Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 40 of 255
Found at i:10646738 original size:46 final size:46
Alignment explanation
Indices: 10646650--10646857 Score: 181
Period size: 46 Copynumber: 4.5 Consensus size: 46
10646640 TGCTGATGAT
* * **
10646650 ATGTCCTAGAGATGGTCTTACACTGAC--ACATCTCGTTGCCGATGC
1 ATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGC
* *
10646695 ATGTCCTAGATATGTCTTACACTGGCTTACATCGCGAGGCCGATGC
1 ATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGC
* * * * * *
10646741 GTGTCCCAAACATGTCTTACACTAGCTCT-CATCTCAATGCCGATGTC
1 ATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG-C
* * * * *
10646788 ATGTCCTAGACACAGTCTTACACAGGCTTTCATAAT-GTGGCCGATGC
1 ATGTCCTAGACA-TGTCTTACACTGGCTTACAT-CTCGAGGCCGATGC
*
10646835 ATGTCCCAGACATGTCTTACACT
1 ATGTCCTAGACATGTCTTACACT
10646858 AGCACAAAAT
Statistics
Matches: 130, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
44 12 0.09
45 12 0.09
46 59 0.45
47 24 0.18
48 22 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
ATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGC
Found at i:10646816 original size:94 final size:92
Alignment explanation
Indices: 10646686--10646860 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
10646676 CACATCTCGT
* * * ** *
10646686 TGCCGATGCATGTCCTAGATATGTCTTACACTGGCTTACATCGCGAGGCCGATGCGTGTCCCAAA
1 TGCCGATGCATGTCCTAGACAAGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCAAA
10646751 CATGTCTTACACTAGCTCTCATCTCAA
66 CATGTCTTACACTAGCTCTCATCTCAA
* * *
10646778 TGCCGATGTCATGTCCTAGACACAGTCTTACACAGGCTTTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATG-CATGTCCTAGACA-AGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCA
*
10646843 GACATGTCTTACACTAGC
64 AACATGTCTTACACTAGC
10646861 ACAAAATAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 8 0.11
93 12 0.17
94 51 0.72
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
TGCCGATGCATGTCCTAGACAAGTCTTACACAGGCTTACATAACGAGGCCGATGCATGTCCCAAA
CATGTCTTACACTAGCTCTCATCTCAA
Found at i:10654119 original size:19 final size:20
Alignment explanation
Indices: 10654095--10654137 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
10654085 CATGAGATTT
*
10654095 TGATATACATGATTTG-ACA
1 TGATATACATGATATGCACA
*
10654114 TGATATGCATGATATGCACA
1 TGATATACATGATATGCACA
10654134 TGAT
1 TGAT
10654138 GTATCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (20 bp):
TGATATACATGATATGCACA
Found at i:10654266 original size:24 final size:24
Alignment explanation
Indices: 10654183--10654291 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
10654173 CGAAGAAGTG
* *
10654183 CAAAAGGGCTATGCCCTAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
10654207 CGGAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10654232 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10654257 CAAAAGGGCTTTGGCCCCAG-TTAT
1 CAAAAGGGCTTT-GCCCCAGTTTAT
*
10654281 TAAAAGAGGCT
1 CAAAAG-GGCT
10654292 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
24 21 0.28
25 55 0.72
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:10654296 original size:24 final size:24
Alignment explanation
Indices: 10654183--10654305 Score: 92
Period size: 25 Copynumber: 5.0 Consensus size: 24
10654173 CGAAGAAGTG
* *
10654183 CAAAAGGGC-TATGCCCTAGTTTAT
1 CAAAAGGGCTTAGGCCCCAG-TTAT
* *
10654207 CGGAAAGGGCTT-TGCCCCAGTTTAT
1 C-AAAAGGGCTTAGGCCCCAG-TTAT
*
10654232 CAAAAAGGGCTT-TGCCCCAGTTTAT
1 C-AAAAGGGCTTAGGCCCCAG-TTAT
*
10654257 CAAAAGGGCTTTGGCCCCAGTTAT
1 CAAAAGGGCTTAGGCCCCAGTTAT
*
10654281 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTAGGCC-CCAGTTAT
10654306 AAGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
24 25 0.29
25 61 0.70
26 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTAGGCCCCAGTTAT
Found at i:10660299 original size:40 final size:40
Alignment explanation
Indices: 10660201--10660463 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
10660191 TCCTCGTTCA
* * * * *
10660201 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10660240 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10660280 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10660320 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10660360 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
10660400 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
10660440 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10660464 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10665124 original size:25 final size:25
Alignment explanation
Indices: 10665080--10665128 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10665070 TTATAATATG
* * *
10665080 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
10665105 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
10665129 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:10665191 original size:11 final size:10
Alignment explanation
Indices: 10665159--10665212 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
10665149 CATGAGATTT
10665159 TGATAT-ACA
1 TGATATGACA
*
10665168 TGATTTGACA
1 TGATATGACA
10665178 TGATATGCACA
1 TGATATG-ACA
*
10665189 TGATATG-TA
1 TGATATGACA
10665198 TGATATGCACA
1 TGATATG-ACA
10665209 TGAT
1 TGAT
10665213 GTATCCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:10665342 original size:24 final size:24
Alignment explanation
Indices: 10665259--10665378 Score: 143
Period size: 25 Copynumber: 4.9 Consensus size: 24
10665249 GGCAGAAGTG
* *
10665259 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
10665283 CGGAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10665308 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10665333 CAAAAGGGCTTTAGCCCCAG-TTAT
1 CAAAAGGGCTTT-GCCCCAGTTTAT
* **
10665357 TAAAAGAGGCTAGGCCCCAGTT
1 CAAAAG-GGCTTTGCCCCAGTT
10665379 ATATGATAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
24 28 0.33
25 56 0.67
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:10665644 original size:31 final size:31
Alignment explanation
Indices: 10665572--10665658 Score: 140
Period size: 32 Copynumber: 2.8 Consensus size: 31
10665562 ACCGTATACA
10665572 GTAAAGGCTTCGGCCTAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCTAGTGATATGAATAAT
*
10665603 GAAAAAGGCTTCGGCCTAGTGATATGAATAAT
1 G-TAAAGGCTTCGGCCTAGTGATATGAATAAT
*
10665635 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCTAGTGATATG
10665659 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 5 0.10
31 17 0.33
32 30 0.58
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCTAGTGATATGAATAAT
Found at i:10670049 original size:126 final size:126
Alignment explanation
Indices: 10669808--10670062 Score: 393
Period size: 126 Copynumber: 2.0 Consensus size: 126
10669798 CTACTACACC
* *
10669808 GATCCGCCTAAGACTGTGGATTACCTGACAATACAGAGAAACAGATGTGAGTTTATGTAAACTCA
1 GATCCGCCTAAGACTGTGGATTACCTGACAATACAGACAAACAGATGTGAGTTTACGTAAACTCA
**
10669873 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAAAATCATAGACACAGTTGGAAATA
66 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAAAATCATAGACACAGTCAGAAATA
* * *
10669934 GATCTGCCTAAGACTGTGGATTACTTGACAATACAGACAAACAGATGTGATTTTACGTAAACTCA
1 GATCCGCCTAAGACTGTGGATTACCTGACAATACAGACAAACAGATGTGAGTTTACGTAAACTCA
* * * * * *
10669999 GTGTGTAAGCCAATATAATTAAGCATGCAATCATACAGAATCGTATACACAGTCAGAAATA
66 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAAAATCATAGACACAGTCAGAAATA
10670060 GAT
1 GAT
10670063 ATAAATACAG
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (126 bp):
GATCCGCCTAAGACTGTGGATTACCTGACAATACAGACAAACAGATGTGAGTTTACGTAAACTCA
GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAAAATCATAGACACAGTCAGAAATA
Found at i:10678083 original size:25 final size:25
Alignment explanation
Indices: 10678049--10678102 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
10678039 TGGGACTGGC
10678049 TGGGTATTATCGAAGGTTTGTAAAA
1 TGGGTATTATCGAAGGTTTGTAAAA
10678074 TGGGTATTATCGAAGGTTTGTAAAA
1 TGGGTATTATCGAAGGTTTGTAAAA
10678099 -GGGT
1 TGGGT
10678103 TCTCATTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (25 bp):
TGGGTATTATCGAAGGTTTGTAAAA
Found at i:10679555 original size:40 final size:40
Alignment explanation
Indices: 10679485--10679702 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
10679475 AAACCAAGTA
* * *
10679485 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
10679524 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
10679564 CCTTCGGGACCTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
10679604 CCTTCGGGACCTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
10679644 CCTTTGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
10679684 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
10679703 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:10687887 original size:40 final size:39
Alignment explanation
Indices: 10687809--10688027 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 39
10687799 AAACCAAGTA
* * *
10687809 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTCGCACAAATG
