67912334 ATGGAATCTG
* * * * * * * *
67912344 CACTTAGCAACCACTTTTATATTCAGTGATACGAGGAATTAG
1 CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
* *
67912386 CACATAGCAACC-TCTTGTACAATCAA-ATATACGGTGGAATCAA
1 CACTTAGCAACCACCTT-TACAATCAATA-ATACGG-GGAATCAA
* *
67912429 CACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAA
1 CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
67912471 CACTTAGCAACC
1 CACTTAGCAACC
67912483 CCTCGGGGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.03
42 42 0.54
43 30 0.38
44 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (42 bp):
CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
Found at i:67912488 original size:26 final size:26
Alignment explanation
Indices: 67912459--67912511 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
67912449 AATCAATAAT
67912459 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
** *
67912485 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
67912511 T
1 T
67912512 TTTTATCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:67917427 original size:14 final size:15
Alignment explanation
Indices: 67917405--67917481 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
67917395 CAATCAAACA
67917405 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
67917419 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
67917434 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
67917454 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
67917468 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
67917482 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:67917446 original size:20 final size:20
Alignment explanation
Indices: 67917421--67917460 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67917411 AATATTTTCC
*
67917421 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
67917441 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
67917461 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:67917466 original size:34 final size:35
Alignment explanation
Indices: 67917409--67917475 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
67917399 CAAACACCAG
*
67917409 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
67917444 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
67917476 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:67917482 original size:14 final size:14
Alignment explanation
Indices: 67917444--67917483 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
67917434 ACAGAAAAGT
*
67917444 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
67917458 AAATCATTTTACGG
1 AAAACATTTTACAG
67917472 AAAACATTTTAC
1 AAAACATTTTAC
67917484 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:67948326 original size:18 final size:17
Alignment explanation
Indices: 67948293--67948334 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
67948283 ATGTGATATC
67948293 TATTTATA-TTTATGAA
1 TATTTATATTTTATGAA
67948309 TATTTATATTTATATGAA
1 TATTTATATTT-TATGAA
67948327 TA-TTATAT
1 TATTTATAT
67948335 GTTGCCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTTATATTTTATGAA
Found at i:67950692 original size:176 final size:176
Alignment explanation
Indices: 67950390--67950740 Score: 666
Period size: 176 Copynumber: 2.0 Consensus size: 176
67950380 TTTGAACGAC
67950390 GCAACACCATACATCGTCAAGCAAATGCTGAGGATCACAACCAAACCGGCAGCGGCTAAGGACCC
1 GCAACACCATACATCGTCAAGCAAATGCTGAGGATCACAACCAAACCGGCAGCGGCTAAGGACCC
*
67950455 AGCTTGACCCGCCACCGCAGTGTTCCTTAGAGGGCCGGCCTTTACGAATGGACCAACCAGGAGGA
66 AGCTTGACCCGCCACCGCAGTGTTCCTTAGAGGGCCGGCCTTAACGAATGGACCAACCAGGAGGA
67950520 AGCCGTGAGCCAGACCCACTTCGATTCCCCTCAGAAGTGGGTTCAT
131 AGCCGTGAGCCAGACCCACTTCGATTCCCCTCAGAAGTGGGTTCAT
* *
67950566 GCAACGCCATACATCGTCAAGCAAATGCTGAGGATCACAACCAGACCGGCAGCGGCTAAGGACCC
1 GCAACACCATACATCGTCAAGCAAATGCTGAGGATCACAACCAAACCGGCAGCGGCTAAGGACCC
*
67950631 AGCTTGACCCGCCACCGCAGTGTTCCTTAGAGGGCCGGCCTTAACGAATGGACCCACCAGGAGGA
66 AGCTTGACCCGCCACCGCAGTGTTCCTTAGAGGGCCGGCCTTAACGAATGGACCAACCAGGAGGA
67950696 AGCCGTGAGCCAGACCCACTTCGATTCCCCTCAGAAGTGGGTTCA
131 AGCCGTGAGCCAGACCCACTTCGATTCCCCTCAGAAGTGGGTTCA
67950741 CTGCCGTCCT
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 171 1.00
ACGTcount: A:0.27, C:0.32, G:0.26, T:0.15
Consensus pattern (176 bp):
GCAACACCATACATCGTCAAGCAAATGCTGAGGATCACAACCAAACCGGCAGCGGCTAAGGACCC
AGCTTGACCCGCCACCGCAGTGTTCCTTAGAGGGCCGGCCTTAACGAATGGACCAACCAGGAGGA
AGCCGTGAGCCAGACCCACTTCGATTCCCCTCAGAAGTGGGTTCAT
Found at i:67959606 original size:23 final size:23
Alignment explanation
Indices: 67959580--67959625 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67959570 CAAATTCTTG
67959580 TCATTAATAAAAAATGCTGCAAA
