Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 195 of 325
Found at i:63258266 original size:21 final size:21
Alignment explanation
Indices: 63258240--63258279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63258230 ATATGTGAAT
*
63258240 ATATCATGGTAGATCATGTGC
1 ATATCATGGCAGATCATGTGC
*
63258261 ATATCATGGCATATCATGT
1 ATATCATGGCAGATCATGT
63258280 ACAAAAGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (21 bp):
ATATCATGGCAGATCATGTGC
Found at i:63258272 original size:10 final size:10
Alignment explanation
Indices: 63258240--63258278 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
63258230 ATATGTGAAT
*
63258240 ATATCATGGT
1 ATATCATGGC
*
63258250 AGATCATGTGC
1 ATATCATG-GC
63258261 ATATCATGGC
1 ATATCATGGC
63258271 ATATCATG
1 ATATCATG
63258279 TACAAAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:63280163 original size:58 final size:57
Alignment explanation
Indices: 63280026--63280165 Score: 167
Period size: 57 Copynumber: 2.5 Consensus size: 57
63280016 AACATATAAT
** * * *
63280026 AGGATTACCAGTCCAGG-TAAATCCTTTTTGTAATATATGCTCAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGATCAATC
* * *
63280082 AGGATTACCAGTCCAAGCTAAATCCTAATTGTAACATATGCTC-GAGAGGGATTATATC
1 AGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGA-AGAGATCA-ATC
*
63280140 AGGATCACCAGTCCAGGCTAAATCCT
1 AGGATTACCAGTCCAGGCTAAATCCT
63280166 GTCAGCAACA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
56 18 0.25
57 27 0.38
58 26 0.37
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGATCAATC
Found at i:63288137 original size:53 final size:53
Alignment explanation
Indices: 63288045--63288166 Score: 156
Period size: 53 Copynumber: 2.3 Consensus size: 53
63288035 ACCTAAACCC
* *
63288045 TATAAGATAAAATGACTATTTTACCCTTATGTGGCAAAATGATTG-TTTTGCCCT
1 TATAAGGT-AAATGACTATTTTACCCTTATGTGACAAAATGA-TGATTTTGCCCT
* * * *
63288099 TATATGGTAAATGACTGTTTTGCCCTTATGTGATAAAATGATGATTTTGCCCT
1 TATAAGGTAAATGACTATTTTACCCTTATGTGACAAAATGATGATTTTGCCCT
63288152 TATAAGGTAGAATGA
1 TATAAGGTA-AATGA
63288167 TCGAAATACC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.03
53 46 0.78
54 11 0.19
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (53 bp):
TATAAGGTAAATGACTATTTTACCCTTATGTGACAAAATGATGATTTTGCCCT
Found at i:63288167 original size:27 final size:26
Alignment explanation
Indices: 63288054--63288166 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 26
63288044 CTATAAGATA
* * * *
63288054 AAATGACTATTTTACCCTTATGTGGCA
1 AAATGACTGTTTTGCCCTTATATGG-T
*
63288081 AAATGATTGTTTTGCCCTTATATGGT
1 AAATGACTGTTTTGCCCTTATATGGT
* *
63288107 AAATGACTGTTTTGCCCTTATGTGAT
1 AAATGACTGTTTTGCCCTTATATGGT
*
63288133 AAAATGA-TGATTTTGCCCTTATAAGGT
1 -AAATGACTG-TTTTGCCCTTATATGGT
63288160 AGAATGA
1 A-AATGA
63288167 TCGAAATACC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 26 0.36
27 46 0.64
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (26 bp):
AAATGACTGTTTTGCCCTTATATGGT
Found at i:63288187 original size:27 final size:27
Alignment explanation
Indices: 63288152--63288328 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
63288142 ATTTTGCCCT
* * *
63288152 TATAAGGTAGAATGATCGAAATA-CCG
1 TATAGGGTAAAATGATCGAAATACCCC
* * *
63288178 TCATTGGGTAAAATGACCAAAATACCCC
1 T-ATAGGGTAAAATGATCGAAATACCCC
*
63288206 TATAGGGTAAAATGATCGAGATACCCC
1 TATAGGGTAAAATGATCGAAATACCCC
*
63288233 TATAAGGTAAAATGA-CAGAAATACCCC
1 TATAGGGTAAAATGATC-GAAATACCCC
* * *
63288260 TATACGGTAAAAT-AACTGTAATACCCC
1 TATAGGGTAAAATGATC-GAAATACCCC
* * *
63288287 TGTAGGGTAAAATGAAT-GTAATATCCC
1 TATAGGGTAAAATG-ATCGAAATACCCC
*
63288314 TATAAGGTAAAATGA
1 TATAGGGTAAAATGA
63288329 CTGATTTGCC
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.03
27 116 0.94
28 3 0.02
29 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (27 bp):
TATAGGGTAAAATGATCGAAATACCCC
Found at i:63288223 original size:54 final size:54
Alignment explanation
Indices: 63288152--63288328 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
63288142 ATTTTGCCCT
* * **
63288152 TATAAGGTAGAATGATCGAAATA-CCGTCATTGGGTAAAATGACCA-AAATACCCC
1 TATAAGGTAAAATGATCGAAATACCCCT-ATAAGGTAAAATGA-CAGAAATACCCC
* *
63288206 TATAGGGTAAAATGATCGAGATACCCCTATAAGGTAAAATGACAGAAATACCCC
1 TATAAGGTAAAATGATCGAAATACCCCTATAAGGTAAAATGACAGAAATACCCC
* * * * * * *
63288260 TATACGGTAAAAT-AACTGTAATACCCCTGTAGGGTAAAATGA-ATGTAATATCCC
1 TATAAGGTAAAATGATC-GAAATACCCCTATAAGGTAAAATGACA-GAAATACCCC
63288314 TATAAGGTAAAATGA
1 TATAAGGTAAAATGA
63288329 CTGATTTGCC
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
53 5 0.05
54 94 0.91
55 4 0.04
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (54 bp):
TATAAGGTAAAATGATCGAAATACCCCTATAAGGTAAAATGACAGAAATACCCC
Found at i:63292330 original size:53 final size:54
Alignment explanation
Indices: 63292142--63292348 Score: 224
Period size: 53 Copynumber: 3.8 Consensus size: 54
63292132 ATTAGGGTTT
* * *
63292142 AAGGATACCAAGTAAGACCATGCCACAGA-ATGGC-ATCGGTAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGTCA-AGACATGGCAAT-GGTAAGTTCTATAAGGC
* * * * * * *
63292196 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAACGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
63292251 AAAGAT-CCTATGTAAGACCATGTCAAGGCATGACAATGGTGAGTTC-ATAAGGC
1 AAGGATACC-ATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
63292304 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
63292349 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
53 47 0.38
54 34 0.28
55 42 0.34
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:63294622 original size:27 final size:26
Alignment explanation
Indices: 63294506--63294629 Score: 133
Period size: 27 Copynumber: 4.7 Consensus size: 26
63294496 ACCTGAACCT
* *
63294506 TTATGAGATAAAATGACTATTTTACCC
1 TTATGTGATAAAATGA-TATTTTGCCC
**
63294533 TTATGTGGCAAAATGATTATTTTGCCC
1 TTATGTGATAAAATGA-TATTTTGCCC
*
63294560 TTATGTGGT-AAATGACTATTTTGCCC
1 TTATGTGATAAAATGA-TATTTTGCCC
63294586 TTATGTGATAAAATGATGATTTTGCCC
1 TTATGTGATAAAATGAT-ATTTTGCCC
* * *
63294613 TTGTGAGATAGAATGAT
1 TTATGTGATAAAATGAT
63294630 CGAAATACCC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 25 0.30
27 59 0.70
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (26 bp):
TTATGTGATAAAATGATATTTTGCCC
Found at i:63294654 original size:27 final size:27
Alignment explanation
Indices: 63294624--63294709 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
63294614 TGTGAGATAG
* *
63294624 AATGATCGAAATACCCCCATAGGGTAA
1 AATGATCGAAATACCCCAATAAGGTAA
* *
63294651 AATGACCGAGATACCCCAATAAGGTAA
1 AATGATCGAAATACCCCAATAAGGTAA
* *
63294678 AATGATAGAAATACCCCTATACA-GTAA
1 AATGATCGAAATACCCCAATA-AGGTAA
63294705 AATGA
1 AATGA
63294710 CTGTAATAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
AATGATCGAAATACCCCAATAAGGTAA
Found at i:63294717 original size:27 final size:27
Alignment explanation
Indices: 63294633--63294790 Score: 117
Period size: 27 Copynumber: 5.9 Consensus size: 27
63294623 GAATGATCGA
* * *
63294633 AATACCCCCATAGGGTAAAATGACCG-
1 AATACCCCTATAGAGTAAAATGACTGT
* *
63294659 AGATACCCCAATA-AGGTAAAATGA-TAGA
1 A-ATACCCCTATAGA-GTAAAATGACT-GT
*
63294687 AATACCCCTATACAGTAAAATGACTGT
1 AATACCCCTATAGAGTAAAATGACTGT
* * * * *
63294714 AATAGCCTTGTAGGGTAAAATAACTGT
1 AATACCCCTATAGAGTAAAATGACTGT
* * *
63294741 AATACCCCTGTAGGGTAAAATGACTAT
1 AATACCCCTATAGAGTAAAATGACTGT
*
63294768 AATATCCCTATA-AGGTAAAATGA
1 AATACCCCTATAGA-GTAAAATGA
63294791 TTGATTTGTC
Statistics
Matches: 107, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.01
27 103 0.96
28 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
AATACCCCTATAGAGTAAAATGACTGT
Found at i:63294731 original size:54 final size:53
Alignment explanation
Indices: 63294624--63294791 Score: 140
Period size: 54 Copynumber: 3.1 Consensus size: 53
63294614 TGTGAGATAG
* ** * * * *
63294624 AATGATCGAAATACCCCCATAGGGTAAAATGACCGA-GATACCCCAATAAGGTAA
1 AATGAT-GAAATACCCCTATACAGTAAAATGA-CTATAATAGCCCTATAAGGTAA
* * * *
63294678 AATGATAGAAATACCCCTATACAGTAAAATGACTGTAATAGCCTTGTAGGGTAA
1 AATGAT-GAAATACCCCTATACAGTAAAATGACTATAATAGCCCTATAAGGTAA
* * * ** *
63294732 AATAACTGTAATACCCCTGTAGGGTAAAATGACTATAATATCCCTATAAGGTAA
1 AATGA-TGAAATACCCCTATACAGTAAAATGACTATAATAGCCCTATAAGGTAA
63294786 AATGAT
1 AATGAT
63294792 TGATTTGTCC
Statistics
Matches: 89, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
53 2 0.02
54 86 0.97
55 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (53 bp):
AATGATGAAATACCCCTATACAGTAAAATGACTATAATAGCCCTATAAGGTAA
Found at i:63306844 original size:12 final size:12
Alignment explanation
Indices: 63306827--63306853 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63306817 ATTCCGAAGT
63306827 ATATATATATAC
1 ATATATATATAC
63306839 ATATATATATAC
1 ATATATATATAC
63306851 ATA
1 ATA
63306854 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:63307384 original size:27 final size:28
Alignment explanation
Indices: 63307300--63307397 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