10687848 CCTTCGGGACTTAGCCCGGTGATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGT-ATAGTAACTCGCACAAATG
* *
10687888 CCTTCGGGACCTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
*
10687928 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * * *
10687968 CCTTTGGGACTTAGCCCAGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
10688008 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
10688028 TATCATCCGA
Statistics
Matches: 160, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.09
40 144 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:10693635 original size:60 final size:60
Alignment explanation
Indices: 10693549--10693683 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
10693539 GTGTTAACTG
*
10693549 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCT-TTAC-AGTAAC-AGAGTATACTA
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGT--CGAGA-TATACTA
* * *
10693610 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTA
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATACTA
*
10693670 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
10693684 TGACACAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 52 0.79
61 11 0.17
62 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATACTA
Found at i:10693701 original size:20 final size:19
Alignment explanation
Indices: 10693676--10693731 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10693666 ATTAGGCCTT
*
10693676 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
10693696 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
10693715 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
10693732 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:10703752 original size:43 final size:43
Alignment explanation
Indices: 10703705--10703797 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
10703695 TAGAACCTGG
* * *
10703705 TCTTTAGTAGTGCTTTTACAATAAACGCCGCTAAAAAACATGA
1 TCTTTAGCAGTGCTTTTACAACAAACGCCGCTAAAAAACAAGA
* ** * *
10703748 TCTTTAGCGGTGCTTTTATTACAAACGCTGCTAAAGAACAAGA
1 TCTTTAGCAGTGCTTTTACAACAAACGCCGCTAAAAAACAAGA
10703791 TCATTTA
1 TC-TTTA
10703798 TAGCGTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (43 bp):
TCTTTAGCAGTGCTTTTACAACAAACGCCGCTAAAAAACAAGA
Found at i:10704934 original size:27 final size:27
Alignment explanation
Indices: 10704829--10704935 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
10704819 AAACACGTCA
* **
10704829 TGAAAGAAATGCCTTTGTAGATAACTC
1 TGAAAGAAATGCCTTTGTGGCGAACTC
* * * *
10704856 TAAAAGACATGTCTTTGTGGCAAACTC
1 TGAAAGAAATGCCTTTGTGGCGAACTC
*
10704883 TGAAAGAAATGCCTTTGTAGCGAACTC
1 TGAAAGAAATGCCTTTGTGGCGAACTC
* * *
10704910 TGAAGGAAATTCCTTTGTGGTGAACT
1 TGAAAGAAATGCCTTTGTGGCGAACT
10704936 TTTAATGAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (27 bp):
TGAAAGAAATGCCTTTGTGGCGAACTC
Found at i:10708636 original size:46 final size:46
Alignment explanation
Indices: 10708542--10708714 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 46
10708532 TCTCGTAGCC
* * * * * **
10708542 GATGCATGTCCCAGACATGTCTTACA-TTGGCTTACGTCCCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCAATACT
10708588 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACT
* * *
10708634 GATGCCATGTCCGAGACATGGTCTTACACT-G-GCTC-TCAT-AATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTC-TCAATA---CT
**
10708682 GATGCATGTCCTTGACATGTCTTACACTAGCCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCC
10708715 ACAATAACCC
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 6 0.06
46 52 0.50
47 31 0.30
48 16 0.15
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACT
Found at i:10708686 original size:94 final size:94
Alignment explanation
Indices: 10708443--10708717 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 94
10708433 CATCACCGAG
* * *
10708443 GCTGATTCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCCGACGTCATGTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATAT--G-GCCGATG-CATGTC
* *
10708507 CCAGACATGGTCTTACACT-G-ACACATCTCGTA
62 CCAGACAT-GTCTTACACTAGCCCACATCTCATA
* * * ** *
10708539 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTCCCGA-GGCTGATGCATGTCCC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CAT-CATATGGCCGATGCATGTCCC
* *
10708600 AGACATGTCTTACACTAGCCCTCGTCTCAATA
64 AGACATGTCTTACACTAGCCCACATCTC-ATA
* * **
10708632 -CTGATGCCATGTCCGAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCTTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCCGATGCATGTCCCAG
10708696 ACATGTCTTACACTAGCCCACA
66 ACATGTCTTACACTAGCCCACA
10708718 ATAACCCATA
Statistics
Matches: 144, Mismatches: 25, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 16 0.11
93 18 0.12
94 63 0.44
95 15 0.10
96 7 0.05
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCCCACATCTCATA
Found at i:10708690 original size:140 final size:143
Alignment explanation
Indices: 10708396--10708709 Score: 336
Period size: 140 Copynumber: 2.2 Consensus size: 143
10708386 GGTAAGTTTT
* *
10708396 CGATGCCATGTCCCATACATCGTCTCACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCAG
** * *
10708461 ACATGGTCTTACACTAGCTCTCACATATCCGTGCCGACGTCATGTCCCAGACATGGTCTTACACT
64 ACATGGTCTTACACTAGCTCTCACATATCAATACCGACGCCATGTCCCAGACATGGTCTTACACT
**
10708526 GACACATCTCGTAGC
129 GACACATCTAATAGC
* * *
10708541 CGATGCATGTCCCAGACATGTCTTACATTGGCT-TACGTC-CCGAGGCTGA-TGCATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCACCGAGGCTGATTCCATGTCCCAGA
* * * * * *
10708603 CAT-GTCTTACACTAGC-C-CTCGTCTCAATACTGATGCCATGTCCGAGACATGGTCTTACACTG
65 CATGGTCTTACACTAGCTCTCACATATCAATACCGACGCCATGTCCCAGACATGGTCTTACACTG
* *
10708665 GCTC-TCATAATATGGC
130 ACACATC-TAATA--GC
**
10708681 CGATGCATGTCCTTGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
10708710 AGCCCACAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
137 2 0.01
138 40 0.28
139 1 0.01
140 41 0.29
141 15 0.10
142 11 0.08
143 15 0.10
144 13 0.09
145 5 0.03
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (143 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCACCGAGGCTGATTCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCACATATCAATACCGACGCCATGTCCCAGACATGGTCTTACACTGA
CACATCTAATAGC
Found at i:10710225 original size:16 final size:16
Alignment explanation
Indices: 10710200--10710235 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10710190 TTACTCATAG
10710200 TGAT-TAATATGTATA
1 TGATCTAATATGTATA
10710215 TGATCTAATATGTATA
1 TGATCTAATATGTATA
10710231 TGATC
1 TGATC
10710236 CTCATACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (16 bp):
TGATCTAATATGTATA
Found at i:10717344 original size:16 final size:16
Alignment explanation
Indices: 10717319--10717354 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10717309 TTACTCATAG
10717319 TGAT-TAATATGTATA
1 TGATCTAATATGTATA
10717334 TGATCTAATATGTATA
1 TGATCTAATATGTATA
10717350 TGATC
1 TGATC
10717355 CTCATACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (16 bp):
TGATCTAATATGTATA
Found at i:10726580 original size:100 final size:100
Alignment explanation
Indices: 10726402--10726587 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 100
10726392 AAAAAAAAAC
* *
10726402 TTGTTTTATAATAGAGAAGGAAAATTTTGTAAACGATATGGGAAATATCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATACGGGAAATATCTAGAATGTTGTAAACG
10726467 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
66 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
* *
10726502 TTGTTTTATAATAGAAAAGTAAAATTTTGTAAACGATACGGGAAATGTCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATACGGGAAATATCTAGAATGTTGTAAACG
* * *
10726567 TAAATATGGAAGGGTCCCCAA
66 CAAATATGAAAGGGTACCCAA
10726588 TTCCAACGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (100 bp):
TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATACGGGAAATATCTAGAATGTTGTAAACG
CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
Found at i:10727140 original size:15 final size:16
Alignment explanation
Indices: 10727104--10727141 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10727094 GCAATTTAAA
* *
10727104 AATTTTAAATTAAATT
1 AATTATAAATTAAATG
10727120 AATTATAAATT-AATG
1 AATTATAAATTAAATG
10727135 AATTATA
1 AATTATA
10727142 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATAAATTAAATG
Found at i:10727753 original size:19 final size:20
Alignment explanation
Indices: 10727724--10727761 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10727714 GAGTTGCACC
*
10727724 ATATAAGATATATTATATAG
1 ATATAAGATATATGATATAG
10727744 ATAT-AGATATATGATATA
1 ATATAAGATATATGATATA
10727762 TGATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
ATATAAGATATATGATATAG
Found at i:10727759 original size:7 final size:7
Alignment explanation
Indices: 10727724--10727765 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
10727714 GAGTTGCACC
*
10727724 ATATAAG
1 ATATATG
*
10727731 ATATATT
1 ATATATG
10727738 ATATA-G
1 ATATATG
10727744 ATATA-G
1 ATATATG
10727750 ATATATG
1 ATATATG
10727757 ATATATG
1 ATATATG
10727764 AT
1 AT
