Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 184 of 438
Found at i:56785885 original size:29 final size:29
Alignment explanation
Indices: 56785791--56785863 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
56785781 GTGACGAGAT
56785791 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56785820 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56785849 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
56785864 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56785959 original size:2 final size:2
Alignment explanation
Indices: 56785954--56785991 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56785944 GTGTGCGTAC
56785954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56785992 CTCCGATCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56791123 original size:79 final size:81
Alignment explanation
Indices: 56791022--56791206 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56791012 ACGACTCGCT
** * *
56791022 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
56791085 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
56791102 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
56791166 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
56791182 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56791207 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:56791206 original size:40 final size:39
Alignment explanation
Indices: 56791015--56791206 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
56791005 GGATATAACG
* ** * *
56791015 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56791055 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56791095 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56791134 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56791174 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56791207 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56799126 original size:79 final size:81
Alignment explanation
Indices: 56799025--56799209 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56799015 ACGACTCGCT
** * *
56799025 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
56799088 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
56799105 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
56799169 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
56799185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56799210 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:56799209 original size:40 final size:39
Alignment explanation
Indices: 56799018--56799209 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
56799008 GGATATAACG
* ** * *
56799018 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56799058 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56799098 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56799137 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56799177 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56799210 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56803340 original size:24 final size:24
Alignment explanation
Indices: 56803286--56803334 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
56803276 TAAAGCATGC
56803286 TAGAATTATACATTAGTAAGAATG
1 TAGAATTATACATTAGTAAGAATG
56803310 TAGAATTATACATTAGTAAGAATG
1 TAGAATTATACATTAGTAAGAATG
56803334 T
1 T
56803335 GTAATTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (24 bp):
TAGAATTATACATTAGTAAGAATG
Found at i:56803906 original size:29 final size:29
Alignment explanation
Indices: 56803866--56803939 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
56803856 GTTGAGAGAT
* *
56803866 TGGCACTGAGTGTGCGAGTTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
56803895 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
56803924 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56803940 CGACTGATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:56808810 original size:41 final size:40
Alignment explanation
Indices: 56808757--56808926 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
56808747 AGTCCGACTC
*
56808757 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
56808796 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
56808836 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
56808881 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
56808920 TTTAGAC
1 -TTAGAC
56808927 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:56811865 original size:26 final size:26
Alignment explanation
Indices: 56811836--56811893 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
56811826 ATAAAACCAA
56811836 AAAATAAAAAAGTA-TTAAATGAAAAT
1 AAAATAAAAAAGTACTTAAA-GAAAAT
*
56811862 AAAAT-AAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAAGTACTTAAAGAAAAT
56811887 -AAATAAA
1 AAAATAAA
56811894 CATAAAAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 15 0.52
26 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.21
Consensus pattern (26 bp):
AAAATAAAAAAGTACTTAAAGAAAAT
Found at i:56825214 original size:2 final size:2
Alignment explanation
Indices: 56825207--56825242 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56825197 ACTAGAACAG
56825207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56825243 GTGACGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56832812 original size:61 final size:61
Alignment explanation
Indices: 56832734--56832865 Score: 246
Period size: 61 Copynumber: 2.1 Consensus size: 61
56832724 TATATTAGTG
*
56832734 AAATAATATTAAATAGTTTTATATTAGAAAACCATGAATTAATAATAGAAAAAGGGTGATAA
1 AAATAA-AGTAAATAGTTTTATATTAGAAAACCATGAATTAATAATAGAAAAAGGGTGATAA
56832796 AAATAAAGTAAATAGTTTTATATTAGAAAACCATGAATTAATAATAGAAAAAGGGTGATAA
1 AAATAAAGTAAATAGTTTTATATTAGAAAACCATGAATTAATAATAGAAAAAGGGTGATAA
56832857 AAATAAAGT
1 AAATAAAGT
56832866 TTCTCATTTA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 63 0.91
62 6 0.09
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.29
Consensus pattern (61 bp):
AAATAAAGTAAATAGTTTTATATTAGAAAACCATGAATTAATAATAGAAAAAGGGTGATAA
Found at i:56835550 original size:40 final size:40
Alignment explanation
Indices: 56835484--56835650 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56835474 AAATTGAATG
* * *
56835484 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56835523 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
56835563 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56835603 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56835643 ATATCCGG
1 ATATCCGG
56835651 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56843529 original size:40 final size:40
Alignment explanation
Indices: 56843463--56843613 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
56843453 AAATTGAATG
* * *
56843463 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56843502 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
56843542 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
56843582 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56843614 ACGTGATTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56849042 original size:23 final size:24