1 TCATTAATAAAAAATGCTGCAAA
67959603 TCATTAATAAAAAATGCTGCAAA
1 TCATTAATAAAAAATGCTGCAAA
67959626 CTTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (23 bp):
TCATTAATAAAAAATGCTGCAAA
Found at i:67961360 original size:42 final size:41
Alignment explanation
Indices: 67961305--67961433 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 41
67961295 TTACAAACAA
* *
67961305 AAACGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTCTAC
1 AAACGCCG-TAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
* * *
67961347 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTAC
1 AAACGCCG-TAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
* * *
67961389 AAACACCGTGAAAGAACATCTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGT-AAAGAACATGTTCTTTAGTGGCGTTTTTATAC
67961431 AAA
1 AAA
67961434 AACGCCACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
AAACGCCGTAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
Found at i:67961818 original size:21 final size:21
Alignment explanation
Indices: 67961750--67961820 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
67961740 TTTTGCTCTG
*
67961750 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
67961771 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
67961792 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
67961813 CTCTGCTT
1 CTCTGCTT
67961821 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.46, G:0.18, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:67967501 original size:27 final size:27
Alignment explanation
Indices: 67967463--67967677 Score: 235
Period size: 27 Copynumber: 7.8 Consensus size: 27
67967453 CAATGGTAAG
67967463 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTA
67967490 TTATGTAAGTTAAATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTT--ATGTAAG-T-T-A---A--ATGTA
67967527 TTATGTAAG-T-TGTAAGTTAAATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTA
*
67967552 TTGTGTAAG-T-TGTAAGTTAAATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTA
*
67967577 TTATGTAAG-T-TGTAAGTTATTATGTA
1 TTATGTAAGTTATGTAAGTTA-AATGTA
*
67967603 TTATGTAGGTTATGTAAGTTAAATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTA
*
67967630 TTATGTAAGTTATGTAATTTAAATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTA
* *
67967657 TTATGTAGGTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTA
67967678 TGTAGGTTAT
Statistics
Matches: 165, Mismatches: 10, Indels: 26
0.82 0.05 0.13
Matches are distributed among these distances:
25 47 0.28
26 13 0.08
27 61 0.37
28 9 0.05
29 7 0.04
30 2 0.01
31 2 0.01
32 2 0.01
33 6 0.04
35 1 0.01
36 1 0.01
37 14 0.08
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGTTAAATGTA
Found at i:67967506 original size:11 final size:9
Alignment explanation
Indices: 67967458--67967687 Score: 104
Period size: 9 Copynumber: 26.0 Consensus size: 9
67967448 AATTGCAATG
67967458 GTAAGTTAT
1 GTAAGTTAT
67967467 GTAAGTTAT
1 GTAAGTTAT
67967476 GTAAGTTAAAT
1 GTAAGTT--AT
67967487 GT-A-TTAT
1 GTAAGTTAT
67967494 GTAAGTTAAAT
1 GTAAGTT--AT
67967505 GTAAG-T-T
1 GTAAGTTAT
67967512 GTAAGTTAT
1 GTAAGTTAT
*
67967521 -TATGTATTAT
1 GTAAG--TTAT
67967531 GTAAG-T-T
1 GTAAGTTAT
67967538 GTAAGTTAAAT
1 GTAAGTT--AT
*
67967549 GT-A-TTGT
1 GTAAGTTAT
67967556 GTAAG-T-T
1 GTAAGTTAT
67967563 GTAAGTTAAAT
1 GTAAGTT--AT
67967574 GT-A-TTAT
1 GTAAGTTAT
67967581 GTAAG-T-T
1 GTAAGTTAT
67967588 GTAAGTTAT
1 GTAAGTTAT
*
67967597 -TATGTATTAT
1 GTAAG--TTAT
*
67967607 GTAGGTTAT
1 GTAAGTTAT
67967616 GTAAGTTAAAT
1 GTAAGTT--AT
67967627 GT-A-TTAT
1 GTAAGTTAT
67967634 GTAAGTTAT
1 GTAAGTTAT
*
67967643 GTAATTTAAAT
1 GTAAGTT--AT
67967654 GT-A-TTAT
1 GTAAGTTAT
*
67967661 GTAGGTTAT
1 GTAAGTTAT
*
67967670 GTAGGTTAT
1 GTAAGTTAT
*
67967679 GTAGGTTAT
1 GTAAGTTAT
67967688 TGTTATTAAA
Statistics
Matches: 177, Mismatches: 8, Indels: 72
0.69 0.03 0.28
Matches are distributed among these distances:
7 43 0.24
8 17 0.10
9 72 0.41
10 14 0.08
11 31 0.18
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:67967558 original size:25 final size:25
Alignment explanation
Indices: 67967503--67967663 Score: 223
Period size: 25 Copynumber: 6.2 Consensus size: 25
67967493 TGTAAGTTAA
*
67967503 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
67967529 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
67967554 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
67967579 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
*
67967605 ATGTAGGTTATGTAAGTTAAATGTATT
1 ATGTAAG-T-TGTAAGTTAAATGTATT
*
67967632 ATGTAAGTTATGTAATTTAAATGTATT
1 ATGTAAG-T-TGTAAGTTAAATGTATT
67967659 ATGTA
1 ATGTA
67967664 GGTTATGTAG
Statistics
Matches: 124, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