10727766 TTTATATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (7 bp):
ATATATG
Found at i:10743677 original size:6 final size:6
Alignment explanation
Indices: 10743666--10743692 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10743656 TATTTATTTA
10743666 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
10743693 CTTCTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:10746463 original size:49 final size:50
Alignment explanation
Indices: 10746363--10746501 Score: 208
Period size: 49 Copynumber: 2.8 Consensus size: 50
10746353 CAAAGTTCTT
* * *
10746363 TGGTACGCATAGTAGCCTGCACTTAGTACTATACATGTGACCTAACAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* *
10746413 TGGTACACATAGGAGCCTGCACTTA-TACTACACACGTGACCTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
* *
10746462 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
10746502 TAGAAGCTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 43 0.54
50 37 0.46
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC
Found at i:10748090 original size:40 final size:40
Alignment explanation
Indices: 10747905--10748093 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
10747895 GCTCCTCGTT
* *
10747905 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
10747945 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
10747985 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
10748025 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
10748066 CAAA-GCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
10748094 CATTCAAATA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 114 0.89
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:10749399 original size:12 final size:12
Alignment explanation
Indices: 10749365--10749403 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
10749355 GGATGAAGCC
*
10749365 TCTTTTTTTTAT
1 TCTTTCTTTTAT
10749377 TACTCTTCTTTTAT
1 T-CT-TTCTTTTAT
10749391 TCTTTCTTTTAT
1 TCTTTCTTTTAT
10749403 T
1 T
10749404 TATTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (12 bp):
TCTTTCTTTTAT
Found at i:10756037 original size:40 final size:40
Alignment explanation
Indices: 10755993--10756178 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
10755983 GCTCCTCGTT
*
10755993 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
10756033 CAAATGCCTTCGGCACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
10756073 CAAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
10756113 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
10756154 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10756179 AATCATTCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 110 0.87
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:10757486 original size:12 final size:14
Alignment explanation
Indices: 10757458--10757490 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
10757448 GCCTCTTTTT
10757458 TTTTATTACTCTTC
1 TTTTATTACTCTTC
10757472 TTTTATT-CT-TTC
1 TTTTATTACTCTTC
10757484 TTTTATT
1 TTTTATT
10757491 TATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 2 0.11
14 7 0.37
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTACTCTTC
Found at i:10757962 original size:50 final size:50
Alignment explanation
Indices: 10757893--10758024 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
10757883 ATTGGGTACG
10757893 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG-GT-ACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-AA-CTGCGTAACA
** * * * *
10757943 TGTAGTAGCCTGCACTTAGTACTAAACACGTGACCTAAAACTGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAACTG-CGT-AACA
*
10757995 CATAGTAGCCTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
10758025 TGTTCTCACA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.04
49 2 0.03
50 34 0.51
52 28 0.42
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAAACTGCGTAACA
Found at i:10761170 original size:16 final size:16
Alignment explanation
Indices: 10761145--10761196 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
10761135 TTACTCATAG
10761145 TGAT-TAATATGTATA
1 TGATCTAATATGTATA
10761160 TGATCTAATATGTATA
1 TGATCTAATATGTATA
10761176 TGATCTAATATGTATA
1 TGATCTAATATGTATA
10761192 TGATC
1 TGATC
10761197 CTCATACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 4 0.11
16 32 0.89
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (16 bp):
TGATCTAATATGTATA
Found at i:10763447 original size:27 final size:27
Alignment explanation
Indices: 10763417--10763594 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
10763407 ATATCGAGTC
* *
10763417 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
10763444 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
10763471 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** *
10763499 CGTACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
10763526 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
10763553 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
10763580 CGCACATTTAGTGCT
1 CGCACACTTAGTGCT
10763595 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10763557 original size:82 final size:81
Alignment explanation
Indices: 10763438--10763593 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
10763428 TGCTATATAA
* *
10763438 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGTA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10763503 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
10763520 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
10763584 CATTTAGTGC
65 CACTTAGTGC
10763594 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 51 0.78
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10771603 original size:27 final size:27
Alignment explanation
Indices: 10771573--10771749 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
10771563 ATATCGAGTC
* *
10771573 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
10771600 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
10771627 CGCACACTTAGTGC-ACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
10771654 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
10771681 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
10771708 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
10771735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10771750 GTACAATTTA
Statistics
Matches: 130, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.05
27 115 0.88
28 8 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10771655 original size:54 final size:53
Alignment explanation
Indices: 10771573--10771748 Score: 208
Period size: 54 Copynumber: 3.3 Consensus size: 53
10771563 ATATCGAGTC
* * * *
10771573 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGC-ACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
10771627 CGCACACTTAGTGCACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
10771681 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
10771735 CGCACACTTAGTGC
1 CGCACACTTAGTGC
10771749 TGTACAATTT
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.06
54 92 0.88
55 6 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:10771685 original size:81 final size:81
Alignment explanation
Indices: 10771594--10771748 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
10771584 TGCTATATAA
10771594 TCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTAGTGC-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
10771657 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * ** *
10771675 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
10771740 ACTTAGTGC
66 ACTTAGTGC
10771749 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 56 0.84
82 11 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10775686 original size:27 final size:27
Alignment explanation
Indices: 10775656--10775831 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
10775646 AAATTGTACA
* *
10775656 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
10775683 GCACTCAGTGTGCGAAATGA-AATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
10775709 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
10775736 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
10775764 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
10775791 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
10775818 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
10775832 GGCTCAATAT
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 21 0.17
27 79 0.65
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:10775794 original size:55 final size:53
Alignment explanation
Indices: 10775655--10775831 Score: 194
Period size: 55 Copynumber: 3.3 Consensus size: 53
10775645 TAAATTGTAC
* * * ** *
10775655 AGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
* * *
10775707 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT-TGA-TATGT
* * *
10775763 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGA-TATGT
*
10775817 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10775832 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 36 0.35