Alignment explanation
Indices: 56848984--56849101 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
56848974 GCTTTATCAT
*
56848984 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
56849009 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
56849033 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56849055 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56849079 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56849102 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
22 10 0.11
23 18 0.21
24 51 0.59
25 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56849058 original size:46 final size:47
Alignment explanation
Indices: 56849005--56849100 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 47
56848995 CCTAGCCTCT
56849005 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
56849051 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
56849098 TTT
1 TTT
56849101 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
46 27 0.56
47 21 0.44
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:56849178 original size:20 final size:20
Alignment explanation
Indices: 56849155--56849216 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
56849145 GAACATCTCG
56849155 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
56849175 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
56849195 TGTGCATATCATACATAT-A
1 TGTGCATATCATACATATCA
56849214 TGT
1 TGT
56849217 TTTCAAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:56853471 original size:42 final size:42
Alignment explanation
Indices: 56853399--56853482 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
56853389 TGGCCCATAG
**
56853399 GCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
* *
56853441 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
56853483 ATCCATTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:56853692 original size:24 final size:24
Alignment explanation
Indices: 56853630--56853800 Score: 222
Period size: 24 Copynumber: 7.2 Consensus size: 24
56853620 GGCCTTGCCT
* * * *
56853630 CTTTTAATAACTAGGGCAAAATCC
1 CTTTTGATAACTGGGGCATAAGCC
* *
56853654 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
56853677 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
56853701 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
56853724 CTTTTGATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
56853748 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
*
56853772 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
56853795 CTTTTG
1 CTTTTG
56853801 CACTTCCTCC
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
23 61 0.48
24 67 0.52
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTGATAACTGGGGCATAAGCC
Found at i:56853750 original size:71 final size:71
Alignment explanation
Indices: 56853632--56853800 Score: 295
Period size: 71 Copynumber: 2.4 Consensus size: 71
56853622 CCTTGCCTCT
* * * *
56853632 TTTAATAACTAGGGCAAAATCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
56853696 AAGCCC
66 AAGCCC
56853702 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
56853767 AAGCCC
66 AAGCCC
56853773 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
56853801 CACTTCCTCC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 20 0.21
71 74 0.79
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCAT
AAGCCC
Found at i:56853800 original size:47 final size:47
Alignment explanation
Indices: 56853630--56853798 Score: 232
Period size: 47 Copynumber: 3.6 Consensus size: 47
56853620 GGCCTTGCCT
* * * *
56853630 CTTTTAATAACTAGGGCAAAATCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
56853677 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* * * *
56853724 CTTTTGATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
56853772 C-TTTAATAACTGGGGCATAAGCCCTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTT
56853799 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 3 0.03
47 85 0.78
48 21 0.19
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:56853871 original size:9 final size:9
Alignment explanation
Indices: 56853857--56853913 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56853847 ATCTCATGTG
56853857 CATATCATA
1 CATATCATA
*
56853866 CATATCATGTG
1 CATATCA--TA
56853877 CATATCATA
1 CATATCATA
* *
56853886 CATGTCATGTG
1 CATATCA--TA
56853897 CATATCATA
1 CATATCATA
56853906 CATATCAT
1 CATATCAT
56853914 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:56853873 original size:20 final size:20
Alignment explanation
Indices: 56853845--56853915 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
56853835 GCATTTATGA
*
56853845 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56853865 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
56853885 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56853905 ACATATCATGT
1 ACATATCATGT
56853916 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:56853880 original size:11 final size:11
Alignment explanation
Indices: 56853850--56853904 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56853840 TATGAACATC
56853850 TCATGTGCATA
1 TCATGTGCATA
*
56853861 TCA--TACATA
1 TCATGTGCATA
56853870 TCATGTGCATA
1 TCATGTGCATA
* *
56853881 TCA--TACATG
1 TCATGTGCATA
56853890 TCATGTGCATA
1 TCATGTGCATA
56853901 TCAT
1 TCAT
56853905 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:56853980 original size:25 final size:25
Alignment explanation
Indices: 56853952--56853999 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
56853942 ATACATAAAC
* *
56853952 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
56853977 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
56854000 CTTATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:56855308 original size:27 final size:27
Alignment explanation
Indices: 56855278--56855329 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56855268 GTAAATCAAC
56855278 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
56855305 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
56855330 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:56855451 original size:27 final size:27
Alignment explanation
Indices: 56855368--56855453 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
56855358 TGTAAATTAG
56855368 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
* ***
56855395 GGGT-TTTTCGGTAATTTCACAAACCAA
1 GGGTATTTT-GGTAATTTTACAAATTGA
* **
56855422 GGGTATTTTAGTAATTTTGTAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
56855449 GGGTA
1 GGGTA
56855454 AAACAGTAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 4 0.09
27 38 0.83
28 4 0.09
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:56855490 original size:81 final size:82
Alignment explanation
Indices: 56855405--56855572 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 82
56855395 GGGTTTTTCG
*** * * **
56855405 GTAATTTC-ACAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTA-
1 GTAATTTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTC-AG
56855468 TAAATCAAGGGTAAAACA
65 TAAATCAAGGGTAAAACA
* *