63307290 CATGAGATTG
* * * *
63307300 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
63307329 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
63307357 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
63307384 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
63307398 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:63307408 original size:27 final size:27
Alignment explanation
Indices: 63307328--63307410 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
63307318 TAAATTGTAC
* *
63307328 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
63307356 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
63307383 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
63307410 A
1 A
63307411 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:63315125 original size:12 final size:12
Alignment explanation
Indices: 63315108--63315134 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63315098 ATTCCGAAGT
63315108 ATATATATATAC
1 ATATATATATAC
63315120 ATATATATATAC
1 ATATATATATAC
63315132 ATA
1 ATA
63315135 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:63315665 original size:27 final size:28
Alignment explanation
Indices: 63315581--63315678 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
63315571 CATGAGATTG
* * * *
63315581 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
63315610 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
63315638 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
63315665 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
63315679 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:63315689 original size:27 final size:27
Alignment explanation
Indices: 63315609--63315691 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
63315599 TAAATTGTAC
* *
63315609 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
63315637 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
63315664 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
63315691 A
1 A
63315692 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:63318989 original size:43 final size:43
Alignment explanation
Indices: 63318941--63319089 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
63318931 GTTACCGAGA
* * * *
63318941 TGTGATTACATGTAAGACTATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*
63318984 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
*** * * *
63319027 T-TGATTTTGTGTAAGATCC-TGTCTGGGGCAGTGGCATCG-AT
1 TGTGATTACATGTAAGA-CCATGTCTAGGACATTGGCATCGTAT
* * *
63319068 ATGAGATAACATGTAGGACCAT
1 -TGTGATTACATGTAAGACCAT
63319090 ATCTGGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 33 0.38
43 51 0.59
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:63319050 original size:42 final size:43
Alignment explanation
Indices: 63318941--63319065 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
63318931 GTTACCGAGA
* * * * *
63318941 TGTGATTACATGTAAGACTATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
63318984 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
** * * *
63319027 T-TGATTTTGTGTAAGATCC-TGTCTGGGGCAGTGGCATCG
1 TGTGATTACGTGTAAGA-CCATGTCTAGGACATTGGCATCG
63319066 ATATGAGATA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
42 30 0.42
43 41 0.58
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:63326693 original size:43 final size:43
Alignment explanation
Indices: 63326645--63326813 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
63326635 GTTACCGAGA
* *
63326645 TGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
** * *
63326688 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * **
63326731 T-TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCA-TCAAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
*
63326772 ATGTG-TTAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATT-ACATGTAAGACCATATCTGGGACATTGGCATTGTA
63326814 CGAGCTTTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 38 0.37
43 64 0.62
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:63326756 original size:42 final size:43
Alignment explanation
Indices: 63326657--63326768 Score: 165
Period size: 42 Copynumber: 2.6 Consensus size: 43
63326647 TGATTACATA
*
63326657 TAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTATGTG
63326700 TAAGACCATGTCTGGGACATTGGCATCGTATT-TGATT-TCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTAT-GTG
* * *
63326742 TAAGACCCTATCTGGGACAGTGGCATC
1 TAAGACCATGTCTGGGACATTGGCATC
63326769 AATATGTGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 32 0.50
43 31 0.48
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTATGTG
Found at i:63328339 original size:6 final size:6
Alignment explanation
Indices: 63328309--63328439 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
63328299 AAGAAACATT
* * *
63328309 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
63328358 ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
63328407 ATCAGT ATCAGGTA A-CAAA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
63328440 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 6 0.06
6 80 0.82
7 8 0.08
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:63328367 original size:31 final size:31
Alignment explanation
Indices: 63328330--63328439 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
63328320 AATCAAAATG
63328330 AGAATCAGAATCAGAATCAGGTGATAGAATCAGAATC
1 AGAATCAGAATCAGAATCA-G-G-T-G-A-CAGAATC
* *
63328367 AGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
63328398 AGAATCAGAATCAGTATCAGGTAACAAAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
63328429 AAAATCAGAAT
1 AGAATCAGAAT
63328440 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 42 0.65
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
37 18 0.28
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:63328371 original size:37 final size:37
Alignment explanation
Indices: 63328317--63328417 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
63328307 TTATCAGAAC
* *
63328317 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
*
63328354 TAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
* * *
63328391 CAGAATTAGAATCAGAATCAGTATCAG
1 TAGAATCAGAATCAGAATCAGAATCAG
63328418 GTAACAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (37 bp):
TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
Found at i:63328439 original size:37 final size:37
Alignment explanation
Indices: 63328318--63328439 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 37
63328308 TATCAGAACT
* *
63328318 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
63328355 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
63328392 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
63328423 AAAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
63328440 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 43 0.61
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:63328964 original size:27 final size:27
Alignment explanation
Indices: 63328934--63329424 Score: 509
Period size: 27 Copynumber: 18.2 Consensus size: 27
63328924 AACACCCTAG
* * *
63328934 GGGTAAAATGGTAAATTTATAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
63328961 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* **
63328988 GGGTAAAATAGG-AATTCTGTAAATTAA
1 GGGTAAAAT-GGTAATTTTGTAAATCGA
* * *
63329015 GGGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
63329042 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
63329069 GCGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
63329096 GGGTAAAATAGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
63329123 GGGTAAAATGATAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
63329150 GGGTAAAATAGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
63329177 GGGTAAAACGATAATTTTGTAAATAGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
63329204 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
63329231 GGGTAAAATGATAATTCTGTAAATCGG
1 GGGTAAAATGGTAATTTTGTAAATCGA
63329258 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
63329285 GGGTAAAACT-GTAATTCTGTAAATCAA
1 GGGTAAAA-TGGTAATTTTGTAAATCGA
* * *
63329312 GGGTAAAACGGTAATTTTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
**
63329339 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
63329366 TGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*** ** *
63329393 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
63329420 GGGTA
1 GGGTA
63329425 TTTCAGTAAG
Statistics
Matches: 385, Mismatches: 75, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.00
27 381 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:63329410 original size:54 final size:54
Alignment explanation
Indices: 63328934--63329397 Score: 563
Period size: 54 Copynumber: 8.6 Consensus size: 54
63328924 AACACCCTAG
* * * * *
63328934 GGGTAAAATGGTAAATTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * ** * *