54 24 0.23
55 42 0.40
56 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
Found at i:10783587 original size:27 final size:27
Alignment explanation
Indices: 10783499--10783673 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
10783489 AAATTGTACA
* *
10783499 GCACTAAG-GTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
10783525 GCACTCAGTGTGCGAAATGA-AATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
10783551 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
10783578 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
10783606 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * *
10783633 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
10783660 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
10783674 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 28 0.23
27 72 0.59
28 23 0.19
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:10783636 original size:55 final size:53
Alignment explanation
Indices: 10783498--10783673 Score: 194
Period size: 55 Copynumber: 3.3 Consensus size: 53
10783488 TAAATTGTAC
* * ** *
10783498 AGCACTAAG-GTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
* * *
10783549 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGT-TGA-TATGT
* * *
10783605 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGA-TATGT
*
10783659 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10783674 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 8 0.08
53 28 0.27
54 24 0.23
55 42 0.40
56 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGATATGT
Found at i:10798168 original size:40 final size:40
Alignment explanation
Indices: 10797946--10798154 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
10797936 TCCTCGTTCA
* * * * *
10797946 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10797985 AATGCCTTCGGGACGTAACCCGG-TTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10798024 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10798064 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10798104 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10798144 AAGGCCTTCGG
1 AATGCCTTCGG
10798155 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 12 0.08
39 43 0.28
40 101 0.65
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10806098 original size:40 final size:40
Alignment explanation
Indices: 10805876--10806084 Score: 287
Period size: 40 Copynumber: 5.3 Consensus size: 40
10805866 TCCTCGTTCA
* * * * *
10805876 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10805915 AATGCCTTCGGGACGTAACCCGG-TTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10805954 AATGCCTTCGAGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10805994 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10806034 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10806074 AAGGCCTTCGG
1 AATGCCTTCGG
10806085 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 12 0.08
39 42 0.27
40 100 0.65
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10806121 original size:80 final size:80
Alignment explanation
Indices: 10805879--10806137 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
10805869 TCGTTCAAAT
* * * * * * * *
10805879 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACGTAACCCGG-TTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
10805942 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * * * *
10805957 GCCTTCGAGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
10806022 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
10806037 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
10806101 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
10806117 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
10806138 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 30 0.19
79 25 0.16
80 94 0.61
81 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:10806125 original size:120 final size:117
Alignment explanation
Indices: 10805874--10806137 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 117
10805864 GCTCCTCGTT
* * *
10805874 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGT
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGT
* * * * *
10805939 TTAACAACTCGCACGAATGCCTTCGAGACTTAACCCGGCTTTAATAACTCGCA
65 TTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCGGATATAATAACTAGCA
* * * *
10805992 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGG
** * ** * **
10806057 ATTTAGTATCTCGCACAAAGGCCTTCG-GATCTTAGTCCGGATATATTCGCTTAGCA
64 -TTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACCCGGATATAATAAC-TAGCA
10806113 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
10806138 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
118 32 0.27
119 26 0.22
120 56 0.47
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (117 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGTT
TAACAACTCGCACAAAGGCCTTCGAGACTTAACCCGGATATAATAACTAGCA
Found at i:10811117 original size:13 final size:13
Alignment explanation
Indices: 10811099--10811124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10811089 GCTGGAAAGT
10811099 GAAGATAATCATA
1 GAAGATAATCATA
10811112 GAAGATAATCATA
1 GAAGATAATCATA
10811125 AGATAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
GAAGATAATCATA
Found at i:10811814 original size:32 final size:32
Alignment explanation
Indices: 10811768--10811833 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
10811758 TCGTTTGCAA
*
10811768 TTTCCATTCATGAATCTAGAGAATTACAGTAG
1 TTTCCATTCATGAATCTAGACAATTACAGTAG
* * *
10811800 TTTCTATTCATGAATCTAGACAATTTCTGTAG
1 TTTCCATTCATGAATCTAGACAATTACAGTAG
10811832 TT
1 TT
10811834 GGGTTAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (32 bp):
TTTCCATTCATGAATCTAGACAATTACAGTAG
Found at i:10812774 original size:18 final size:18
Alignment explanation
Indices: 10812751--10812785 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10812741 TGGCCCATTA
10812751 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
10812769 CAGTAACAGTAAACAGT
1 CAGTAACAGTAAACAGT
10812786 ATGCAAGCCC
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:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:10814408 original size:27 final size:27
Alignment explanation
Indices: 10814378--10814555 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10814368 ATATTGAGTC
* * * *
10814378 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10814405 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10814432 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10814460 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10814487 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10814514 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10814541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10814556 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10814517 original size:82 final size:81
Alignment explanation
Indices: 10814399--10814554 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10814389 TGCTATATAA
* *
10814399 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10814464 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10814481 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10814545 CACTTAGTGC
65 CACTTAGTGC
10814555 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10816621 original size:27 final size:27
Alignment explanation
Indices: 10816532--10816623 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
10816522 AGGGGCGTTT
*
10816532 CAGTCATTTTACCTCATAAGGGCAAAA
1 CAGTCATTTTACCTCATGAGGGCAAAA
* * *
10816559 CAATCATTTTACCTTATGAGGGTAAAA
1 CAGTCATTTTACCTCATGAGGGCAAAA
*
10816586 CAGTCATTTTACCTCATGGGGGCAAAA
1 CAGTCATTTTACCTCATGAGGGCAAAA
* *
10816613 TAGTTATTTTA
1 CAGTCATTTTA
10816624 TAGATTAAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (27 bp):
CAGTCATTTTACCTCATGAGGGCAAAA
Found at i:10825260 original size:27 final size:27
Alignment explanation
Indices: 10825209--10825351 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
10825199 AACACGTCAG
* *
10825209 GAAAGAAATTCCTTTGTGGCGAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* *
10825236 GAAGGACATGCCTTTGTGGCAAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* *
10825263 GAAAGAAATGCCTTTGTAGCGAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* * **
10825290 AAAAGAAATTCCTTTGTGGCAAGTTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* * *
10825317 -AAGAGAATTACCTTTGTGGCGAACTCT
1 GAA-AGAAATGCCTTTGTGGCAAACTCT
10825344 -AAATGAAA
1 GAAA-GAAA
10825352 GGCCATTGAG
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.97
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
GAAAGAAATGCCTTTGTGGCAAACTCT
Found at i:10825304 original size:54 final size:54
Alignment explanation
Indices: 10825209--10825351 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
10825199 AACACGTCAG
* * * *
10825209 GAAAGAAATTCCTTTGTGGCGAACTCTGAAGGACATGCCTTTGTGGCAAACTCT