56855486 GTAA-TTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGT
1 GTAATTTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGT
* *
56855550 AAATCGAGGGTAAAACG
66 AAATCAAGGGTAAAACA
56855567 GTAATT
1 GTAATT
56855573 CTGTAAGTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 4 0.05
81 68 0.93
82 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (82 bp):
GTAATTTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGT
AAATCAAGGGTAAAACA
Found at i:56855669 original size:27 final size:27
Alignment explanation
Indices: 56855431--56855662 Score: 270
Period size: 27 Copynumber: 8.6 Consensus size: 27
56855421 AGGGTATTTT
* **
56855431 AGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
56855458 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
56855485 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
56855512 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
56855539 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
56855566 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
56855593 -GATAATTATGTAAATCAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * *
56855620 -GATAATTATGTAAATTAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
*
56855647 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
56855663 GGGGGTACTT
Statistics
Matches: 184, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 182 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:56855696 original size:27 final size:27
Alignment explanation
Indices: 56855666--56855764 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
56855656 GTAAATCGGG
*
56855666 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
56855693 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
56855720 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
56855746 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
56855765 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:56855704 original size:54 final size:53
Alignment explanation
Indices: 56855658--56855762 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
56855648 GTAATTCTGT
* * *
56855658 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
56855712 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
56855763 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:56855778 original size:27 final size:27
Alignment explanation
Indices: 56855675--56855779 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
56855665 GGGTACTTTG
* * *
56855675 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
56855702 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
56855729 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
56855756 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
56855780 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:56857236 original size:55 final size:54
Alignment explanation
Indices: 56857149--56857403 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
56857139 ATTAGGGTTT
*
56857149 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
56857204 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAACTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
56857259 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
56857312 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
56857361 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
56857404 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:56859432 original size:29 final size:27
Alignment explanation
Indices: 56859398--56859500 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56859388 TACTCAATCA
*
56859398 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56859427 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56859456 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56859485 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56859501 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56862016 original size:20 final size:20
Alignment explanation
Indices: 56861991--56862041 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
56861981 CATATAAAAT
56861991 TGCAAATTCATGCAATTTAG
1 TGCAAATTCATGCAATTTAG
56862011 TGCAAATTCATGCAATTTAG
1 TGCAAATTCATGCAATTTAG
*
56862031 TACAAATTCAT
1 TGCAAATTCAT
56862042 CCTAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
TGCAAATTCATGCAATTTAG
Found at i:56863358 original size:50 final size:50
Alignment explanation
Indices: 56863273--56863488 Score: 281
Period size: 50 Copynumber: 4.3 Consensus size: 50
56863263 AGCTGTTACA
* * *
56863273 CTTTTCATAAGATTAGCCACAAAGGCATTCTAGATAATACACCACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCACAAAGG
* **
56863323 CTTTTCATAACATTAGCCACAAATTCTTTCCAGATAATACGCCACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCACAAAGG
* * * *
56863373 CTTTCCATAATATTAGCCACAAAGGTTTTCCAGATAATACGCCAAAAAGG
1 CTTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCACAAAGG
* * * *
56863423 ATTTTCATAAGATTAACCACAAAGGCTTTCCAAATAATACTCCACCAAA-G
1 CTTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCA-CAAAGG
*
56863473 CTTTTCATAAGTTTAG
1 CTTTTCATAAGATTAG
56863489 GGTTTAGTTT
Statistics
Matches: 142, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 139 0.98
51 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (50 bp):
CTTTTCATAAGATTAGCCACAAAGGCTTTCCAGATAATACGCCACAAAGG
Found at i:56863467 original size:25 final size:25
Alignment explanation
Indices: 56863288--56863476 Score: 134
Period size: 25 Copynumber: 7.6 Consensus size: 25
56863278 CATAAGATTA
* * *
56863288 GCCACAAAGGCATTCTAGATAATAC
1 GCCACAAAGGCTTTCCAAATAATAC
* * * *
56863313 ACCACAAAGGCTTTTCATAACATTA-
1 GCCACAAAGGCTTTCCA-AATAATAC
** *
56863338 GCCACAAATTCTTTCCAGATAATAC
1 GCCACAAAGGCTTTCCAAATAATAC
*
56863363 GCCACAAAGGCTTTCCATAATATTA-
1 GCCACAAAGGCTTTCCA-AATAATAC
* *
56863388 GCCACAAAGGTTTTCCAGATAATAC
1 GCCACAAAGGCTTTCCAAATAATAC
* * * * *
56863413 GCCAAAAAGGATTTTCATAAGATTA-
1 GCCACAAAGGCTTTCCA-AATAATAC
*
56863438 ACCACAAAGGCTTTCCAAATAATAC
1 GCCACAAAGGCTTTCCAAATAATAC
*
56863463 TCCACCAAA-GCTTT
1 GCCA-CAAAGGCTTT
56863477 TCATAAGTTT
Statistics
Matches: 123, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
24 14 0.11
25 92 0.75
26 17 0.14
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAAATAATAC
Found at i:56868489 original size:40 final size:40
Alignment explanation
Indices: 56868412--56868670 Score: 255
Period size: 40 Copynumber: 6.5 Consensus size: 40
56868402 GAATCACGTA
* **
56868412 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATG
* * *
56868451 CCTTCGGGA-CATAGCCCGG-TTATAATAACTCGCACAAATG
1 CCTTC-GGATCTTAACCCGGATT-TAGTAACTCGCACAAATG
*
56868491 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGTACAAATG
1 CCTTC-GGATCTTAACCCGGATTTAGTAACTCGCACAAATG
***
56868531 CCTTCGGATCTTAGTTCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
*
56868571 CCTTCGGATCTTAATCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
* * * *
56868611 CCTTCGGATCTTAATCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGATCTTAACCCGGATTTAGTAAC-TCGCACAAATG
*
56868651 CCTTCGGGA-CTTAGCCCGGA
1 CCTTC-GGATCTTAACCCGGA
56868671 CATCATTCGA
Statistics