25 47 0.38
26 30 0.24
27 38 0.31
28 9 0.07
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTGTAAGTTAAATGTATT
Found at i:67967573 original size:69 final size:73
Alignment explanation
Indices: 67967458--67967656 Score: 221
Period size: 76 Copynumber: 2.7 Consensus size: 73
67967448 AATTGCAATG
67967458 GTAAGTTATGTAAGTT--ATGTAAGTTAAATGT-A-TTATGTAAGTTAAATGTAAGTTGTAAGTT
1 GTAAGTTATGTAAGTTAAATGT-A-TT--ATGTAAGTTATGTAAGTTAAATGTAAGTTGTAAGTT
67967519 ATTATGTATTAT
62 ATTATGTATTAT
* * * *
67967531 GTAAG-T-TGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGT
1 GTAAGTTATGTAAGTTAAATGTATTATGTAAG-T-TATG-TAAGT-TA-AATGTAAGTTGTAAGT
67967594 TATTATGTATTAT
61 TATTATGTATTAT
* *
67967607 GTAGGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAATTTAAATGTA
1 GTAAGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTAAATGTA
67967657 TTATGTAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
69 3 0.03
70 1 0.01
71 10 0.09
72 3 0.03
73 17 0.16
74 6 0.06
75 6 0.06
76 35 0.33
77 2 0.02
78 23 0.22
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (73 bp):
GTAAGTTATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTAAATGTAAGTTGTAAGTTATTA
TGTATTAT
Found at i:67967904 original size:73 final size:73
Alignment explanation
Indices: 67967821--67968043 Score: 446
Period size: 73 Copynumber: 3.1 Consensus size: 73
67967811 ACATTACTAA
67967821 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
67967886 TATTTTTT
66 TATTTTTT
67967894 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
67967959 TATTTTTT
66 TATTTTTT
67967967 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
67968032 TATTTTTT
66 TATTTTTT
67968040 TATA
1 TATA
67968044 TTTTATTTTA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 150 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:67967929 original size:38 final size:38
Alignment explanation
Indices: 67967823--67968010 Score: 148
Period size: 34 Copynumber: 5.1 Consensus size: 38
67967813 ATTACTAATA
67967823 TAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 TAATTATTAATAATATTTAATAAAATAACATTTTATTT
* * * * *
67967861 TAA-TAGT--CAAT-TTTAAT--ATTCCACATATTTTTTT
1 TAATTATTAATAATATTTAATAAAAT-AACAT-TTTATTT
67967895 ATAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 -TAATTATTAATAATATTTAATAAAATAACATTTTATTT
* * * * *
67967934 TAA-TAGT--CAAT-TTTAAT--ATTCCACATATTTTTTT
1 TAATTATTAATAATATTTAATAAAAT-AACAT-TTTATTT
67967968 ATAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 -TAATTATTAATAATATTTAATAAAATAACATTTTATTT
67968007 TAAT
1 TAAT
67968011 AGTCAATTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
32 4 0.04
33 8 0.07
34 24 0.21
35 12 0.11
36 6 0.05
37 6 0.05
38 16 0.14
39 24 0.21
40 8 0.07
41 4 0.04
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.51
Consensus pattern (38 bp):
TAATTATTAATAATATTTAATAAAATAACATTTTATTT
Found at i:67967964 original size:35 final size:35
Alignment explanation
Indices: 67967852--67968037 Score: 128
Period size: 35 Copynumber: 5.1 Consensus size: 35
67967842 ATAAAATAAC
67967852 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
67967887 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
67967925 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
67967960 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
67967998 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
67968033 ATTTT
1 ATTTT
67968038 TTTATATTTT
Statistics
Matches: 109, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 22 0.20
35 29 0.27
36 6 0.06
37 6 0.06
38 24 0.22
39 22 0.20
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:67968041 original size:38 final size:38
Alignment explanation
Indices: 67967853--67968042 Score: 148
Period size: 38 Copynumber: 5.2 Consensus size: 38
67967843 TAAAATAACA
67967853 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
* * * * ***
67967891 TTTTATAATTATTAAT-AATATTTAATA----AAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTAATATTCCACATATTT
67967926 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
* * * * ***
67967964 TTTTATAATTATTAAT-AATATTTAATA----AAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTAATATTCCACATATTT
67967999 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
67968037 TTTTAT
1 TTTTAT
67968043 ATTTTATTTT
Statistics
Matches: 110, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 26 0.24
35 26 0.24
38 32 0.29
39 26 0.24
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (38 bp):
TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
Found at i:67968208 original size:13 final size:13
Alignment explanation