1 GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
* * * **
10825263 GAAAGAAATGCCTTTGTAGCGAACTCTAAAAGAAATTCCTTTGTGGCAAGTTCT
1 GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
* *
10825317 -AAGAGAATTACCTTTGTGGCGAACTCTAAATGAAA
1 GAA-AGAAATACCTTTGTGGCGAACTCTAAAAGAAA
10825352 GGCCATTGAG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
53 2 0.03
54 74 0.97
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (54 bp):
GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
Found at i:10825651 original size:34 final size:30
Alignment explanation
Indices: 10825571--10825634 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
10825561 AAGGTTAAAT
10825571 TATGAATGTTCGAAGAAGGCATTTGCCAAC
1 TATGAATGTTCGAAGAAGGCATTTGCCAAC
10825601 TATGAATGTTCGAAGAAGGCATTTGCCAAC
1 TATGAATGTTCGAAGAAGGCATTTGCCAAC
10825631 TATG
1 TATG
10825635 TATGAGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (30 bp):
TATGAATGTTCGAAGAAGGCATTTGCCAAC
Found at i:10826284 original size:40 final size:40
Alignment explanation
Indices: 10826238--10826318 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10826228 ATCAAGACTA
10826238 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
1 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
10826278 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
1 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
10826318 A
1 A
10826319 TTTTGGGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.44
Consensus pattern (40 bp):
AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
Found at i:10826516 original size:18 final size:18
Alignment explanation
Indices: 10826493--10826540 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
10826483 TTCTCAAAGT
10826493 ATTATTATTATTA-TCATC
1 ATTATTATTATTATTCA-C
10826511 ATTATTATTATTATTCAC
1 ATTATTATTATTATTCAC
*
10826529 ATTATTAATATT
1 ATTATTATTATT
10826541 TTTCTAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTATTATTATTCAC
Found at i:10826535 original size:3 final size:3
Alignment explanation
Indices: 10826492--10826525 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
10826482 CTTCTCAAAG
* *
10826492 TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10826526 CACATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10827407 original size:25 final size:26
Alignment explanation
Indices: 10827379--10827435 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
10827369 TAATATTTTG
*
10827379 AAAAATATATAAAATGT-AAA-TTTAT
1 AAAAATACATAAAAT-TAAAATTTTAT
* *
10827404 AAAAATGCATACAATTAAAATTTTAT
1 AAAAATACATAAAATTAAAATTTTAT
10827430 AAAAAT
1 AAAAAT
10827436 CTTATAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 11 0.41
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAATACATAAAATTAAAATTTTAT
Found at i:10828125 original size:16 final size:18
Alignment explanation
Indices: 10828090--10828127 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
10828080 ATTCATTTTT
10828090 ATATTCTATTATTGTTAA
1 ATATTCTATTATTGTTAA
*
10828108 ATATT-TATTCTT-TTAA
1 ATATTCTATTATTGTTAA
10828124 ATAT
1 ATAT
10828128 GCAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTCTATTATTGTTAA
Found at i:10828770 original size:6 final size:6
Alignment explanation
Indices: 10828745--10828799 Score: 65
Period size: 6 Copynumber: 8.5 Consensus size: 6
10828735 GAGTTGCACC
*
10828745 ATATAAG ATATATT ATATAG ATATAG ATATAG ATATAG ATATATG ATATATG
1 ATAT-AG ATATA-G ATATAG ATATAG ATATAG ATATAG ATATA-G ATATA-G
10828797 ATA
1 ATA
10828800 GTTATTTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 24 0.55
7 20 0.45
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (6 bp):
ATATAG
Found at i:10845352 original size:27 final size:27
Alignment explanation
Indices: 10845307--10845361 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
10845297 TAATTATATA
* *
10845307 TAATTTAAAAATTTTACAT-AAACTAT
1 TAATATAAAAATTTCACATCAAACTAT
10845333 TAATATAAATAATTTCACATCAAACTAT
1 TAATATAAA-AATTTCACATCAAACTAT
10845361 T
1 T
10845362 CAAGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 9 0.36
28 8 0.32
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATATAAAAATTTCACATCAAACTAT
Found at i:10853857 original size:17 final size:18
Alignment explanation
Indices: 10853837--10853871 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10853827 AAGTGAATTG
10853837 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
10853854 AAATTGCAGAAATTAAAT
1 AAATTGCAGAAATTAAAT
10853872 GAGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:10854606 original size:10 final size:10
Alignment explanation
Indices: 10854587--10854646 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
10854577 TGAAATTCTA
10854587 AAAGATAAAT
1 AAAGATAAAT
10854597 ACAA-ATAAAT
1 A-AAGATAAAT
*
10854607 AAAGATAATT
1 AAAGATAAAT
10854617 AAAGATAAAT
1 AAAGATAAAT
10854627 AAAGATAAAT
1 AAAGATAAAT
10854637 GAAA-ATAAAT
1 -AAAGATAAAT
10854647 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10855429 original size:96 final size:97
Alignment explanation
Indices: 10855303--10855484 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 97
10855293 ATTTTATTTA
* * * * ** * *
10855303 TTTATTTTTACTTAGGTATATATTGAACCTTTTGACTTGAAGAGAGATGACAGCCAAGCACTCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
*
10855368 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCAGTTACTCAGCCCAACATACTCCTAATT
10855400 TTTATTTTT-CTTAAGAACATATTAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
*
10855464 CCCCAGTTACTTAGCCCAACA
66 CCCCAGTTACTCAGCCCAACA
10855485 CATTCTTAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCACCCCA
CCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:10858004 original size:3 final size:3
Alignment explanation
Indices: 10857990--10858047 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
10857980 TGAATTAGTA
10857990 AAT AAT AA- AAT AAT -AT AAT AA- AAT AA- AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
10858032 AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AA
10858048 AAAAATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.20
3 36 0.73
4 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:10858009 original size:13 final size:13
Alignment explanation
Indices: 10857989--10858057 Score: 86
Period size: 13 Copynumber: 5.2 Consensus size: 13
10857979 ATGAATTAGT
10857989 AAATAATAAAATA
1 AAATAATAAAATA
*
10858002 ATATAATAAAATA
1 AAATAATAAAATA
*
10858015 AAATAA-ATAATA
1 AAATAATAAAATA
10858027 ATAATAATAATAATA
1 A-AATAATAA-AATA
*
10858042 AAATAAAAAAATA
1 AAATAATAAAATA
10858055 AAA
1 AAA
10858058 ATTGGATTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
12 6 0.12
13 29 0.60
14 8 0.17
15 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:10858048 original size:5 final size:5
Alignment explanation
Indices: 10857993--10858057 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
10857983 ATTAGTAAAT
*
10857993 AATAA AAT-- AATAT AATAA AATAA AAT-A AATAA TAATAA TAATAA TAATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA -AATAA
10858043 AAT-A AA-AA AATAA AA
1 AATAA AATAA AATAA AA
10858058 ATTGGATTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 23 0.43
6 17 0.32
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
AATAA
Found at i:10858056 original size:8 final size:8
Alignment explanation
Indices: 10857989--10858058 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
10857979 ATGAATTAGT
*
10857989 AAATAATA
1 AAATAAAA
*
10857997 AAATAATA
1 AAATAAAA
*
10858005 TAATAAAATA
1 AAAT-AAA-A
10858015 AAATAAATA
1 AAATAAA-A
10858024 ATAATAATAA
1 A-AATAA-AA
* *
10858034 TAATAATA
1 AAATAAAA
10858042 AAATAAAA
1 AAATAAAA
10858050 AAATAAAA
1 AAATAAAA
10858058 A
1 A
10858059 TTGGATTGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
8 27 0.53
9 13 0.25
10 10 0.20
11 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAAAA
Found at i:10863686 original size:17 final size:18
Alignment explanation
Indices: 10863666--10863699 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10863656 AAGTGAATTG
10863666 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
10863683 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
10863700 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:10864435 original size:10 final size:10
Alignment explanation
Indices: 10864416--10864475 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
10864406 TGAAATTCTA
10864416 AAAGATAAAT
1 AAAGATAAAT
10864426 ACAA-ATAAAT
1 A-AAGATAAAT
*
10864436 AAAGATAATT
1 AAAGATAAAT
10864446 AAAGATAAAT
1 AAAGATAAAT
10864456 AAAGATAAAT
1 AAAGATAAAT
10864466 GAAA-ATAAAT
1 -AAAGATAAAT
10864476 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10866318 original size:7 final size:7
Alignment explanation
Indices: 10866306--10866338 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10866296 ATGATAGACT
10866306 AAAATTA
1 AAAATTA
10866313 AAAATTA
1 AAAATTA
10866320 AAAATTA
1 AAAATTA
10866327 AAAATTA
1 AAAATTA
10866334 AAAAT
1 AAAAT