Matches: 190, Mismatches: 21, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
39 13 0.07
40 164 0.86
41 13 0.07
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:56868560 original size:80 final size:80
Alignment explanation
Indices: 56868412--56868670 Score: 296
Period size: 80 Copynumber: 3.2 Consensus size: 80
56868402 GAATCACGTA
* * * * * *
56868412 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGA-CATAGCCCGG-TTA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATT-
*
56868473 TAATAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
*
56868491 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGTTCGGATTTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGGATTTAG
56868556 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * * *
56868571 CCTTC-GGATCTTAATCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAATCCGGATATA
1 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGGATTTA
* *
56868635 GTCACTTAGCACAAA-G
65 GTAAC-TCGCACAAATG
*
56868651 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
56868671 CATCATTCGA
Statistics
Matches: 156, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
79 19 0.12
80 124 0.79
81 13 0.08
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGGATTTAG
TAACTCGCACAAATG
Found at i:56882972 original size:33 final size:32
Alignment explanation
Indices: 56882915--56882988 Score: 103
Period size: 33 Copynumber: 2.3 Consensus size: 32
56882905 GGGCCCACAT
*
56882915 GCCCATGTGGCCTACATGCCCAAAATGACCTA
1 GCCCATGTGGCCCACATGCCCAAAATGACCTA
* * *
56882947 GCCTATGTGGCCCACTTGGCCCAAAATGGCCTA
1 GCCCATGTGGCCCACAT-GCCCAAAATGACCTA
56882980 GCCCATGTG
1 GCCCATGTG
56882989 TCATACACAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 14 0.39
33 22 0.61
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (32 bp):
GCCCATGTGGCCCACATGCCCAAAATGACCTA
Found at i:56886294 original size:40 final size:40
Alignment explanation
Indices: 56886215--56886392 Score: 169
Period size: 40 Copynumber: 4.4 Consensus size: 40
56886205 TTATAGTGAT
* * * * * *
56886215 TCGCACAATTGCCTTTGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGCGAATTAACCTGGATTTGGTAAC
* *
56886255 TCGCACAAATGCCTTCGCGACTTAA-CTCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGCGAATTAACCT-GGATTTGGTAAC
* *
56886295 TCGCACAAATGCCTTCGGGAATTGACCTGGATTTGGTAAC
1 TCGCACAAATGCCTTCGCGAATTAACCTGGATTTGGTAAC
* * * * * *
56886335 TCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGCGAATTAACCTGGATTTGGTAAC
* *
56886375 TTAGCACAAAAGCCTTCG
1 -TCGCACAAATGCCTTCG
56886393 GGACTTAGCC
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 99 0.85
41 16 0.14
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGCGAATTAACCTGGATTTGGTAAC
Found at i:56896175 original size:47 final size:47
Alignment explanation
Indices: 56896068--56896195 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
56896058 AATCGATAAG
* * *** *
56896068 TACCTATACCATGGCCCGTAGCTAAATAAAGGTAACTTATCTTGGAG
1 TACCTATACCATGGCCCATAGCTAAATAAAGGTAACTCATCTCAAAA
* * * *
56896115 TACTTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGGCCCATAGCTAAATAAAGGTAACTCATCTCAAAA
* *
56896162 TACCTATATCATGGCCCATAGCTAAATTAAGGTA
1 TACCTATACCATGGCCCATAGCTAAATAAAGGTA
56896196 TTATTCACAC
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCTAAATAAAGGTAACTCATCTCAAAA
Found at i:56906310 original size:42 final size:41
Alignment explanation
Indices: 56906264--56906419 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 41
56906254 ACAAAGACTA
*
56906264 TGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
1 TGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TT
*
56906306 TGTGTAAAACCATATCTGGGATATGGCATCGATATGAGATT
1 TGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATT
* *** ** * *
56906347 TCCTGTAAGGTTATAGATGGGCTATTGGCATCGATACGAGATT
1 T-GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT
**
56906390 ACATGTAAGACCATATCTGGGATATGGCAT
1 -TGTGTAAGACCATATCTGGGATATGGCAT
56906420 TGGTATAATA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.03
42 57 0.62
43 32 0.35
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (41 bp):
TGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATT
Found at i:56915736 original size:2 final size:2
Alignment explanation
Indices: 56915729--56915767 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
56915719 TTTCTTTTCA
*
56915729 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
56915768 TGAGAAAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:56919097 original size:22 final size:22
Alignment explanation
Indices: 56919069--56919114 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
56919059 TTTGAGCTGC
*
56919069 TATGGACTTAAAAGTGGTTATG
1 TATGGACTTAAAAGTGGCTATG
56919091 TATGGACTTAAAAGTGGCTATG
1 TATGGACTTAAAAGTGGCTATG
56919113 TA
1 TA
56919115 ATTTAAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.35
Consensus pattern (22 bp):
TATGGACTTAAAAGTGGCTATG
Found at i:56924911 original size:48 final size:48
Alignment explanation
Indices: 56924847--56925088 Score: 421
Period size: 48 Copynumber: 5.0 Consensus size: 48
56924837 CAAGATAAAT
* * * *
56924847 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56924895 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
56924943 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56924991 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
56925039 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56925087 AT
1 AT
56925089 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:56925284 original size:37 final size:37
Alignment explanation
Indices: 56925229--56925368 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
56925219 GGAAATATAT
56925229 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56925266 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56925303 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56925340 TCCGGGTAAGACCCGATAACTCCGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
56925369 GGACTATTCG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56932506 original size:39 final size:39
Alignment explanation
Indices: 56932462--56932575 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
56932452 GTGCTGAGAT
* * *
56932462 TGTATCCGGGTTAGAGTCCTGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
56932501 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* * *
56932540 TGTGTTCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
56932576 TGCTGGTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:56938021 original size:39 final size:39
Alignment explanation
Indices: 56937977--56938090 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
56937967 GTGCTGAGAT
* * *
56937977 TGTATCCGGGTTAGAGTCCTGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
56938016 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
56938055 TGTGTCCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
56938091 TGCTGGTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:56946176 original size:29 final size:29
Alignment explanation