63328988 GGGTAAAATAGGAATTCTGTAAATTAAGGGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * * *
63329042 GGATAAAATAGTAATTTTGTAAATCGAGCGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * * *
63329096 GGGTAAAATAGTAATTTTTTAAATCGAGGGTAAAATGATAATTCTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * *
63329150 GGGTAAAATAGTAATTTTTTAAATCGAGGGTAAAACGATAATTTTGTAAATAGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * * *
63329204 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
* * *
63329258 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACTG-TAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAA-TGATAATTTTGTAAATCGA
** * * *
63329312 GGGTAAAACGGTAATTTTATAAATTGAGGGTAAAA-CAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTGTAAATCGA
* * *
63329366 TGGTAAAATAGTAATTCTATAAATCGAGGGTA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTA
63329398 CTTTGGTAAT
Statistics
Matches: 357, Mismatches: 50, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
54 355 0.99
55 2 0.01
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTGTAAATCGA
Found at i:63329433 original size:27 final size:26
Alignment explanation
Indices: 63329374--63329545 Score: 134
Period size: 27 Copynumber: 6.4 Consensus size: 26
63329364 GATGGTAAAA
* *
63329374 TAGTAATTCTATAAATCGAGGGTACTT
1 TAGTAATTTTACAAATCGAGGGTA-TT
* *
63329401 TGGTAATTTTACAAGTCGAGGGTATT
1 TAGTAATTTTACAAATCGAGGGTATT
* **
63329427 TCAGTAAGTTTACAGGTCGAGGGTATT
1 T-AGTAATTTTACAAATCGAGGGTATT
*
63329454 TCAGTAATTTCACAAATC-AGAGGTATTT
1 T-AGTAATTTTACAAATCGAG-GGTA-TT
* *
63329482 TGGTAATTTTACAAA-CTAGGGGTATT
1 TAGTAATTTTACAAATCGA-GGGTATT
* *
63329508 TGGTAATTTTACAAA-CCAGGGGTATTT
1 TAGTAATTTTACAAATCGA-GGGTA-TT
*
63329535 TGGTAATTTTA
1 TAGTAATTTTA
63329546 TAAACCAATG
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 31 0.25
27 90 0.72
28 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
TAGTAATTTTACAAATCGAGGGTATT
Found at i:63329535 original size:53 final size:53
Alignment explanation
Indices: 63329446--63329569 Score: 158
Period size: 53 Copynumber: 2.3 Consensus size: 53
63329436 TTACAGGTCG
* * *
63329446 AGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTT-GGTAATTTCACAAACCAGAGGTATTTTGGTAATTTTACAAACCA
* * * *
63329500 GGGGTATTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTGGTAATTTCACAAACCAGAGGTATTTTGGTAATTTTACAAACCA
*
63329553 ATGGTATTTTGGTAATT
1 AGGGTA-TTTGGTAATT
63329570 CTACCCTACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 42 0.70
54 18 0.30
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGTATTTGGTAATTTCACAAACCAGAGGTATTTTGGTAATTTTACAAACCA
Found at i:63329550 original size:27 final size:27
Alignment explanation
Indices: 63329447--63329569 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
63329437 TACAGGTCGA
** * *
63329447 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
63329474 AGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
63329501 GGGTA-TTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
63329527 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
63329554 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
63329570 CTACCCTACA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 25 0.30
27 59 0.70
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:63329615 original size:27 final size:27
Alignment explanation
Indices: 63329564--63329633 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
63329554 TGGTATTTTG
*
63329564 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
**
63329591 GTAATTCTACCCTACAAGGTTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
63329618 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
63329634 GATATGAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:63331461 original size:18 final size:18
Alignment explanation
Indices: 63331438--63331479 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
63331428 CGGGGTTGAG
*
63331438 ACACGGGCGTGTGTGACC
1 ACACGGGCATGTGTGACC
*
63331456 ACACGGTCATGTGTGACC
1 ACACGGGCATGTGTGACC
63331474 ACACGG
1 ACACGG
63331480 TCTGCCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (18 bp):
ACACGGGCATGTGTGACC
Found at i:63331480 original size:18 final size:18
Alignment explanation
Indices: 63331447--63331481 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63331437 GACACGGGCG
63331447 TGTGTGACCACACGGTCA
1 TGTGTGACCACACGGTCA
63331465 TGTGTGACCACACGGTC
1 TGTGTGACCACACGGTC
63331482 TGCCCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (18 bp):
TGTGTGACCACACGGTCA
Found at i:63334761 original size:21 final size:21
Alignment explanation
Indices: 63334736--63334800 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
63334726 TGGATATGAT
63334736 AGGACAAAGAGAAACTCATTG
1 AGGACAAAGAGAAACTCATTG
** *
63334757 AGGAC--A-A-AAACGGA-CG
1 AGGACAAAGAGAAACTCATTG
63334773 -GGACAAAGAGAAACTCATTG
1 AGGACAAAGAGAAACTCATTG
63334793 AGGACAAA
1 AGGACAAA
63334801 AACGGACGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 4 0.12
16 1 0.03
17 6 0.19
18 2 0.06
19 6 0.19
20 1 0.03
21 12 0.38
ACGTcount: A:0.49, C:0.15, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGACAAAGAGAAACTCATTG
Found at i:63334778 original size:36 final size:36
Alignment explanation
Indices: 63334737--63334808 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63334727 GGATATGATA
63334737 GGACAAAGAGAAACTCATTGAGGACAAAAACGGACG
1 GGACAAAGAGAAACTCATTGAGGACAAAAACGGACG
63334773 GGACAAAGAGAAACTCATTGAGGACAAAAACGGACG
1 GGACAAAGAGAAACTCATTGAGGACAAAAACGGACG
63334809 ATTGGAGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.17, G:0.28, T:0.08
Consensus pattern (36 bp):
GGACAAAGAGAAACTCATTGAGGACAAAAACGGACG
Found at i:63346772 original size:29 final size:28
Alignment explanation
Indices: 63346718--63346772 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
63346708 TATAGATCAA
*
63346718 GAAAGACAAGGTTCTGACCTAGATCGGG
1 GAAAGACAAGGTTCTGACCTAAATCGGG
*
63346746 GAAAGAACAAGGTTGTGGA-CTAAATCG
1 GAAAG-ACAAGGTTCT-GACCTAAATCG
63346773 AACTATTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 16 0.70
30 2 0.09
ACGTcount: A:0.36, C:0.15, G:0.31, T:0.18
Consensus pattern (28 bp):
GAAAGACAAGGTTCTGACCTAAATCGGG
Found at i:63348887 original size:6 final size:6
Alignment explanation
Indices: 63348876--63348900 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63348866 GTTGAAACTA
63348876 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
63348901 ACATCGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:63354985 original size:47 final size:47
Alignment explanation
Indices: 63354787--63355118 Score: 529
Period size: 47 Copynumber: 6.9 Consensus size: 47
63354777 TAGTATGGCG
63354787 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
63354836 TAATAGCCGATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCC
63354885 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
63354934 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
63354981 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
63355028 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
63355075 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
63355119 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 12, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
47 151 0.57
49 111 0.42
51 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:63358125 original size:3 final size:3
Alignment explanation
Indices: 63358119--63358143 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63358109 AGGAAAGCAT
63358119 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
63358144 GAATGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:63358627 original size:60 final size:60
Alignment explanation
Indices: 63358542--63358662 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
63358532 GAAAATTTGC
*
63358542 AAATTCGAATCGAGCCAGGCAAAAAAAAGCTTACCTGAGGTCCGACCCATTTAGAAAACG
1 AAATTCGAATCGAGCCAGGCAAAAAAAAGCTTACCTGAGGTCCAACCCATTTAGAAAACG
*
63358602 AAATTTGAATCGAGCCAGGCAAAAAAAAGCTTACCTGAGGTCCAACCCATTTAGAAAACG
1 AAATTCGAATCGAGCCAGGCAAAAAAAAGCTTACCTGAGGTCCAACCCATTTAGAAAACG
63358662 A
1 A
63358663 GTCTTATTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (60 bp):
AAATTCGAATCGAGCCAGGCAAAAAAAAGCTTACCTGAGGTCCAACCCATTTAGAAAACG
Found at i:63363703 original size:20 final size:20
Alignment explanation
Indices: 63363675--63363724 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
63363665 GGTTGAGGAT
63363675 ACGGGCGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
*
63363695 ACGGACGTGTCCCAAGCCAC
1 ACGGGCGTGTCCCAAGCCAC
63363715 ACGGGCGTGT
1 ACGGGCGTGT
63363725 AACCCTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.36, G:0.32, T:0.12
Consensus pattern (20 bp):
ACGGGCGTGTCCCAAGCCAC
Found at i:63364060 original size:39 final size:39
Alignment explanation
Indices: 63364001--63364121 Score: 152
Period size: 39 Copynumber: 3.1 Consensus size: 39
63363991 AGTAAAATAA
* * * *