10866339 AACCAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:10866945 original size:20 final size:18
Alignment explanation
Indices: 10866907--10866942 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10866897 CCCTGGCCTG
*
10866907 TTGATTATATAATTTAAA
1 TTGATTATATAATTAAAA
10866925 TTGATTATATAATTAAAA
1 TTGATTATATAATTAAAA
10866943 AATATTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
TTGATTATATAATTAAAA
Found at i:10868357 original size:12 final size:12
Alignment explanation
Indices: 10868340--10868364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10868330 ACCCAAAACC
10868340 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10868352 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10868364 C
1 C
10868365 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:10868909 original size:3 final size:3
Alignment explanation
Indices: 10868890--10868977 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
10868880 GTTGAGAGCT
* * *
10868890 TTA TT- TTA TT- TTT TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10868933 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
10868977 T
1 T
10868978 ATATACCCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.13
3 50 0.74
4 7 0.10
5 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10868919 original size:12 final size:12
Alignment explanation
Indices: 10868889--10868970 Score: 64
Period size: 12 Copynumber: 7.0 Consensus size: 12
10868879 AGTTGAGAGC
10868889 TTTATT-TTATT
1 TTTATTATTATT
10868900 TTT-TTATTATT
1 TTTATTATTATT
*
10868911 TTTACTATTATT
1 TTTATTATTATT
*
10868923 TATATTATTATT
1 TTTATTATTATT
* *
10868935 ATTTCTCATGTA--
1 -TTTATTAT-TATT
*
10868947 TATATTATTATT
1 TTTATTATTATT
*
10868959 TATATTATTATT
1 TTTATTATTATT
10868971 ATATTATATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 4 0.07
11 16 0.29
12 29 0.52
13 5 0.09
14 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:10869210 original size:12 final size:11
Alignment explanation
Indices: 10869180--10869237 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
10869170 TTGCTATTAC
10869180 TATTAT-TAT-
1 TATTATGTATA
10869189 TATTAT-TATA
1 TATTATGTATA
10869199 TATTAGTGTATA
1 TATTA-TGTATA
*
10869211 TTTTTATGTATA
1 -TATTATGTATA
*
10869223 TATATATTTATA
1 TAT-TATGTATA
10869235 TAT
1 TAT
10869238 AGTTTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 9 0.22
10 5 0.12
11 3 0.07
12 20 0.49
13 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATTATGTATA
Found at i:10881328 original size:46 final size:46
Alignment explanation
Indices: 10881261--10881431 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
10881251 AACCCGCCCC
*
10881261 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGTGTTCGCATCCA
* *
10881307 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G--T-GTTCGCATCCA
* * * ***
10881355 TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGTGTTCGCATCCA
*
10881400 TAAATGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
10881432 GATGCTCAAC
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 2 0.02
46 58 0.57
47 27 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGTGTTCGCATCCA
Found at i:10881374 original size:93 final size:93
Alignment explanation
Indices: 10881266--10881436 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10881256 GCCCCTAAGT
* *** *
10881266 GAACTCGGACTCAACTCAACGAGCTCGAGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
10881331 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
10881359 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
10881424 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10881437 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:10881867 original size:16 final size:17
Alignment explanation
Indices: 10881846--10881880 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10881836 TCAAATTGAC
10881846 CCAAAATCATA-TTTTG
1 CCAAAATCATAGTTTTG
*
10881862 CCAAAATTATAGTTTTG
1 CCAAAATCATAGTTTTG
10881879 CC
1 CC
10881881 CCTAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (17 bp):
CCAAAATCATAGTTTTG
Found at i:10883868 original size:15 final size:15
Alignment explanation
Indices: 10883820--10883903 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
10883810 CAAAGATAAC
*
10883820 AAGAAAACT-GAATA
1 AAGAAACCTAGAATA
*
10883834 AAGAAATCCAAG-ATA
1 AAGAAA-CCTAGAATA
* *
10883849 GAGAAACCTGGAATA
1 AAGAAACCTAGAATA
10883864 AAGAAATCC-AGAATA
1 AAGAAA-CCTAGAATA
* *
10883879 AAGAGATCC-AGGATA
1 AAGA-AACCTAGAATA
10883894 AAGAAACCTA
1 AAGAAACCTA
10883904 AGATACGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAACCTAGAATA
Found at i:10883895 original size:30 final size:30
Alignment explanation
Indices: 10883829--10883908 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
10883819 CAAGAAAACT
* *
10883829 GAATAAAGAAATCCAAGATAGAGAAACCTG
1 GAATAAAGAAATCCAAGATAAAGAAACCAG
*
10883859 GAATAAAGAAATCC-AGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAAG-ATAAAGA-AACCAG
10883890 G-ATAAAGAAA-CCTAAGATA
1 GAATAAAGAAATCC-AAGATA
10883909 CGATACTATG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 4 0.09
30 32 0.74
31 7 0.16
ACGTcount: A:0.55, C:0.12, G:0.19, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCAG
Found at i:10886919 original size:46 final size:46
Alignment explanation
Indices: 10886852--10887023 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
10886842 AACCCGCCCC
*
10886852 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
10886898 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * ** *
10886946 TCA-CGAACTCAGATTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
10886991 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
10887024 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.57
47 25 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:10886970 original size:93 final size:93
Alignment explanation
Indices: 10886857--10887027 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10886847 GCCCCTAAGT
* ** *
10886857 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10886922 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
10886950 GAACTCAGATTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10887015 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10887028 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:10889476 original size:43 final size:43
Alignment explanation
Indices: 10889429--10889523 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
10889419 GCCTCAGCGA
* * *
10889429 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGTAC-AGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGT-CGAGTGG
* * *
10889472 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGTAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCG-AGTGG
10889516 AGCAGACT
1 AGCAGACT
10889524 AAATGTACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 30 0.68
44 13 0.30
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGAGTGG
Found at i:10889908 original size:43 final size:44
Alignment explanation
Indices: 10889799--10889911 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 44
10889789 CCACCAAGCT
* * * * *
10889799 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATA
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
* * * * *
10889843 TTATTA-CCTTAAGCAATAGGGTAACAAGC-CAAATTTTTAAACC
1 TTA-AACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
10889886 TTAAACCCCTAAGCAGTAGGGTAACA
1 TTAAACCCCTAAGCAGTAGGGTAACA
10889912 GGTTGAGTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.02
43 29 0.54
44 24 0.44
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAACA
Found at i:10889943 original size:42 final size:44
Alignment explanation
Indices: 10889884--10890003 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
10889874 AATTTTTAAA
* *
10889884 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
* * * **
10889926 -ATCTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAG
1 CCT-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
*
10889970 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
10890004 AAATCAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 4 0.07
44 28 0.46
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
Found at i:10890451 original size:12 final size:12
Alignment explanation
Indices: 10890434--10890458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10890424 ACCCAAAACC
10890434 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10890446 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10890458 C
1 C
10890459 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:10890540 original size:13 final size:13
Alignment explanation
Indices: 10890524--10890583 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
10890514 ACCACCCTTG
10890524 TTGGCCACCCACC
1 TTGGCCACCCACC
*
10890537 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
10890549 TCCACCACCCTTG
1 TTGGCCACCCACC
10890562 TTGGCCACCCACC
1 TTGGCCACCCACC
10890575 TTGGCCACC
1 TTGGCCACC
10890584 TACACCACTA