Indices: 56946143--56946216 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56946133 GTGACGAGAT
56946143 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56946172 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56946201 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56946217 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56946232 original size:29 final size:28
Alignment explanation
Indices: 56946200--56946274 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
56946190 CTGGAAATAT
* *
56946200 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
56946229 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
56946257 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
56946275 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:56946243 original size:58 final size:57
Alignment explanation
Indices: 56946143--56946274 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
56946133 GTGACGAGAT
* * * * * *
56946143 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
56946201 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
56946258 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
56946275 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:56954044 original size:29 final size:29
Alignment explanation
Indices: 56954011--56954084 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56954001 GTGACGAGAT
56954011 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56954040 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56954069 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56954085 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56954100 original size:29 final size:28
Alignment explanation
Indices: 56954068--56954142 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
56954058 CTGGAAATAT
* *
56954068 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
56954097 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
56954125 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
56954143 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:56954111 original size:58 final size:57
Alignment explanation
Indices: 56954011--56954142 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
56954001 GTGACGAGAT
* * * * * *
56954011 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
56954069 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
56954126 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
56954143 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:56961912 original size:29 final size:29
Alignment explanation
Indices: 56961879--56961952 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56961869 GTGACGAGAT
56961879 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56961908 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56961937 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56961953 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56961968 original size:29 final size:28
Alignment explanation
Indices: 56961936--56962010 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
56961926 CTGGAAATAT
* *
56961936 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
56961965 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
56961993 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
56962011 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:56961979 original size:58 final size:57
Alignment explanation
Indices: 56961879--56962010 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
56961869 GTGACGAGAT
* * * * * *
56961879 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
56961937 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
56961994 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
56962011 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:56964018 original size:43 final size:43
Alignment explanation
Indices: 56963962--56964134 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
56963952 AGCTCGTACA
* * * *
56963962 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
* * * * *
56964004 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCGAT-TAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ATATATCG
*
56964047 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-TCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAT-ATAT-CG
* * *
56964090 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
56964133 AT
1 AT
56964135 AACCTAATGT
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 97 0.91
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATATCG
Found at i:56965538 original size:382 final size:382
Alignment explanation
Indices: 56964820--56965587 Score: 1493
Period size: 382 Copynumber: 2.0 Consensus size: 382
56964810 CAAAGAAACG
*
56964820 ATTACAAAAACATAGAAATCATCAAAAACCGAGCTCAAAACATACCTCAATCAAAGACAATGAGA
1 ATTACAAAAACATAGAAATCATCAAAAACCAAGCTCAAAACATACCTCAATCAAAGACAATGAGA
56964885 GCCAAACCCTAAAATGCTCCCAAGCCTTATTTTCTTTTGATGTTCAGTTAAAGAAGATGAGAAAT
66 GCCAAACCCTAAAATGCTCCCAAGCCTTATTTTCTTTTGATGTTCAGTTAAAGAAGATGAGAAAT
56964950 GGCCACCATTTTGTTTTGTTTTATTATTAATGGCATTAATAATCCATTTACTAATTTACCCTTCA
131 GGCCACCATTTTGTTTTGTTTTATTATTAATGGCATTAATAATCCATTTACTAATTTACCCTTCA
56965015 TTAAAACATTTAAAAACACTTATTGAATGCCCATTAATGTCCATAAACATTATCAATGGAATAAT
196 TTAAAACATTTAAAAACACTTATTGAATGCCCATTAATGTCCATAAACATTATCAATGGAATAAT
56965080 AACATCATAAGGACCTCATAATTAACAAACCATAGCAATTAAATACTATTATCTTATAGCATGCC
261 AACATCATAAGGACCTCATAATTAACAAACCATAGCAATTAAATACTATTATCTTATAGCATGCC
56965145 ACTTTTGCATTTTACGCGATTTAGTCTTTTTCTCAAATTAACTACTTAAACGATAAA
326 ACTTTTGCATTTTACGCGATTTAGTCTTTTTCTCAAATTAACTACTTAAACGATAAA
56965202 ATTATCAAAAAC-TAGAAATCATCAAAAACCAAGCTCAAAACATACCTCAATCAAAGACAATGAG
1 ATTA-CAAAAACATAGAAATCATCAAAAACCAAGCTCAAAACATACCTCAATCAAAGACAATGAG
*
56965266 AGCCAAACCCTAAAATGCTCCCAAGCCTTATTTTCTTTTGATGTTCGGTTAAAGAAGATGAGAAA
65 AGCCAAACCCTAAAATGCTCCCAAGCCTTATTTTCTTTTGATGTTCAGTTAAAGAAGATGAGAAA
*
56965331 TGGTCACCATTTTGTTTTGTTTTATTATTAATGGCATTAATAATCCATTTACTAATTTACCCTTC
130 TGGCCACCATTTTGTTTTGTTTTATTATTAATGGCATTAATAATCCATTTACTAATTTACCCTTC
56965396 ATTAAAACATTTAAAAACACTTATTGAATGCCCATTAATGTCCATAAACATTATCAATGGAATAA
195 ATTAAAACATTTAAAAACACTTATTGAATGCCCATTAATGTCCATAAACATTATCAATGGAATAA
56965461 TAACATCATAAGGACCTCATAATTAACAAACCATAGCAATTAAATACTATTATCTTATAGCATGC
260 TAACATCATAAGGACCTCATAATTAACAAACCATAGCAATTAAATACTATTATCTTATAGCATGC
56965526 CACTTTTGCATTTTACGCGATTTAGTCTTTTTCTCAAATTAACTACTTAAACGATAAA
325 CACTTTTGCATTTTACGCGATTTAGTCTTTTTCTCAAATTAACTACTTAAACGATAAA
56965584 ATTA
1 ATTA
56965588 GCATGCGAAA
Statistics
Matches: 382, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
382 375 0.98
383 7 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (382 bp):
ATTACAAAAACATAGAAATCATCAAAAACCAAGCTCAAAACATACCTCAATCAAAGACAATGAGA
GCCAAACCCTAAAATGCTCCCAAGCCTTATTTTCTTTTGATGTTCAGTTAAAGAAGATGAGAAAT
GGCCACCATTTTGTTTTGTTTTATTATTAATGGCATTAATAATCCATTTACTAATTTACCCTTCA
TTAAAACATTTAAAAACACTTATTGAATGCCCATTAATGTCCATAAACATTATCAATGGAATAAT
AACATCATAAGGACCTCATAATTAACAAACCATAGCAATTAAATACTATTATCTTATAGCATGCC
ACTTTTGCATTTTACGCGATTTAGTCTTTTTCTCAAATTAACTACTTAAACGATAAA