63364001 TTTAGTCATTCAATAACTATCAAATATTTAGTGCAGTAG
1 TTTAGTTATTCAATAACTATCAATTATTCAGTACAGTAG
* * * *
63364040 TTTAGTTATTCAATACCTATCAATTATTCAATATAGTAA
1 TTTAGTTATTCAATAACTATCAATTATTCAGTACAGTAG
* *
63364079 CTTAGTTATTCAATAACTATCAATTATTCAGTTCAGTAG
1 TTTAGTTATTCAATAACTATCAATTATTCAGTACAGTAG
63364118 TTTA
1 TTTA
63364122 CCCCTATTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (39 bp):
TTTAGTTATTCAATAACTATCAATTATTCAGTACAGTAG
Found at i:63364107 original size:18 final size:18
Alignment explanation
Indices: 63364045--63364108 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
63364035 AGTAGTTTAG
*
63364045 TTATTCAATACCTATCAA
1 TTATTCAATAACTATCAA
* * *
63364063 TTATTCAATATAGTAACTTAG
1 TTATTCAATA-ACT-A-TCAA
63364084 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
63364102 TTATTCA
1 TTATTCA
63364109 GTTCAGTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 2 0.06
20 3 0.08
21 12 0.33
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:63371649 original size:39 final size:39
Alignment explanation
Indices: 63371601--63371736 Score: 173
Period size: 39 Copynumber: 3.5 Consensus size: 39
63371591 ATTTAATCAG
* * *
63371601 TAACAATCAATTATTCAGTACAATAATTTAGTCATTCAT
1 TAACTATCAATTATTCAGTACAATAATTTAGTTATTCAA
* * * * *
63371640 TAACTATCAAATATTTAGTGCAGTAGTTTAGTTATTCAA
1 TAACTATCAATTATTCAGTACAATAATTTAGTTATTCAA
* *
63371679 TACCTATCAATTATTCAATACAATAATTTAGTTATTCAA
1 TAACTATCAATTATTCAGTACAATAATTTAGTTATTCAA
*
63371718 TAACTATCAATTGTTCAGT
1 TAACTATCAATTATTCAGT
63371737 TCAGTAGTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (39 bp):
TAACTATCAATTATTCAGTACAATAATTTAGTTATTCAA
Found at i:63371958 original size:44 final size:44
Alignment explanation
Indices: 63371880--63371968 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
63371870 TGGATTAAAC
*
63371880 CGAAGTAACAGTAACAGTACGACACACAAGGTGCCTCATTGACT
1 CGAAGTAACAGTAACAGTACGACACACAAGGTGCCTCATCGACT
* **
63371924 CGAAGTCAA-AGTAACAGTATGACAC-TTAGAGTGCCTCATCGACT
1 CGAAGT-AACAGTAACAGTACGACACACAAG-GTGCCTCATCGACT
63371968 C
1 C
63371969 AAGGTCGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 35 0.90
45 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (44 bp):
CGAAGTAACAGTAACAGTACGACACACAAGGTGCCTCATCGACT
Found at i:63373193 original size:23 final size:23
Alignment explanation
Indices: 63373167--63373229 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 23
63373157 TTAATTTATT
*
63373167 TTTAATAATAATAATAATCATAA
1 TTTAAAAATAATAATAATCATAA
*
63373190 TTTAAAAAT-AT-A-AATTATAA
1 TTTAAAAATAATAATAATCATAA
*
63373210 TTTGATAGAATAATAATAAT
1 TTT-A-AAAATAATAATAAT
63373230 AATGATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 10 0.31
21 2 0.06
22 6 0.19
23 10 0.31
24 1 0.03
25 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTAAAAATAATAATAATCATAA
Found at i:63376993 original size:14 final size:14
Alignment explanation
Indices: 63376974--63377003 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63376964 TAATGTATTT
63376974 AATTTATATAACAA
1 AATTTATATAACAA
*
63376988 AATTTATATTACAA
1 AATTTATATAACAA
63377002 AA
1 AA
63377004 CTACGTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:63378803 original size:40 final size:40
Alignment explanation
Indices: 63378620--63378850 Score: 270
Period size: 40 Copynumber: 5.8 Consensus size: 40
63378610 GGATATAGCT
* * *
63378620 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
63378660 ACTCGCACAATTGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
63378700 ACTCGCACAATTGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
63378740 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * ** *
63378780 ACTCGTACAAATGCCTTCGGGACTT-GCCCAGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
63378819 ACTAGCGGAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
63378851 TTATCATCCA
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 30 0.18
40 139 0.81
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:63386830 original size:40 final size:40
Alignment explanation
Indices: 63386752--63386971 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
63386742 AACCCAAGTA
* *
63386752 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
63386791 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
63386831 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
63386871 CCTTCGGGACTTAGCCCGGGTATAG-CACTAGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
63386909 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
63386949 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
63386972 CATCGAATAA
Statistics
Matches: 169, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 29 0.17
39 28 0.17
40 111 0.66
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:63386922 original size:118 final size:119
Alignment explanation
Indices: 63386752--63386971 Score: 372
Period size: 118 Copynumber: 1.9 Consensus size: 119
63386742 AACCCAAGTA
* * *
63386752 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
63386817 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
66 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
63386871 CCTTCGGGACTTAGCCCGGGTATAGC-ACTAGCA-AAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAG-CCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
63386934 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
65 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
63386972 CATCGAATAA
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 66 0.69
119 19 0.20
120 10 0.11
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:63386935 original size:78 final size:80
Alignment explanation
Indices: 63386752--63386971 Score: 367
Period size: 78 Copynumber: 2.8 Consensus size: 80
63386742 AACCCAAGTA
* * *
63386752 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
63386815 GTCACTAGCATAAATG
65 GTCACTAGCATAAATG
*
63386831 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
63386896 -CACTAGCA-AAATG
66 TCACTAGCATAAATG
63386909 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
63386972 CATCGAATAA
Statistics
Matches: 134, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
78 67 0.50
79 21 0.16
80 45 0.34
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCATAAATG
Found at i:63391944 original size:79 final size:81
Alignment explanation
Indices: 63391842--63392026 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
63391832 GCTCCTCGTT
* *
63391842 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
63391905 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
63391922 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
63391986 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
63392002 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63392027 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:63392026 original size:40 final size:40
Alignment explanation
Indices: 63391842--63392026 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
63391832 GCTCCTCGTT
* *
63391842 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
63391882 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
63391922 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
63391961 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
63392002 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63392027 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:63394920 original size:26 final size:24
Alignment explanation
Indices: 63394875--63394924 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
63394865 TTGTAAATCA
*
63394875 GAAAAATATCTTTAGAAATTTTCT
1 GAAAAATATCTTCAGAAATTTTCT
*
63394899 GAAATAATCTCTTCAGAGAATTTTCT
1 GAAA-AATATCTTCAGA-AATTTTCT
63394925 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (24 bp):
GAAAAATATCTTCAGAAATTTTCT
Found at i:63395144 original size:62 final size:60
Alignment explanation
Indices: 63395032--63395149 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 60
63395022 ATCAATTTAA
* * * *
63395032 TATTAAATTAATATAATATTTTTTCAAGATAAATATTAGTTTAAATTTAATATTAAACAT
1 TATTAAAGTAATAGAATATTTTTTCAAGATAAACATTAATTTAAATTTAATATTAAACAT
*
63395092 TATTAAAGTAATAGAATGTTTTTCTACAAGATAAACATTAAATTT-AATTTAATATTAA
1 TATTAAAGTAATAGAATATTTTT-T-CAAGATAAACATT-AATTTAAATTTAATATTAA
63395150 GGTAACCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 20 0.40
61 1 0.02
62 25 0.50
63 4 0.08
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (60 bp):
TATTAAAGTAATAGAATATTTTTTCAAGATAAACATTAATTTAAATTTAATATTAAACAT
Found at i:63397290 original size:19 final size:21
Alignment explanation
Indices: 63397266--63397310 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
63397256 ACATCATTTT
63397266 CAGAAGC-C-TGAAAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
*
63397285 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
63397306 CAGAA
1 CAGAA
63397311 ATCCGTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (21 bp):
CAGAAGCTCATGAAAGCTAAA