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:10890554 original size:38 final size:38
Alignment explanation
Indices: 10890503--10890591 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
10890493 AACCCTAATC
10890503 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
10890541 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
*
10890579 CCACCTACACCAC
1 CCACCTACTCCAC
10890592 TATGCCACCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.18, C:0.52, G:0.11, T:0.19
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:10891168 original size:3 final size:3
Alignment explanation
Indices: 10891131--10891214 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
10891121 GAGCTTTGTT
* * * *
10891131 TTA TTA TTT TTG TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
10891176 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
10891215 ATATACCCTC
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 7 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10891173 original size:27 final size:27
Alignment explanation
Indices: 10891143--10891216 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 27
10891133 ATTATTTTTG
10891143 TTATTTTTACTATTATTTATATTATTA
1 TTATTTTTACTATTATTTATATTATTA
* *
10891170 TTATTATTT-C--TCATGTATA-TATTA
1 TTATT-TTTACTATTATTTATATTATTA
* *
10891194 TTATTTATATTATTATATTATAT
1 TTATTTTTACTATTAT-TTATAT
10891217 ATACCCTCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
23 2 0.06
24 10 0.29
25 7 0.20
26 3 0.09
27 10 0.29
28 3 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (27 bp):
TTATTTTTACTATTATTTATATTATTA
Found at i:10891192 original size:21 final size:18
Alignment explanation
Indices: 10891131--10891219 Score: 83
Period size: 18 Copynumber: 4.8 Consensus size: 18
10891121 GAGCTTTGTT
* *
10891131 TTATTATT-TTTGTTATTT
1 TTATTATTATTT-ATATTA
*
10891149 TTACTATTATTTATATTA
1 TTATTATTATTTATATTA
*
10891167 TTATTATTATTTCTCATGTA
1 TTATTATTATTTAT-AT-TA
10891187 TATATTATTATTTATATTA
1 T-TATTATTATTTATATTA
*
10891206 TTA-TATTATATATA
1 TTATTATTATTTATA
10891220 CCCTCTCCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.17
18 25 0.42
19 8 0.13
20 5 0.08
21 12 0.20
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATTATTTATATTA
Found at i:10891217 original size:27 final size:26
Alignment explanation
Indices: 10891143--10891218 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
10891133 ATTATTTTTG
* *
10891143 TTATTTTTACTATTATTTATATTATTA
1 TTATTTATATTATTATTTATA-TATTA
* * *
10891170 TTA-TTAT-TTCTCATGTATATATTA
1 TTATTTATATTATTATTTATATATTA
10891194 TTATTTATATTATTATATTATATAT
1 TTATTTATATTATTAT-TTATATAT
10891219 ACCCTCTCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 8 0.21
25 12 0.32
26 8 0.21
27 10 0.26
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
TTATTTATATTATTATTTATATATTA
Found at i:10891330 original size:15 final size:15
Alignment explanation
Indices: 10891290--10891342 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10891280 TTCTGACTAC
* *
10891290 TATTATTATATATATA
1 TATTATTAT-TATTTG
*
10891306 TATGTATTATTGTTTG
1 TAT-TATTATTATTTG
*
10891322 TATTATTATTATTTT
1 TATTATTATTATTTG
10891337 TATTAT
1 TATTAT
10891343 CACCCCTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 16 0.52
16 9 0.29
17 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TATTATTATTATTTG
Found at i:10891470 original size:18 final size:18
Alignment explanation
Indices: 10891423--10891493 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
10891413 TTGCTATTAC
* *
10891423 TATTATTATTATTATATAT
1 TATTA-TATTTTTATATAG
*
10891442 TAGTGTATATTTTTATGTA-
1 TA-T-TATATTTTTATATAG
*
10891461 TATATATATTTATATATAG
1 TAT-TATATTTTTATATAG
*
10891480 TATTATTTTTTTAT
1 TATTATATTTTTAT
10891494 TACTTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 22 0.52
19 7 0.17
20 11 0.26
21 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TATTATATTTTTATATAG
Found at i:10891472 original size:16 final size:17
Alignment explanation
Indices: 10891446--10891487 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10891436 ATATATTAGT
* *
10891446 GTATATTTTTATGTATA
1 GTATATATTTATATATA
10891463 -TATATATTTATATATA
1 GTATATATTTATATATA
10891479 GTAT-TATTT
1 GTATATATTT
10891488 TTTTATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTATATATTTATATATA
Found at i:10891509 original size:117 final size:117
Alignment explanation
Indices: 10891384--10891637 Score: 261
Period size: 117 Copynumber: 2.1 Consensus size: 117
10891374 TCTAATATAT
* *
10891384 TATTAATATTACTCATATTTTCATTATTGT-TGCTATTACTA-TTATTATTATTATATATTAGTG
1 TATTAATATTA-TCATATTTGC-TTATTGTAT--TATTA-TATTTATTATTATTATATAGTAGTG
* *
10891447 TATATTTTTATGTATAT-ATATAT-T-TATATATAGTATTATTTTTTTA-TTACTTTAA
61 TATATTTCTAT-TATATAATATATATATATATATAGTATTA-TTATTTACTTACTTTAA
* * * *
10891502 T-TTAATATTTTTATTATATTTGCTTTTTGTATTTTTATATTTATTATTATTATATAGTAGTGTG
1 TATTAATA---TTATCATATTTGCTTATTGTATTATTATATTTATTATTATTATATAGTAGTGTA
*
10891566 TATTTCTATTATATACATATATATATTTATATAGTATTATTATTTACTTTACTTTAA
63 TATTTCTATTATATA-ATATATATATATATATAGTATTATTATTTAC-TTACTTTAA
*
10891623 TATTATTATTATCAT
1 TATTAATATTATCAT
10891638 TATATCCAAC
Statistics
Matches: 113, Mismatches: 11, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
116 7 0.06
117 40 0.35
118 13 0.12
119 22 0.19
120 16 0.14
121 10 0.09
122 5 0.04
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (117 bp):
TATTAATATTATCATATTTGCTTATTGTATTATTATATTTATTATTATTATATAGTAGTGTATAT
TTCTATTATATAATATATATATATATATAGTATTATTATTTACTTACTTTAA
Found at i:10891633 original size:116 final size:117
Alignment explanation
Indices: 10891425--10891634 Score: 291
Period size: 117 Copynumber: 1.8 Consensus size: 117
10891415 GCTATTACTA
* * * * *
10891425 TTATTATTATTATATATTAGTGTATATTTTTATGTATATATATATTTATATATAGTATTATTTTT
1 TTATTATTATTATATAGTAGTGTATATTTCTATGTATATATATATATATATATAGTAGTATTATT
* *
10891490 TTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTTTATAT
66 ATATTACTTTAATTTAATATTATTATTATATTTGCTTTTTGTATTTTTATAT
* *
10891542 TTATTATTATTATATAGTAGTGTGTATTTCTAT-TATATACATATATATATTTATA-TAGTATTA
1 TTATTATTATTATATAGTAGTGTATATTTCTATGTATAT--ATATATATATATATAGTAGTATTA
*
10891605 TTAT-TTACTTTACTTTAATATTATTATTAT
64 TTATATTACTTTAATTTAATATTATTATTAT
10891635 CATTATATCC
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
116 29 0.36
117 39 0.48
118 13 0.16
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (117 bp):
TTATTATTATTATATAGTAGTGTATATTTCTATGTATATATATATATATATATAGTAGTATTATT
ATATTACTTTAATTTAATATTATTATTATATTTGCTTTTTGTATTTTTATAT
Found at i:10895994 original size:3 final size:3
Alignment explanation
Indices: 10895986--10896130 Score: 88
Period size: 3 Copynumber: 48.3 Consensus size: 3
10895976 TAATAGTATG
* * * *
10895986 ATA ATA ATA ATA ATA GTA ACA AAA ATA ATA ATGA CA-A AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA ATA ATA ATA
* *
10896031 A-A TATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ATA AAA ACA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* ** *
10896076 GTA ATA GCA ATA ATA GA-A ATA ATA ATA CTCA A-A ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
10896120 CATA ATA ATA A
1 -ATA ATA ATA A
10896131 ATATAAGACT
Statistics
Matches: 111, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
2 9 0.08
3 95 0.86
4 6 0.05
5 1 0.01
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:10896055 original size:42 final size:40
Alignment explanation
Indices: 10895992--10896103 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 40
10895982 TATGATAATA
* * *
10895992 ATAATAATAGTAACAAAAATAATAATGACAAAT-ATAACAAAT
1 ATAATAATAATAA-TAAAATAATAAT-ACAAATAAAAAC-AAT
10896034 ATAATAATAATAATAATAATAATAATACAAATAAAAACAAT
1 ATAATAATAATAATAA-AATAATAATACAAATAAAAACAAT
**
10896075 AGTAATAGCAATAATAGAAATAATAATAC
1 A-TAATAATAATAATA-AAATAATAATAC
10896104 TCAAAATAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 12 0.20
42 48 0.79
43 1 0.02
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.25
Consensus pattern (40 bp):
ATAATAATAATAATAAAATAATAATACAAATAAAAACAAT
Found at i:10898123 original size:175 final size:177
Alignment explanation
Indices: 10897827--10898273 Score: 612
Period size: 177 Copynumber: 2.5 Consensus size: 177
10897817 AACTTTTAGA
* * ** *
10897827 GAGATAAGACTTGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTTCCCTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCATCTTC
* * * * *
10897892 GATCTACTCCACTACGGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTACTCTACTGCAACTTC
66 GATCTACTCCACTACTGCTTAGGGAGATAAAATCTACAACTTTCAGTCTACTCTACTACAACTTC
* * *
10897957 A-GG-GATAAGACTTGTATCCTGAGCCTGCTTCATTGCAACCTCAGG
131 AGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
*
10898002 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCATCGTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCATCTTC
** * *
10898067 GATCTACTCCACTACTATTTAGGGAGATAAAATCTACAACTTTCAGTAC-GCTCTACTACTACTT
66 GATCTACTCCACTACTGCTTAGGGAGATAAAATCTACAACTTTCAGT-CTACTCTACTACAACTT
*
10898131 CAGGGAGATAAGACTTGTATCTTGAGCCTGCTCCACTGCAACCTCAAG