Found at i:56968306 original size:29 final size:29
Alignment explanation
Indices: 56968274--56968464 Score: 346
Period size: 29 Copynumber: 6.5 Consensus size: 29
56968264 ATAGTGAATC
56968274 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56968303 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
56968333 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56968362 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
56968392 TGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
56968421 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56968450 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56968465 GTACAATTTT
Statistics
Matches: 157, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
29 100 0.64
30 57 0.36
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:56968366 original size:59 final size:59
Alignment explanation
Indices: 56968274--56968464 Score: 357
Period size: 59 Copynumber: 3.3 Consensus size: 59
56968264 ATAGTGAATC
56968274 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
56968333 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
56968392 TGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
56968450 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56968465 GTACAATTTT
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
58 23 0.18
59 106 0.82
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56968419 original size:88 final size:89
Alignment explanation
Indices: 56968274--56968494 Score: 356
Period size: 88 Copynumber: 2.5 Consensus size: 89
56968264 ATAGTGAATC
56968274 CGCACACTTAGTGCTATAT-ATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
1 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
56968338 ACTTAGTGCTATATATTTTCAGCT
66 ACTTAGTGCTATATATTTTCAGCT
*
56968362 CGCACACTTAGTGCTATATAATTTTCAGCTTGCACACTTAGTGCTATAT-ATTTTCAGCTCGCAC
1 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
*
56968426 ACTTAGTGCTATATATTTTCAGTT
66 ACTTAGTGCTATATATTTTCAGCT
* * * * *
56968450 CGCACACTTAGTGCTGTACAATTTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATATAA-TTTTCAGCTCGCACACTTAGTGC
56968495 CAATCTTGTC
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
88 76 0.62
89 47 0.38
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (89 bp):
CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCAC
ACTTAGTGCTATATATTTTCAGCT
Found at i:56975635 original size:29 final size:29
Alignment explanation
Indices: 56975603--56975734 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
56975593 ATAGTGAATC
56975603 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56975632 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
56975662 CGTACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
56975691 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
56975720 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56975735 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 71 0.72
30 28 0.28
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:56975744 original size:59 final size:59
Alignment explanation
Indices: 56975603--56975734 Score: 239
Period size: 59 Copynumber: 2.3 Consensus size: 59
56975593 ATAGTGAATC
56975603 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
56975662 CGTACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
56975720 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56975735 GTACAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56978807 original size:46 final size:46
Alignment explanation
Indices: 56978751--56978873 Score: 219
Period size: 46 Copynumber: 2.7 Consensus size: 46
56978741 GGCATCCGAA
56978751 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCTGAG
* *
56978797 CTTGTTGAGTTGAGTTCGAGTTCACTTATGGATGTGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCTGAG
*
56978843 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56978874 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCTGAG
Found at i:56980490 original size:44 final size:44
Alignment explanation
Indices: 56980430--56980515 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
56980420 ATATGTGATT
** *
56980430 TGAAATCATGAATTGTGGTCTGAGTTCATGATATATGTGACATC
1 TGAAATCATGAATTGTGGTCCAACTTCATGATATATGTGACATC
* *
56980474 TGAACTCATGAGTTGTGGTCCAACTTCATGATATATGTGACA
1 TGAAATCATGAATTGTGGTCCAACTTCATGATATATGTGACA
56980516 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (44 bp):
TGAAATCATGAATTGTGGTCCAACTTCATGATATATGTGACATC
Found at i:56984547 original size:52 final size:44
Alignment explanation
Indices: 56984513--56984688 Score: 151
Period size: 45 Copynumber: 3.9 Consensus size: 44
56984503 CGGATGTCAC
*
56984513 ATGCATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGA
1 ATGC-TCGCATCCATAATGAACTCGGACCAACTCAACAAGCTCGA
*
56984558 ATGCTCGCATCCATAATGAACTCAGACCAACTCAACAAGCTC-A
1 ATGCTCGCATCCATAATGAACTCGGACCAACTCAACAAGCTCGA
* * ** * * *
56984601 GATGCTTCACATACA-ACACAAACTTGGACTAACTCAACAAGTTC-A
1 -ATGC-TCGCATCCATA-ATGAACTCGGACCAACTCAACAAGCTCGA
* * ** *
56984646 TATTTCTCACATATATCATGAACTCGGACCAACTCAACAAGCT
1 -A-TGCTCGCATCCATAATGAACTCGGACCAACTCAACAAGCT
56984689 TAGATTTCTA
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 41 0.38
45 63 0.59
46 2 0.02
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (44 bp):
ATGCTCGCATCCATAATGAACTCGGACCAACTCAACAAGCTCGA
Found at i:56984568 original size:44 final size:45
Alignment explanation
Indices: 56984513--56984599 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
56984503 CGGATGTCAC
* *
56984513 ATGCATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGA
1 ATGCATCGCATCCATAATGAACTCAGACCAACTCAACAAGCTCGA
56984558 ATGC-TCGCATCCATAATGAACTCAGACCAACTCAACAAGCTC
1 ATGCATCGCATCCATAATGAACTCAGACCAACTCAACAAGCTC
56984600 AGATGCTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.18
Consensus pattern (45 bp):
ATGCATCGCATCCATAATGAACTCAGACCAACTCAACAAGCTCGA
Found at i:56986993 original size:25 final size:22
Alignment explanation
Indices: 56986965--56987045 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
56986955 AAGCTTCTCC
56986965 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA--AACAGTAAGCTCT-A
*
56986990 TGAGCTGAAACGGTAAGCTCTA
1 TGAGCTGAAACAGTAAGCTCTA
* *
56987012 TCGAGCTG-AATAGTAAGCTCATG
1 T-GAGCTGAAACAGTAAGCTC-TA
*
56987035 TGAGATGAAAC
1 TGAGCTGAAAC
56987046 GATAAACTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.36
23 22 0.47
25 8 0.17
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (22 bp):
TGAGCTGAAACAGTAAGCTCTA
Found at i:56987009 original size:23 final size:22
Alignment explanation
Indices: 56986951--56987046 Score: 70
Period size: 23 Copynumber: 4.1 Consensus size: 22
56986941 GAGCCATGAT
*
56986951 CGGTAAGCTTCTCCTGAGCTGATGAA
1 CGGTAAGC-TCT-ATGAGCTGA--AA
*
56986977 CAGTAAGCTCTAATGAGCTGAAA
1 CGGTAAGCTCT-ATGAGCTGAAA
56987000 CGGTAAGCTCTATCGAGCTGAATA
1 CGGTAAGCTCTAT-GAGCTGAA-A
* *
56987024 --GTAAGCTCATGTGAGATGAAA
1 CGGTAAGCTC-TATGAGCTGAAA
56987045 CG
1 CG
56987047 ATAAACTCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
21 1 0.02
22 17 0.29
23 22 0.37
24 1 0.02
25 11 0.19
26 7 0.12