Found at i:63397328 original size:21 final size:21
Alignment explanation
Indices: 63397304--63397373 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
63397294 ATGAGAGCTA
* *
63397304 AACAGAAATCCGTAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
63397325 AACA-AAAGCTCATAAGAGATG
1 AACAGAAA-CCCATAAGGGTTG
* *
63397346 AACGGAAACCCATAAGGGTTA
1 AACAGAAACCCATAAGGGTTG
63397367 AACAGAA
1 AACAGAA
63397374 GCTCAATAGG
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 3 0.08
21 30 0.83
22 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:63397390 original size:42 final size:42
Alignment explanation
Indices: 63397281--63397437 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
63397271 GCCTGAAAGC
* * * * *
63397281 TAAACAGAAGCTCATGAGAGCTAAACAGAAATCCGTAAGGGT
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
* * *
63397323 TGAACAAAAGCTCATAAGAGATGAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
* * * *
63397365 TAAACAGAAGCTCA-ATAGGGCTGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCATA-AGAGCTGAACGGAAACCCATAAGGGT
* * * * *
63397407 TTAATAGAAGCTCGTGAGAGCTAAACGGAAA
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAA
63397438 GTAAACATGA
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 91 0.99
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
Found at i:63397399 original size:21 final size:22
Alignment explanation
Indices: 63397344--63397399 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
63397334 TCATAAGAGA
* *
63397344 TGAACGGAAAC-CCATAAGGGT
1 TGAACGGAAACTCAATAAGGGC
* * *
63397365 TAAACAGAAGCTCAAT-AGGGC
1 TGAACGGAAACTCAATAAGGGC
63397386 TGAACGGAAACTCA
1 TGAACGGAAACTCA
63397400 TATGAGTTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (22 bp):
TGAACGGAAACTCAATAAGGGC
Found at i:63400045 original size:140 final size:140
Alignment explanation
Indices: 63399835--63400118 Score: 435
Period size: 140 Copynumber: 2.0 Consensus size: 140
63399825 GTTTATGAAG
* * * *
63399835 AAGAAGGATGGCACGATGCGGTTATGTGTAGACTATATACAGTTGAATAAGTTGAGCATTAAGAA
1 AAGAAGGATGGCACGATGCGGTTACGTGTAAACTATATACAGTTGAATAAGTTCACCATTAAGAA
* * * * * *
63399900 TAAGTATCCTTTGCCTCAAATTGATGACTTATTTTATTAGTTCAGAGGAGCAATGATGTTTTCAA
66 AAAGTATCATTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCAA
63399965 AGATTAACCT
131 AGATTAACCT
*
63399975 AAGAAGGATGGCACGATGCGGTTACGTAG-AAACTCTATACAGTTGAATAAGTTCACCATTAAGA
1 AAGAAGGATGGCACGATGCGGTTACGT-GTAAACTATATACAGTTGAATAAGTTCACCATTAAGA
*
63400039 AAAAGTATCATTTTCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCA
65 AAAAGTATCATTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCA
*
63400104 AAGATTGACCT
130 AAGATTAACCT
63400115 AAGA
1 AAGA
63400119 TTGGGGTATT
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
140 129 0.99
141 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (140 bp):
AAGAAGGATGGCACGATGCGGTTACGTGTAAACTATATACAGTTGAATAAGTTCACCATTAAGAA
AAAGTATCATTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCAA
AGATTAACCT
Found at i:63401881 original size:26 final size:26
Alignment explanation
Indices: 63401852--63401904 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
63401842 GTACCATTTG
63401852 AAGCATTGTATGGTAGGAAGTGTAGA
1 AAGCATTGTATGGTAGGAAGTGTAGA
63401878 AAGCATTGTATGGTAGGAAGTGTAGA
1 AAGCATTGTATGGTAGGAAGTGTAGA
63401904 A
1 A
63401905 CTCCTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (26 bp):
AAGCATTGTATGGTAGGAAGTGTAGA
Found at i:63407074 original size:17 final size:17
Alignment explanation
Indices: 63407052--63407085 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63407042 CACTAATATG
63407052 AAAATGAAATGACAATA
1 AAAATGAAATGACAATA
*
63407069 AAAATGTAATGACAATA
1 AAAATGAAATGACAATA
63407086 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGAAATGACAATA
Found at i:63407229 original size:17 final size:15
Alignment explanation
Indices: 63407196--63407234 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
63407186 TTGCACGATG
63407196 TTTCTTTCTCCTCTT
1 TTTCTTTCTCCTCTT
*
63407211 TTTCTTCTCTTCCTTTT
1 TTTCTT-TC-TCCTCTT
63407228 TTTCTTT
1 TTTCTTT
63407235 TTTATCCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 3 0.14
17 12 0.57
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTCTCCTCTT
Found at i:63407533 original size:5 final size:6
Alignment explanation
Indices: 63407508--63407532 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63407498 CAATAGAATC
63407508 TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT T
63407533 CCATTTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:63408114 original size:31 final size:31
Alignment explanation
Indices: 63408074--63408141 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
63408064 AAAGGATCAA
63408074 ACAGTAGTATAGACTGAATTATAAATGGTAGT
1 ACAG-AGTATAGACTGAATTATAAATGGTAGT
*
63408106 ACAGAGTATAGACTGAGTTATAAATGGTAGT
1 ACAGAGTATAGACTGAATTATAAATGGTAGT
63408137 ACAGA
1 ACAGA
63408142 CTTATGGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (31 bp):
ACAGAGTATAGACTGAATTATAAATGGTAGT
Found at i:63411008 original size:5 final size:5
Alignment explanation
Indices: 63410998--63411034 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
63410988 ATATACTCAT
* *
63410998 AATTC AATTC AATTC AATCC AATCC AATTC AATTC AA
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AA
63411035 CAATACCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (5 bp):
AATTC
Found at i:63411743 original size:19 final size:19
Alignment explanation
Indices: 63411719--63411759 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63411709 ATTTCGTTTG
63411719 TTTTGTTTCTTTAATTCCT
1 TTTTGTTTCTTTAATTCCT
* *
63411738 TTTTGTTTCTTTTATTTCT
1 TTTTGTTTCTTTAATTCCT
63411757 TTT
1 TTT
63411760 ATTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTGTTTCTTTAATTCCT
Found at i:63411776 original size:8 final size:8
Alignment explanation
Indices: 63411763--63411796 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
63411753 TTCTTTTATT
63411763 TAATATAA
1 TAATATAA
63411771 TAATATAA
1 TAATATAA
* *
63411779 TAATGTTA
1 TAATATAA
63411787 TAATATAA
1 TAATATAA
63411795 TA
1 TA
63411797 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:63416827 original size:40 final size:40
Alignment explanation
Indices: 63416772--63416848 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
63416762 TGTTTCTTTT
63416772 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
1 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
63416812 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAAC
1 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAAC
63416849 CAAAGCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (40 bp):
GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
Found at i:63417570 original size:27 final size:27
Alignment explanation
Indices: 63417532--63417691 Score: 214
Period size: 27 Copynumber: 5.9 Consensus size: 27
63417522 ATATATACAT
* * *
63417532 CACATAGGGGCAAAACAGTTATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
63417559 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
63417586 CACATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
63417613 CACATAAAGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
63417640 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
63417667 CACATTAGGGCAAGAA-AGTCATTTT
1 CACATAAGGGCAA-AACAGTCATTTT
63417692 GATCAATCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 116 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:63435104 original size:13 final size:13
Alignment explanation
Indices: 63435083--63435115 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
63435073 GGTTGTTTAT
*
63435083 TAAACTAATTAAC
1 TAAATTAATTAAC
63435096 TAAATTAATTAAC
1 TAAATTAATTAAC
63435109 T-AATTAA
1 TAAATTAA
63435116 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTAATTAAC
Found at i:63448555 original size:18 final size:18
Alignment explanation
Indices: 63448522--63448556 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63448512 TATCAGAACT
63448522 AGAATCAAAATGAGAATC
1 AGAATCAAAATGAGAATC
* *
63448540 AGAATCAGAATTAGAAT
1 AGAATCAAAATGAGAAT
63448557 GTGAATGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (18 bp):
AGAATCAAAATGAGAATC
Found at i:63448759 original size:27 final size:26
Alignment explanation
Indices: 63448674--63448740 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
63448664 AGTATGACTG
*
63448674 CCAGAACAGATATTGT-GACAGAGTCA
1 CCAGAACAGATATTGTAG-CAGAGCCA
63448700 CCAGATACAGATATTGTAGCAGAGCCA
1 CCAGA-ACAGATATTGTAGCAGAGCCA
63448727 CCAGAACAGATATT
1 CCAGAACAGATATT
63448741 TGTGGTATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 14 0.37
27 23 0.61
28 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTAGCAGAGCCA
Found at i:63448968 original size:22 final size:22
Alignment explanation
Indices: 63448940--63449004 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