130 CAGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
* * * * * *
10898179 AAGATAAAGTTGGTGGCTTAAATCTGCTCCATTGCTGCTATATGGAGATAAGATTCACCGTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCATCTTC
* * *
10898244 AATCTGCTCCACTATTGCTTAGGGAGATAA
66 GATCTACTCCACTACTGCTTAGGGAGATAA
10898274 GATATGTAAC
Statistics
Matches: 238, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
175 114 0.48
176 3 0.01
177 121 0.51
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCATCTTC
GATCTACTCCACTACTGCTTAGGGAGATAAAATCTACAACTTTCAGTCTACTCTACTACAACTTC
AGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTGCAACCTCAAG
Found at i:10902958 original size:20 final size:20
Alignment explanation
Indices: 10902933--10902974 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10902923 AAATGCAAGA
*
10902933 AAAGAATATTTGCTCAGGAT
1 AAAGAATATTTGCTCAGAAT
10902953 AAAGAATATTTGCTCAGAAT
1 AAAGAATATTTGCTCAGAAT
10902973 AA
1 AA
10902975 GACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
AAAGAATATTTGCTCAGAAT
Found at i:10919951 original size:39 final size:39
Alignment explanation
Indices: 10919908--10919985 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
10919898 GCTTGATTCT
10919908 CTAATTTCTTAAAGATTAAACAATCAATGCATAAATGCC
1 CTAATTTCTTAAAGATTAAACAATCAATGCATAAATGCC
*
10919947 CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
1 CTAATTTCTTAAAGATTAAACAATCAATGCATAAATGCC
10919986 TATGTTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (39 bp):
CTAATTTCTTAAAGATTAAACAATCAATGCATAAATGCC
Found at i:10932099 original size:12 final size:12
Alignment explanation
Indices: 10932078--10932112 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10932068 TATGTATCTA
10932078 TTTCTTACCAAT
1 TTTCTTACCAAT
*
10932090 TTTCTCACCAAT
1 TTTCTTACCAAT
10932102 TTTCTTACCAA
1 TTTCTTACCAA
10932113 ACCTCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCTTACCAAT
Found at i:10932840 original size:20 final size:19
Alignment explanation
Indices: 10932792--10932840 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
10932782 TGACTTAACA
10932792 AAACTTGTATATCTATCAAC
1 AAACTT-TATATCTATCAAC
* *
10932812 AAGCATTTATAATCTATCAAG
1 AAAC-TTTAT-ATCTATCAAC
10932833 AAACTTTA
1 AAACTTTA
10932841 AAATATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (19 bp):
AAACTTTATATCTATCAAC
Found at i:10934972 original size:67 final size:67
Alignment explanation
Indices: 10934900--10935039 Score: 280
Period size: 67 Copynumber: 2.1 Consensus size: 67
10934890 ACACAATTTG
10934900 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
1 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
10934965 CT
66 CT
10934967 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
1 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
10935032 CT
66 CT
10935034 TAATAA
1 TAATAA
10935040 CATTCGGAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (67 bp):
TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
CT
Found at i:10935759 original size:7 final size:7
Alignment explanation
Indices: 10935747--10935788 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
10935737 AAGGAGGGAT
10935747 GATGAGG
1 GATGAGG
10935754 GATGAGG
1 GATGAGG
10935761 GATGAGG
1 GATGAGG
*
10935768 GATGATG
1 GATGAGG
*
10935775 GATGATG
1 GATGAGG
10935782 GATGAGG
1 GATGAGG
10935789 ATCAAATGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (7 bp):
GATGAGG
Found at i:10936287 original size:30 final size:31
Alignment explanation
Indices: 10936246--10936309 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
10936236 ATTATTAAAT
10936246 ATAATTTTATATTTTATTATTTAATTTAATC
1 ATAATTTTATATTTTATTATTTAATTTAATC
10936277 ATAA-TTTATATTTTATTATTTAATTTAATC
1 ATAATTTTATATTTTATTATTTAATTTAATC
10936307 ATA
1 ATA
10936310 CATGGCCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATAATTTTATATTTTATTATTTAATTTAATC
Found at i:10958791 original size:10 final size:10
Alignment explanation
Indices: 10958776--10958806 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
10958766 AAATTGAAGA
10958776 CCAAGTCAAC
1 CCAAGTCAAC
10958786 CCAAGTCAAC
1 CCAAGTCAAC
10958796 CCAAGTCAAC
1 CCAAGTCAAC
10958806 C
1 C
10958807 GAAGATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.42, G:0.10, T:0.10
Consensus pattern (10 bp):
CCAAGTCAAC
Found at i:10962815 original size:39 final size:39
Alignment explanation
Indices: 10962772--10962889 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 39
10962762 CCAGATTCCA
* * * * *
10962772 TTCCAGCACGTAGCCTGTGGACTTCAAGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
10962811 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
* * *
10962850 TCCCAGCATATAGCCTGCGAACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
10962889 T
1 T
10962890 CCCAATATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
Found at i:10970163 original size:52 final size:52
Alignment explanation
Indices: 10970106--10970208 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
10970096 ATCGAGTTGT
*
10970106 CATGGAATGTGTT-CTGAATGTTATTAAACATTTTGATAATAAATTGAGTTTC
1 CATGGAATGTGTTAC-GAATGTTATTAAACATGTTGATAATAAATTGAGTTTC
*
10970158 CATGGAATGTGTTACGAATGTTATTAAGCATGTTGATAATAAATTGAGTTT
1 CATGGAATGTGTTACGAATGTTATTAAACATGTTGATAATAAATTGAGTTT
10970209 AATTAAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (52 bp):
CATGGAATGTGTTACGAATGTTATTAAACATGTTGATAATAAATTGAGTTTC
Found at i:10980789 original size:18 final size:17
Alignment explanation
Indices: 10980766--10980837 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 17
10980756 GGCAGTGTCG
10980766 TTCATTTCCAAAACGTTA
1 TTCATTT-CAAAACGTTA
10980784 TTCATTATCACAAA-GTTA
1 TTCATT-TCA-AAACGTTA
10980802 TACTC-TTTCAAAACGTTA
1 T--TCATTTCAAAACGTTA
*
10980820 TTAATTTTCAAAACGTTA
1 TTCA-TTTCAAAACGTTA
10980838 CTTATAGCGG
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 34 0.74
19 6 0.13
20 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATTTCAAAACGTTA
Found at i:11002718 original size:29 final size:29
Alignment explanation
Indices: 11002676--11002962 Score: 281
Period size: 29 Copynumber: 9.9 Consensus size: 29
11002666 ATCCTAAAAC
* *
11002676 ATGAAAAGAGATGGTTTCGACCATCAAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
11002705 ATGAAAAGGGATGGTTTCGACCATCTAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
11002734 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGAAT
* *** *
11002763 ATGAAAAGGGAGGGTGAAGACCATCAAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * *** ** *
11002792 ATAAAAAGGGATGATGAGGACCATTAAAC
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* *
11002821 ATGAAAAGGGATGGTTTCAACCATTGAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
**
11002850 ATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
11002879 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGAAT
* *
11002908 ATGAAAAGAGATGGTTTCGACCATCGATT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * * *
11002937 AAAGAAAAAGGATGATTACGACCATC
1 -ATGAAAAGGGATGGTTTCGACCATC
11002963 ATTTAGCACA
Statistics
Matches: 217, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
28 1 0.00
29 195 0.90
30 21 0.10
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGAAT
Found at i:11005082 original size:40 final size:40
Alignment explanation
Indices: 11005037--11005223 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
11005027 CAAGCTCAAT
* * * * *
11005037 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
11005077 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11005117 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11005157 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11005197 TGCCTTCGGGTCTTAGCCCGGATATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAT
11005224 TCAAATGCTC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:11008104 original size:29 final size:30
Alignment explanation
Indices: 11008054--11008119 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
11008044 ATTTTATAAT
*
11008054 TATTTAAATAGATAATTATTATT-TATTTAA
1 TATTTTAATAGATAATTATTATTAT-TTTAA
*
11008084 TATTTTAATAAGAT-ATT-TTATTATTTTAT
1 TATTTTAAT-AGATAATTATTATTATTTTAA
11008113 TATTTTA
1 TATTTTA
11008120 TTTAGTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.50
30 12 0.38
31 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTAATAGATAATTATTATTATTTTAA
Found at i:11008108 original size:8 final size:8
Alignment explanation
Indices: 11008097--11008121 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11008087 TTTAATAAGA
11008097 TATTTTAT
1 TATTTTAT
11008105 TATTTTAT
1 TATTTTAT
11008113 TATTTTAT
1 TATTTTAT
11008121 T
1 T
11008122 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:11008170 original size:2 final size:2
Alignment explanation
Indices: 11008165--11008198 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11008155 TGTGGGAAAA
11008165 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
11008199 TCCATCATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Done.