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (22 bp):
CGGTAAGCTCTATGAGCTGAAA
Found at i:56994413 original size:44 final size:44
Alignment explanation
Indices: 56994345--56994440 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
56994335 TCACTTAGAA
* * *
56994345 ATATGTG--ATCTGAACTCATGAGTTGTGGTCTGAGTTCATGAT
1 ATATGTGACATCTAAACTCATAAGTTGTGGTCTAAGTTCATGAT
56994387 ATATGTGACATCTAAACTCATAAGTTGTGGTCTAAGTTCATGAT
1 ATATGTGACATCTAAACTCATAAGTTGTGGTCTAAGTTCATGAT
56994431 ATATGTGACA
1 ATATGTGACA
56994441 CATGTTTTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 7 0.14
44 42 0.86
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (44 bp):
ATATGTGACATCTAAACTCATAAGTTGTGGTCTAAGTTCATGAT
Found at i:57003844 original size:29 final size:29
Alignment explanation
Indices: 57003804--57003906 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
57003794 GTTGAGAGAT
*
57003804 TGGCACTGAGTGTGCGAGTTTGAAATGCA
1 TGGCACTAAGTGTGCGAGTTTGAAATGCA
*
57003833 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGTTTGAAATGCA
**
57003862 TGGCACTAAGTGTGCGAGTTT-AAAGTATA
1 TGGCACTAAGTGTGCGAGTTTGAAA-TGCA
57003891 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57003907 CGGCTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 3 0.04
29 65 0.96
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTTGAAATGCA
Found at i:57005439 original size:29 final size:29
Alignment explanation
Indices: 57005406--57005478 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
57005396 GTGACGAGAT
57005406 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57005435 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57005464 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57005479 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57005494 original size:29 final size:30
Alignment explanation
Indices: 57005406--57005538 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
57005396 GTGACGAGAT
57005406 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
57005435 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* ***
57005464 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* * * **
57005493 TGGCACTATGTGTGCG-GGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAT-ATA
57005522 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57005539 AATCGAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.02
29 87 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTGGAAATATA
Found at i:57013438 original size:29 final size:29
Alignment explanation
Indices: 57013344--57013416 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
57013334 GTGACGAGAT
57013344 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57013373 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57013402 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57013417 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57013512 original size:2 final size:2
Alignment explanation
Indices: 57013507--57013537 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57013497 GTGTGCGTAC
57013507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57013538 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57020503 original size:40 final size:40
Alignment explanation
Indices: 57020435--57020612 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
57020425 CCAAGGCCAA
* * * *
57020435 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
57020474 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
57020514 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
57020554 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
57020594 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
57020613 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:57030018 original size:24 final size:24
Alignment explanation
Indices: 57029986--57030045 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
57029976 AATCTCAAAT
57029986 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
57030010 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
57030034 GCACTATGTGTG
1 GCACTATGTGTG
57030046 TGAACATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:57032734 original size:27 final size:26
Alignment explanation
Indices: 57032694--57032805 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
57032684 AGGAAGCGTC
*
57032694 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
57032721 CTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
57032748 CTGGGGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
57032776 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
57032802 CTGG
1 CTGG
57032806 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.69
28 15 0.21
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:57033894 original size:11 final size:10
Alignment explanation
Indices: 57033866--57033899 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
57033856 AGCTTGTAAG
57033866 TATTCTGAAT
1 TATTCTGAAT
*
57033876 TTTTCTGAAT
1 TATTCTGAAT
57033886 ATATTCTGAAT
1 -TATTCTGAAT
57033897 TAT
1 TAT
57033900 CTGTCTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:57040561 original size:27 final size:26
Alignment explanation
Indices: 57040521--57040632 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
57040511 AGGAAGCGTC
*
57040521 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
57040548 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
57040575 CTGGTGGTTCTGTCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
57040603 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
57040629 CTGG
1 CTGG
57040633 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:57044299 original size:27 final size:27
Alignment explanation
Indices: 57044267--57044515 Score: 340
Period size: 27 Copynumber: 9.2 Consensus size: 27
57044257 CAAAGTACTA
* *
57044267 TCGATTTATAGAATTACTGTTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
* **
57044294 TTGATTTACAGAATTATTGTTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
** * *
57044321 TTAATTTATAGAATTACCGTTTTACTC
1 TCGATTTACAGAATTACCGTTTTACCC
57044348 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
*
57044375 TCGATTT-CTAGAATTACCATTTTACCC
1 TCGATTTAC-AGAATTACCGTTTTACCC
*
57044402 TCGATTTATAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
57044429 TCGATTTACAGAATTACCGTTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
* *
57044456 TCGATTTACAAAATTACCATTTTACCC
1 TCGATTTACAGAATTACCGTTTTACCC
*
57044483 TC-AGTTTACAAAATTACCGTTTTACCC
1 TCGA-TTTACAGAATTACCGTTTTACCC
57044510 TCGATT
1 TCGATT
57044516 GTGAAATTAC
Statistics
Matches: 199, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.01
27 196 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TCGATTTACAGAATTACCGTTTTACCC
Found at i:57044577 original size:27 final size:26
Alignment explanation
Indices: 57044547--57044723 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 26
57044537 TGTAGGATAG
57044547 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCT-GTTTGTAA
* *
57044574 AATTACCAAAATATCCCTGGCTTGTAA
1 AATTACCAAAATACCCCT-GTTTGTAA
* *
57044601 GATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTG-TTTGTAA