Indices: 67968190--67968260 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
67968180 ATTTATAATT
67968190 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
67968203 ATTTAAGTAACAT
1 ATTTAAGTAATAA
67968216 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
67968229 ATTTAAGTAACAT
1 ATTTAAGTAATAA
67968242 ATTTAAGTAATAA
1 ATTTAAGTAATAA
67968255 ATTTAA
1 ATTTAA
67968261 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:67968219 original size:26 final size:26
Alignment explanation
Indices: 67968189--67968260 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
67968179 TATTTATAAT
67968189 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
67968215 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
67968241 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
67968261 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:67969781 original size:7 final size:7
Alignment explanation
Indices: 67969769--67969799 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
67969759 GTTTTAACCT
67969769 AAACCGC
1 AAACCGC
67969776 AAACCGC
1 AAACCGC
67969783 AAACCGC
1 AAACCGC
*
67969790 AAACCCC
1 AAACCGC
67969797 AAA
1 AAA
67969800 ATCTAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.42, G:0.10, T:0.00
Consensus pattern (7 bp):
AAACCGC
Found at i:67970557 original size:84 final size:84
Alignment explanation
Indices: 67970444--67970706 Score: 454
Period size: 84 Copynumber: 3.1 Consensus size: 84
67970434 ACATTTTCGA
67970444 CGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGTC
1 CGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGTC
67970509 TGGAATTGCATTATTTGTGG
65 TGGAATTGCATTATTTGTGG
67970529 CGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGTCT
1 CGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGTCT
67970594 GGAATTGCATTATTTGTGG
66 GGAATTGCATTATTTGTGG
*
67970613 CGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTTTGCGTGGTC
1 CGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGGTC
* *
67970678 TAGAATAATTGCATTATTTCTGG
65 T-G--GAATTGCATTATTTGTGG
67970701 CGTTTT
1 CGTTTT
67970707 AAGCACAAAT
Statistics
Matches: 171, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
84 131 0.77
85 17 0.10
86 1 0.01
88 22 0.13
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (84 bp):
CGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGTCT
GGAATTGCATTATTTGTGG
Found at i:67971641 original size:14 final size:14
Alignment explanation
Indices: 67971622--67971654 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
67971612 TTGACCCCTA
67971622 AACCCTAAATCTTT
1 AACCCTAAATCTTT
67971636 AACCCTAAATCTTT
1 AACCCTAAATCTTT
67971650 AACCC
1 AACCC
67971655 CTAGATCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
AACCCTAAATCTTT
Found at i:67973369 original size:110 final size:111
Alignment explanation
Indices: 67973212--67973444 Score: 416
Period size: 111 Copynumber: 2.1 Consensus size: 111
67973202 AACACCTAGA
67973212 TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGG-ACCGTCTGGGT
1 TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGT
*
67973276 GTATTATTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
66 GTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
*
67973322 TAGCGGCGCTTTACAAAAAACGCCACTAATT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 TAGCGGCGCTTTAC-AAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
67973386 TGTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
65 TGTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
*
67973433 TAACGGCGCTTT
1 TAGCGGCGCTTT
67973445 TCCTTTAACG
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
110 35 0.30
111 83 0.70
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (111 bp):
TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGT
GTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
Found at i:67973469 original size:40 final size:40
Alignment explanation
Indices: 67973409--67973525 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
67973399 GTGTTTTTTA
** * *
67973409 TAAACGCTGCTAATGTTCACTCTTTAACGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
* * *
67973449 TTAACGCCACTAATGCTCACTCTTTAGCAGTGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
* * *
67973489 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTT
67973526 GCTCCAAACG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.37
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
Found at i:67984803 original size:16 final size:16
Alignment explanation
Indices: 67984782--67984813 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67984772 TAGATGCATA
67984782 ATCTCATCGATCCATC
1 ATCTCATCGATCCATC
67984798 ATCTCATCGATCCATC