63448930 GCAAATACGT
*
63448940 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
63448962 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
63448984 TTGGCGTAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
63449005 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:63449423 original size:27 final size:27
Alignment explanation
Indices: 63449393--63449749 Score: 427
Period size: 27 Copynumber: 13.2 Consensus size: 27
63449383 GGGAAAAATG
* *
63449393 GTAATTTTACCCCAC-GAGGGTATCTT-A
1 GTAATTCTACCCTACAG-GGGTAT-TTCA
*
63449420 GTAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
63449447 GTATTTCAACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
63449474 GTAATTTTACCCTACAGGGGAATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
63449501 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
63449527 GATAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
63449555 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
63449581 GATAATTCTACCTTATAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
63449609 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
63449636 GTAATTCTACCCTATAGGGGTATGTT-G
1 GTAATTCTACCCTACAGGGGTAT-TTCA
* * *
63449663 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
63449690 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
63449717 GTAATTCTACCCTATAAAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
63449744 GTAATT
1 GTAATT
63449750 TTGTAAATCG
Statistics
Matches: 287, Mismatches: 35, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.02
27 277 0.97
28 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:63451923 original size:11 final size:12
Alignment explanation
Indices: 63451893--63451926 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
63451883 GTATATTTAC
63451893 TTATTATATAAG
1 TTATTATATAAG
63451905 TATATTAT-TAAG
1 T-TATTATATAAG
63451917 TTATTATATA
1 TTATTATATA
63451927 TATATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:63457086 original size:27 final size:26
Alignment explanation
Indices: 63457038--63457303 Score: 311
Period size: 27 Copynumber: 9.9 Consensus size: 26
63457028 GTGAGGCTGC
* *
63457038 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
63457065 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
63457091 CAGATATCTGTGGCAGAGCCACCAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
63457118 CAGATATCTGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
63457145 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
* * *
63457172 TAGATATATGTGGCGGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
63457199 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
* *
63457226 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
63457253 CAGATATATGTGGCAGAGCCACCA-AA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
63457279 TCAGATAATTGTGGCATAGCCACCA
1 -CAGAT-ATTGTGGCAGAGCCACCA
63457304 AGACGCTTCC
Statistics
Matches: 214, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.06
27 195 0.91
28 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:63457158 original size:81 final size:81
Alignment explanation
Indices: 63457056--63457303 Score: 360
Period size: 81 Copynumber: 3.1 Consensus size: 81
63457046 GTGACGAAGT
* *
63457056 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATCTGTGGCAGAGCCACCAGAACAG
1 CACCAGAT-CAGATATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAG
*
63457121 AT-ATCTGTGGCAGAGC
65 ATAATCTGTGGCATAGC
* * *
63457137 CACCAGATCAGATATTTGTGGCATAGCCACCAGAATAGATATATGTGGCGGAGCCACCAGATCAG
1 CACCAGATCAGATA-TTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAG
63457202 ATAATC-GTGGCATAGC
65 ATAATCTGTGGCATAGC
* *
63457218 CACCAGAACAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCA-AATCA
1 CACCAGATCAGAT-ATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAA-CA
63457282 GATAAT-TGTGGCATAGC
64 GATAATCTGTGGCATAGC
63457299 CACCA
1 CACCA
63457304 AGACGCTTCC
Statistics
Matches: 151, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
80 7 0.05
81 140 0.93
82 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (81 bp):
CACCAGATCAGATATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGA
TAATCTGTGGCATAGC
Found at i:63458961 original size:26 final size:26
Alignment explanation
Indices: 63458925--63459032 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
63458915 TGAAATTCCC
*
63458925 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
63458951 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
63458977 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63459003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63459029 ATCA
1 ATCA
63459033 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63468482 original size:27 final size:27
Alignment explanation
Indices: 63468432--63468484 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63468422 TAGTAACAGT
* *
63468432 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAAAATCAGG
63468459 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
63468485 TATCAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAAAATCAGG
Found at i:63468674 original size:22 final size:22
Alignment explanation
Indices: 63468625--63468667 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
63468615 CACTAAGTCA
*
63468625 ACAGGATGGCTCAATGCCGTAC
1 ACAGGATGGCTCAACGCCGTAC
63468647 ACAGGATGGCTCAACGCCGTA
1 ACAGGATGGCTCAACGCCGTA
63468668 GTCAGGACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (22 bp):
ACAGGATGGCTCAACGCCGTAC
Found at i:63468983 original size:27 final size:27
Alignment explanation
Indices: 63468911--63468996 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
63468901 TACGGAACAT
* * *
63468911 AAGGGCATAATCGTCATTCTACCATAC
1 AAGGGCATAATGGTCATTTTACCCTAC
* *
63468938 AGGGGTATAATGGTCATTTTACCCTAC
1 AAGGGCATAATGGTCATTTTACCCTAC
* * *
63468965 AAGGGCATTATGGTCATTTTACACTAT
1 AAGGGCATAATGGTCATTTTACCCTAC
63468992 AAGGG
1 AAGGG
63468997 TATTTTCGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
AAGGGCATAATGGTCATTTTACCCTAC
Found at i:63469010 original size:27 final size:27
Alignment explanation
Indices: 63468953--63469014 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
63468943 TATAATGGTC
* * *
63468953 ATTTTACCCTACAAGGGCATTATGGTC
1 ATTTTACACTACAAGGGCATTATCGTA
* * *
63468980 ATTTTACACTATAAGGGTATTTTCGTA
1 ATTTTACACTACAAGGGCATTATCGTA
63469007 ATTTTACA
1 ATTTTACA
63469015 AATATTGGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGCATTATCGTA
Found at i:63471967 original size:26 final size:26
Alignment explanation
Indices: 63471938--63471990 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
63471928 TAGTAATAGT
* *
63471938 TGGGCCT-AGCCCATTAACACAATCAG
1 TGGGCCTAAGCCCAGT-ACAAAATCAG
63471964 TGGGCCTAAGCCCAGTACAAAATCAG
1 TGGGCCTAAGCCCAGTACAAAATCAG
63471990 T
1 T
63471991 ATCAGATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (26 bp):
TGGGCCTAAGCCCAGTACAAAATCAG
Found at i:63478716 original size:41 final size:42
Alignment explanation
Indices: 63478610--63478756 Score: 224
Period size: 41 Copynumber: 3.5 Consensus size: 42
63478600 AGCGGCGTTT
* *
63478610 TTTTGAAAAAAGCGCCGCTAAAAACCAGGACTTTTAGCGGCGC
1 TTTT-AAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
* *
63478653 TTTTAAAAAAACACCGCAAAAGACCAGGACTTTTAGCGGCGC
1 TTTTAAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
*
63478695 TTTT-AAAAAACGCCGCTAAAGACCAGGACTTTTAACGGCGC
1 TTTTAAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
63478736 TTTTAAAAAAAACGCCGCTAA
1 TTTT-AAAAAAACGCCGCTAA
63478757 TTTGCCCAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
41 38 0.40
42 38 0.40
43 19 0.20
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
TTTTAAAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGC
Found at i:63479074 original size:21 final size:21
Alignment explanation
Indices: 63479050--63479097 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
63479040 TTCTGTTCTG
*
63479050 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
63479071 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
63479092 CTCCGC
1 CTCCGC
63479098 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.00, C:0.58, G:0.21, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:63484659 original size:9 final size:9
Alignment explanation
Indices: 63484645--63484772 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
63484635 ATGTATTAGT
63484645 TAAGTTATG
1 TAAGTTATG
63484654 TAAGTTGTTATG
1 TAA---GTTATG
*
63484666 TACGTTATG
1 TAAGTTATG
*
63484675 TGAGTTATG
1 TAAGTTATG
*
63484684 TAAATTATG
1 TAAGTTATG
63484693 TAAGTTATG
1 TAAGTTATG
*
63484702 TGAGTTATG
1 TAAGTTATG
63484711 TAAGTTGTTATG
1 TAA---GTTATG
*
63484723 TAAATTATG
1 TAAGTTATG
*
63484732 TAAGTTATA
1 TAAGTTATG
* *
63484741 TGAGTTATT
1 TAAGTTATG
63484750 TAAGTTATG
1 TAAGTTATG
* *
63484759 TAATTTATT
1 TAAGTTATG
63484768 TAAGT
1 TAAGT