1 ATCTCATCGATCCATC
67984814 TTTCTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (16 bp):
ATCTCATCGATCCATC
Found at i:67992143 original size:17 final size:16
Alignment explanation
Indices: 67992099--67992144 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
67992089 TTGAAAAAGA
67992099 ATTATAACTATTTAAAT
1 ATTATAA-TATTTAAAT
*
67992116 A--ATATTATTTAAAT
1 ATTATAATATTTAAAT
67992130 AGTTATAATATTTAA
1 A-TTATAATATTTAA
67992145 TGAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
17 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATAATATTTAAAT
Found at i:67994234 original size:19 final size:19
Alignment explanation
Indices: 67994212--67994248 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67994202 TCTTTTCCAC
* *
67994212 ATTTTAATAAATTTTTCAT
1 ATTTAAATAAATATTTCAT
67994231 ATTTAAATAAATATTTCA
1 ATTTAAATAAATATTTCA
67994249 AAATTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAATAAATATTTCAT
Found at i:67998188 original size:23 final size:23
Alignment explanation
Indices: 67998162--67998205 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
67998152 GGTTTTTTCT
67998162 TAGATTGGGTATTGTCGTATTTA
1 TAGATTGGGTATTGTCGTATTTA
67998185 TAGATTGGGTATTGTCGTATT
1 TAGATTGGGTATTGTCGTATT
67998206 CTTCACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (23 bp):
TAGATTGGGTATTGTCGTATTTA
Found at i:67998281 original size:43 final size:44
Alignment explanation
Indices: 67998220--67998311 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 44
67998210 ACATTAAGGT
* *
67998220 TAAAGAACATGATCTTTAGCGGCGTTTATTTT-T-TTAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCATTT-TTTTCTGTAAGCGCCGC
*
67998263 TAAAGAACATGATTTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
*
67998307 AAAAG
1 TAAAG
67998312 TTAGCGACGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 26 0.60
44 13 0.30
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (44 bp):
TAAAGAACATGATCTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
Found at i:67998502 original size:24 final size:24
Alignment explanation
Indices: 67998475--67998526 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
67998465 AAAAATAAAA
67998475 ATAAAAA-TTAACCTTT-CAAATGTT
1 ATAAAAACTTAA--TTTCCAAATGTT
67998499 ATAAAAACTTTAATTTCCAAATGTT
1 ATAAAAAC-TTAATTTCCAAATGTT
67998524 ATA
1 ATA
67998527 TATGAGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 10 0.40
25 11 0.44
26 4 0.16
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAAAACTTAATTTCCAAATGTT
Found at i:68006886 original size:41 final size:41
Alignment explanation
Indices: 68006829--68006911 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
68006819 AAGGGTAAGG
*
68006829 TATGAGATTAAGATCCTCAATGTAAGAAGGCCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
* *
68006870 TATGAGATTGAGATCCTCAATGTGAGAAGACCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
68006911 T
1 T
68006912 TGAAGCAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (41 bp):
TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
Found at i:68021974 original size:16 final size:17
Alignment explanation
Indices: 68021934--68021978 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
68021924 TACATTATTT
68021934 ATTAAATTAA-TTT-AA
1 ATTAAATTAATTTTCAA
68021949 A-TAAATTAATTTTCAA
1 ATTAAATTAATTTTCAA
68021965 ATTAAA-TAATTTTC
1 ATTAAATTAATTTTC
68021979 TCAACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 11 0.41
17 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATTAATTTTCAA
Found at i:68022216 original size:63 final size:64
Alignment explanation
Indices: 68022141--68022267 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 64
68022131 ATTTTTTAGG
* * * *
68022141 TCATTTTTATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATAATTT-C-ATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAAT-ATTTCCTATTTCTCCATTT
* ** *
68022204 TCATTTTCATTTTTATCTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
68022268 CACCATTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 3 0.06
63 39 0.72
64 12 0.22
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.49
Consensus pattern (64 bp):
TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
Found at i:68045298 original size:44 final size:44
Alignment explanation
Indices: 68045235--68045324 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
68045225 TCACATGGCC
68045235 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
*
68045279 TTACCACATGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
68045323 TT
1 TT
68045325 TTCTTAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (44 bp):
TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
Done.