63484773 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 78 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:63484772 original size:57 final size:57
Alignment explanation
Indices: 63484645--63484772 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
63484635 ATGTATTAGT
** * *
63484645 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * * *
63484702 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATTTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
63484759 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
63484773 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:63486542 original size:183 final size:184
Alignment explanation
Indices: 63486233--63486602 Score: 688
Period size: 183 Copynumber: 2.0 Consensus size: 184
63486223 CCTAGAACAG
*
63486233 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
1 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
* *
63486298 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCGATAGTTGCAGGAG
66 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
63486363 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
63486417 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATAT-AAAAACTTTATCTA
1 ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
*
63486481 TATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
66 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
*
63486546 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
63486600 ATG
1 ATG
63486603 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
183 132 0.73
184 49 0.27
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (184 bp):
ATGTAAGATTATAAAAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:63486692 original size:14 final size:13
Alignment explanation
Indices: 63486673--63486702 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
63486663 CAATATAATT
63486673 TTACTTCATATATA
1 TTACTTCATATA-A
63486687 TTACTTCATATAA
1 TTACTTCATATAA
63486700 TTA
1 TTA
63486703 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:63489306 original size:28 final size:28
Alignment explanation
Indices: 63489233--63489329 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
63489223 CAAAACTCTA
*
63489233 AACCTTAAACCATTAAACTATATCCCTAT
1 AACCTTAAACCATTAAACTATATCCC-CT
63489262 AACCTTAAACC-TTAAACTATATCCCCT
1 AACCTTAAACCATTAAACTATATCCCCT
* ** * *
63489289 AACCATAAACCACAAAACAATAACCCCT
1 AACCTTAAACCATTAAACTATATCCCCT
63489317 AAGCCTT-AACCAT
1 AA-CCTTAAACCAT
63489330 AAAATGTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.19
28 33 0.57
29 14 0.24
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (28 bp):
AACCTTAAACCATTAAACTATATCCCCT
Found at i:63489487 original size:49 final size:49
Alignment explanation
Indices: 63489428--63489579 Score: 189
Period size: 49 Copynumber: 3.0 Consensus size: 49
63489418 CTTAAACCAT
63489428 TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
1 TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
*
63489477 TAAATTATATCCCTATAACCTTAAACCCTAAAGTATATATATATCCCCTAAACCC
1 TAAACTATATCCCTATAACCTTAAACCCT--A--A-A-ATATATCCCCTAAACCC
* * * *
63489532 TAAACTATATCCC-CTAACCATAAACCATAAAATACTAACCCCTAAACC
1 TAAACTATATCCCTATAACCTTAAACCCTAAAATA-TATCCCCTAAACC
63489580 TTAACCACAA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
48 3 0.03
49 41 0.46
50 1 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 13 0.14
55 29 0.32
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (49 bp):
TAAACTATATCCCTATAACCTTAAACCCTAAAATATATCCCCTAAACCC
Found at i:63489501 original size:21 final size:21
Alignment explanation
Indices: 63489449--63489489 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
63489439 CCTATAACCT
63489449 TAAACCCTAAAATATATCCCC
1 TAAACCCTAAAATATATCCCC
*
63489470 TAAACCCTAAATTATATCCC
1 TAAACCCTAAAATATATCCC
63489490 TATAACCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAACCCTAAAATATATCCCC
Found at i:63489555 original size:20 final size:21
Alignment explanation
Indices: 63489516--63489556 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
63489506 AAAGTATATA
*
63489516 TATATCCCCTAAACCCTAAAC
1 TATATCCCCTAAACCATAAAC
63489537 TATATCCCCT-AACCATAAAC
1 TATATCCCCTAAACCATAAAC
63489557 CATAAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
TATATCCCCTAAACCATAAAC
Found at i:63489729 original size:14 final size:14
Alignment explanation
Indices: 63489686--63489731 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
63489676 CTTAAACCAT
63489686 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
63489700 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
63489713 TAAACTATATCCCC
1 TAAACTATATCCCC
63489727 TAAAC
1 TAAAC
63489732 CTTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:63489788 original size:22 final size:22
Alignment explanation
Indices: 63489763--63489842 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
63489753 CCCTAAGCAT
63489763 TAACCCATAAACCATTAACCCA
1 TAACCCATAAACCATTAACCCA
* *
63489785 TAACCTATAAACCCTTAA-CCA
1 TAACCCATAAACCATTAACCCA
* *
63489806 CTAGCCCAT-AACCCTTAAACCC-
1 -TAACCCATAAACCATT-AACCCA
* *
63489828 CAACCCTTAAACCAT
1 TAACCCATAAACCAT
63489843 AAGCCGTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 15 0.33
22 29 0.63
23 2 0.04
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.20
Consensus pattern (22 bp):
TAACCCATAAACCATTAACCCA
Found at i:63489797 original size:15 final size:14
Alignment explanation
Indices: 63489749--63489882 Score: 53
Period size: 15 Copynumber: 9.4 Consensus size: 14
63489739 CACAAAATAA
* *
63489749 AAACCCCTAAGCAT
1 AAACCCATAACCAT
*
63489763 TAACCCATAAACCAT
1 AAACCCAT-AACCAT
*
63489778 TAACCCATAACCTAT
1 AAACCCATAACC-AT
*
63489793 AAACCCTTAACCACT
1 AAACCCATAACCA-T
* *
63489808 -AGCCCATAACCCTT
1 AAACCCATAA-CCAT
* *
63489822 AAACCCCA-ACCCTT
1 AAA-CCCATAACCAT
*
63489836 AAA-CCATAAGCCGT
1 AAACCCATAA-CCAT
*
63489850 AAA--CATAATCCCT
1 AAACCCATAA-CCAT
*
63489863 AAACCCATAAACCCT
1 AAACCCAT-AACCAT
63489878 AAACC
1 AAACC
63489883 TTTAAATAGT
Statistics
Matches: 95, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
12 3 0.03
13 12 0.13
14 32 0.34
15 42 0.44
16 6 0.06
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (14 bp):
AAACCCATAACCAT
Found at i:63489804 original size:29 final size:28
Alignment explanation
Indices: 63489772--63489853 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
63489762 TTAACCCATA
*
63489772 AACCATTAACCCATAA-CCTATAAACCCTT
1 AACCATTAACCCATAACCCT-TAAACCC-C
* *
63489801 AACCACTAGCCCATAACCCTTAAACCCC
1 AACCATTAACCCATAACCCTTAAACCCC
* * * *
63489829 AACCCTTAAACCATAAGCCGTAAAC
1 AACCATTAACCCATAACCCTTAAAC
63489854 ATAATCCCTA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
28 19 0.44
29 21 0.49
30 3 0.07
ACGTcount: A:0.40, C:0.38, G:0.04, T:0.18
Consensus pattern (28 bp):
AACCATTAACCCATAACCCTTAAACCCC
Found at i:63489888 original size:15 final size:15
Alignment explanation
Indices: 63489764--63489882 Score: 58
Period size: 15 Copynumber: 8.3 Consensus size: 15
63489754 CCTAAGCATT
* *
63489764 AACCCATAAACCATT
1 AACCCATAAACCCTA
*
63489779 AACCCAT-AACCTATA
1 AACCCATAAACC-CTA
*
63489794 AACCC-TTAACCACT-
1 AACCCATAAACC-CTA
*
63489808 AGCCCAT-AACCCTTA
1 AACCCATAAACCC-TA
*
63489823 AACCC--CAACCCTTA
1 AACCCATAAACCC-TA
* *
63489837 AA-CCATAAGCCGTA
1 AACCCATAAACCCTA
*
63489851 AA--CATAATCCCTA
1 AACCCATAAACCCTA
63489864 AACCCATAAACCCTA
1 AACCCATAAACCCTA
63489879 AACC
1 AACC
63489883 TTTAAATAGT
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
13 14 0.17
14 28 0.34
15 41 0.49
ACGTcount: A:0.42, C:0.38, G:0.03, T:0.18
Consensus pattern (15 bp):
AACCCATAAACCCTA
Found at i:63490481 original size:40 final size:40
Alignment explanation
Indices: 63490437--63490679 Score: 337
Period size: 40 Copynumber: 6.0 Consensus size: 40
63490427 TGCTTAATCT
*
63490437 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCT-AAAAA-CGCCGCTAATGCTCGATC
*
63490477 TTTAGCGGCGCTTTCCTAAAAACACCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATC
*
63490518 TTTAGCGGCGCTTTCCTAAAAATGCCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATC
*
63490559 TTTAGTGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
** *
63490599 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCGACC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
* ** *
63490639 TTTAGCAGCGCTTTGTTAAAAACACCGCTAATGCTCGATC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
63490679 T
1 T
63490680 ATTCGATTTT
Statistics
Matches: 187, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 101 0.54
41 85 0.45
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (40 bp):
TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATC
Found at i:63490547 original size:81 final size:80
Alignment explanation
Indices: 63490437--63490679 Score: 346
Period size: 81 Copynumber: 3.0 Consensus size: 80
63490427 TGCTTAATCT
*
63490437 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAAC
1 TTTAGCGGCGCTTTCCT-AAAAA-CGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAAC
63490500 ACCGCTAATGCTCAGATC
64 ACCGCTAATGCTC-GATC
* * *
63490518 TTTAGCGGCGCTTTCCTAAAAATGCCGCTAATGCTCAGATCTTTAGTGGCGCTTTCCTAAAAACG
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCCTAAAAACA
63490583 CCGCTAATGCTCGATC
65 CCGCTAATGCTCGATC
** * * **
63490599 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCGACCTTTAGCAGCGCTTTGTTAAAAACAC
1 TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAACAC
63490664 CGCTAATGCTCGATC
66 CGCTAATGCTCGATC
63490679 T
1 T
63490680 ATTCGATTTT
Statistics
Matches: 146, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
80 39 0.27
81 60 0.41
82 46 0.32
83 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (80 bp):
TTTAGCGGCGCTTTCCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCCTAAAAACAC
CGCTAATGCTCGATC
Found at i:63502721 original size:31 final size:31
Alignment explanation
Indices: 63502662--63502741 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
63502652 ACACATATAT
*
63502662 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
63502694 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
63502725 TTATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
63502742 TATAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 10 0.24
31 27 0.66
32 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:63502727 original size:23 final size:23
Alignment explanation
Indices: 63502668--63502727 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
63502658 ATATATATAC
63502668 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
63502688 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
63502711 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
63502728 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:63509530 original size:16 final size:17
Alignment explanation
Indices: 63509509--63509541 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
63509499 CACATTGAAG
63509509 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
63509525 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
63509542 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:63511034 original size:15 final size:17
Alignment explanation
Indices: 63511008--63511041 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
63510998 TATTTAATTA
63511008 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
63511024 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
63511040 TT
1 TT
63511042 AGTTCCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:63512718 original size:24 final size:25
Alignment explanation
Indices: 63512666--63512721 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
63512656 CTGTAAATGG
* * *
63512666 TAAGCTCCTCTGAGCTAAATAATGG
1 TAAGCTCCTCCGAGCTAAATAACGA
*
63512691 TAAGCTCCTCCGA-CTGAATAACGA
1 TAAGCTCCTCCGAGCTAAATAACGA
63512715 TAAGCTC
1 TAAGCTC
63512722 ATATGAGCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTAAATAACGA
Found at i:63512743 original size:25 final size:24
Alignment explanation
Indices: 63512715--63512766 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
63512705 TGAATAACGA
* *
63512715 TAAGCTCATATGAGCTGAGTATCGG
1 TAAGCTCATAAGAGCTGA-AATCGG
63512740 TAAGCTCATAAGAGCTGAAATCGG
1 TAAGCTCATAAGAGCTGAAATCGG
63512764 TAA
1 TAA
63512767 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
TAAGCTCATAAGAGCTGAAATCGG
Found at i:63515437 original size:2 final size:2
Alignment explanation
Indices: 63515430--63515494 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
63515420 TACTATTAGC
63515430 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
63515472 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
63515495 CTAGTTCAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:63515692 original size:19 final size:19
Alignment explanation
Indices: 63515663--63515702 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
63515653 AAAGTAGTGG
*
63515663 AAATTTATTTTTTA-GAAT
1 AAATTTATTTTCTAGGAAT
63515681 AAATTCTATTTTCTAGGAAT
1 AAATT-TATTTTCTAGGAAT
63515701 AA
1 AA
63515703 CAATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AAATTTATTTTCTAGGAAT
Found at i:63521733 original size:20 final size:20
Alignment explanation
Indices: 63521695--63521733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63521685 ACATGTATTC
* *
63521695 ATCAAATTTCAGAATTTTTT
1 ATCAAATTTCACAACTTTTT
*
63521715 ATCAAATTTTACAACTTTT
1 ATCAAATTTCACAACTTTT
63521734 CATTTTAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATCAAATTTCACAACTTTTT
Found at i:63523997 original size:21 final size:20
Alignment explanation
Indices: 63523967--63524007 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
63523957 GTAGCTTCGA
*
63523967 TGTTCAGTGTAGCGACATTG
1 TGTTCAGTGTAGCAACATTG
*
63523987 TGTTCTAGTGTTGCAACATTG
1 TGTTC-AGTGTAGCAACATTG
63524008 AAGCTGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (20 bp):
TGTTCAGTGTAGCAACATTG
Found at i:63525234 original size:56 final size:56
Alignment explanation
Indices: 63525172--63525378 Score: 308
Period size: 56 Copynumber: 3.7 Consensus size: 56
63525162 ATCGCAATAC
* * * * * *
63525172 ATGAATGTATGTATGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCAATGGCAAGATCTGATATAACTGA
* * *
63525228 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGTAAGATCTGATATTACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCAATGGCAAGATCTGATATAACTGA
63525284 ATGAATGTATGTAAGACCATGAGGTTAAGACCAATGGCAAGATCTGATATAACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCAATGGCAAGATCTGATATAACTGA
*
63525340 ATGAATGTATGTAAGACCATGTGGTTAAGACACAA-GGCA
1 ATGAATGTATGTAAGACCATGAGGTTAAGAC-CAATGGCA
63525379 TTATATGAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
56 136 0.98
57 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (56 bp):
ATGAATGTATGTAAGACCATGAGGTTAAGACCAATGGCAAGATCTGATATAACTGA
Found at i:63527655 original size:21 final size:21
Alignment explanation
Indices: 63527605--63527656 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
63527595 AAACAAATAC
*
63527605 CTCATATTTTTTTGGTATTCT
1 CTCATAATTTTTTGGTATTCT
* *
63527626 CTAAT-ATTTTTTGTTATTC-
1 CTCATAATTTTTTGGTATTCT
63527645 CTTCATAATTTT
1 C-TCATAATTTT
63527657 GGGTACACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.62
Consensus pattern (21 bp):
CTCATAATTTTTTGGTATTCT
Found at i:63527656 original size:20 final size:20
Alignment explanation
Indices: 63527633--63527697 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
63527623 TCTCTAATAT
* *
63527633 TTTTTGTTATTCCTTCATAA
1 TTTTTGGTAATCCTTCATAA
*
63527653 TTTTGGGTACA-CCTTCATAA
1 TTTTTGGTA-ATCCTTCATAA
* * *
63527673 TTATTGGTAATCCCTCGTAA
1 TTTTTGGTAATCCTTCATAA
63527693 TTTTT
1 TTTTT
63527698 AGTGTTCTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTTTGGTAATCCTTCATAA
Found at i:63527846 original size:22 final size:22
Alignment explanation
Indices: 63527803--63527847 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63527793 ATATTTTTGC
***
63527803 ATACTAATAAATTTTGTTATAT
1 ATACTAATAAATTTTAAAATAT
63527825 ATACTAATAAATTTTAAAATAT
1 ATACTAATAAATTTTAAAATAT
63527847 A
1 A
63527848 AATGACCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
ATACTAATAAATTTTAAAATAT
Found at i:63535797 original size:42 final size:42
Alignment explanation
Indices: 63535685--63535806 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
63535675 TACTGTACCA
* *
63535685 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * *
63535727 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
63535770 ATTCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
63535807 GTAACCTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:63537967 original size:21 final size:20
Alignment explanation
Indices: 63537941--63537986 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
63537931 TCCCTTATAA
*
63537941 TTTTTGGTACTCACCTCATTT
1 TTTTTGGTACTC-CCTCATGT
*
63537962 TTTTTGGTATTCCCTCATGT
1 TTTTTGGTACTCCCTCATGT
63537982 TTTTT
1 TTTTT
63537987 AATACTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.59
Consensus pattern (20 bp):
TTTTTGGTACTCCCTCATGT
Found at i:63537977 original size:20 final size:22
Alignment explanation
Indices: 63537941--63537986 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
63537931 TCCCTTATAA
63537941 TTTTTGGTACTCACCTCAT-TT
1 TTTTTGGTACTCACCTCATGTT
*
63537962 TTTTTGGTATTC-CCTCATGTT
1 TTTTTGGTACTCACCTCATGTT
63537983 TTTT
1 TTTT
63537987 AATACTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTTTGGTACTCACCTCATGTT
Found at i:63538040 original size:23 final size:22
Alignment explanation
Indices: 63538014--63538062 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
63538004 GAGGTACTAC
*
63538014 AAAAAATTATAAAGAAGTACAA
1 AAAAAAATATAAAGAAGTACAA
* * *
63538036 AAAAAAATATTAGGAAGTACCA
1 AAAAAAATATAAAGAAGTACAA
63538058 AAAAA
1 AAAAA
63538063 TATGAGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAAAAATATAAAGAAGTACAA
Done.