* * *
57044628 AATTATCGAAATA-CTCTCGATTTGTAA
1 AATTACCAAAATACCCCT-G-TTTGTAA
* * * **
57044655 AA-TATCGAAATACCCTTGTAAGGTAA
1 AATTACCAAAATACCCCTGT-TTGTAA
* * **
57044681 AAATACCGAAATACCCCTGTAGGGTAA
1 AATTACCAAAATACCCCTGT-TTGTAA
* *
57044708 AATTACCGAGATACCC
1 AATTACCAAAATACCC
57044724 TTGTGGGGTA
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.01
26 21 0.17
27 102 0.82
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCCTGTTTGTAA
Found at i:57044732 original size:27 final size:27
Alignment explanation
Indices: 57044651--57044742 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
57044641 CTCTCGATTT
* *
57044651 GTAAAA-TATCGAAATACCCTTGTAAG
1 GTAAAATTACCGAAATACCCTTGTAGG
* *
57044677 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCTTGTAGG
* *
57044704 GTAAAATTACCGAGATACCCTTGTGGG
1 GTAAAATTACCGAAATACCCTTGTAGG
57044731 GTAAAAATTACC
1 GT-AAAATTACC
57044743 ATTTTGCCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.11
27 42 0.74
28 9 0.16
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTTGTAGG
Found at i:57045030 original size:24 final size:25
Alignment explanation
Indices: 57044945--57045038 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
57044935 AGGAAGTGCT
* * * *
57044945 AAAAGGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
57044970 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
57044995 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
57045020 AAAAGGG-TTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57045039 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 12 0.18
25 53 0.82
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:57045062 original size:49 final size:51
Alignment explanation
Indices: 57044944--57045063 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 51
57044934 GAGGAAGTGC
*
57044944 TAAAAG-GGCTATGCCT-CAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGAGGCTATGCCTCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
* * *
57044993 CAAAA-AGGGCTTTGCC-CCAGTTTATCAAAAAGGG-TTTGCCCCAG-TTAT
1 TAAAAGA-GGCTATGCCTCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
*
57045041 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAGAGGCTATGCCTCCAGTT
57045064 ATATGATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
48 15 0.25
49 21 0.36
50 23 0.39
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
TAAAAGAGGCTATGCCTCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:57045307 original size:31 final size:31
Alignment explanation
Indices: 57045258--57045340 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
57045248 CGCTTACAGT
57045258 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
57045288 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
57045319 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
57045341 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:57050967 original size:42 final size:41
Alignment explanation
Indices: 57050914--57051035 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 41
57050904 CGATATGTAT
*
57050914 TTTTGTTTAAGACCATGTCTGGGACGTTGGCATTGTATTTGA
1 TTTTGTGTAAGACCATGTCT-GGACGTTGGCATTGTATTTGA
* * *
57050956 TTTTGTGTAAGACCCTATCTCGGACAG-TGGCATCGATATTTGA
1 TTTTGTGTAAGACCATGTCT-GGAC-GTTGGCATTG-TATTTGA
*** * * *
57050999 TTACATGTAAGACCACGTCTAGATGTTGGCATTGTAT
1 TTTTGTGTAAGACCATGTCTGGACGTTGGCATTGTAT
57051036 GAGCTTTTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.06
42 37 0.59
43 22 0.35
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (41 bp):
TTTTGTGTAAGACCATGTCTGGACGTTGGCATTGTATTTGA
Found at i:57055277 original size:12 final size:12
Alignment explanation
Indices: 57055249--57055277 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
57055239 TATATCTATA
57055249 TGGTAGAATTTT
1 TGGTAGAATTTT
57055261 T-GTAGAATTTT
1 TGGTAGAATTTT
57055272 TGGTAG
1 TGGTAG
57055278 GGCCAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:57056375 original size:27 final size:27
Alignment explanation
Indices: 57056345--57056400 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
57056335 TGTTATGTAC
57056345 GTGACTTCAATTAAAATTGTCACATAG
1 GTGACTTCAATTAAAATTGTCACATAG
57056372 GTGACTTCAATTAAAATTGTCACATAG
1 GTGACTTCAATTAAAATTGTCACATAG
57056399 GT
1 GT
57056401 TCAAAACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
GTGACTTCAATTAAAATTGTCACATAG
Found at i:57056610 original size:28 final size:27
Alignment explanation
Indices: 57056547--57056616 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
57056537 ATAGTGAGTC
57056547 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
57056574 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
57056602 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57056617 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:57066563 original size:47 final size:47
Alignment explanation
Indices: 57066492--57066585 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
57066482 TCCCAGACAC
*
57066492 AGTCTTATACGATGTCTCAAACAGATGTCAACTTTTCTCTAGAAACA
1 AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
* *
57066539 AGTCTTATACGATATCTCAGACAGATGTCAACTTTTCTTTAGAAACA
1 AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
57066586 TACAGAGCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (47 bp):
AGTCTTATACGATATCTCAAACAGATGTCAACTTTTCTCTAGAAACA
Found at i:57068611 original size:28 final size:28
Alignment explanation
Indices: 57068527--57068612 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
57068517 AAGTAAGCAC
* * *
57068527 AGTTTGGGCCTAAGCCC-TTTCAGTAAC
1 AGTTAGGGCCTTAGCCCATTTCAGTAAT
* *
57068554 AGTTAGGGCCTTAACCCATTTCAGTTAT
1 AGTTAGGGCCTTAGCCCATTTCAGTAAT
*
57068582 AGTTAGGGCCTTAGCCCATTTCAATAAT
1 AGTTAGGGCCTTAGCCCATTTCAGTAAT
57068610 AGT
1 AGT
57068613 AGCAATCTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
27 14 0.28
28 36 0.72
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (28 bp):
AGTTAGGGCCTTAGCCCATTTCAGTAAT
Found at i:57068638 original size:34 final size:34
Alignment explanation
Indices: 57068600--57068669 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
57068590 CCTTAGCCCA
* *
57068600 TTTCAATAATAGTAGCAATCTGGGCCTGAGCCTG
1 TTTCAATAACAGTAGCAATCTGGGCCTAAGCCTG
* * *
57068634 TTTCAGTAACAGTAGCAGTGTGGGCCTAAGCCTG
1 TTTCAATAACAGTAGCAATCTGGGCCTAAGCCTG
57068668 TT
1 TT
57068670 AACATATCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (34 bp):
TTTCAATAACAGTAGCAATCTGGGCCTAAGCCTG
Found at i:57069146 original size:192 final size:192
Alignment explanation
Indices: 57068819--57069202 Score: 723
Period size: 192 Copynumber: 2.0 Consensus size: 192
57068809 CTAAAACAGT
57068819 ATTTGTAGCAAAGATGCCAATAATAGGCTTATAGACTTTTAGTACACTTCCTCCAAGATCATATA
1 ATTTGTAGCAAAGATGCCAATAATAGGCTTATAGACTTTTAGTACACTTCCTCCAAGATCATATA
*
57068884 TCCCACCCCATGCAATGCTACATAATATGAATGTAAATACAATAAGAATGGCATGCTCAAATAGT
66 TCCCACCCCATGCAATGCTACATAATATGAATGTAAATACAATAAGAATGGCATGCTCAAACAGT
* *
57068949 CATACATCACATAAGGGTAAAATCGTCATCTTACCAAAATAAGGGTCCAGGTACACTTACCG
131 CATACATCACATAAGGGTAAAATCATCATCTTACCAAAATAAGGGCCCAGGTACACTTACCG
* *
57069011 ATTTGTAGCAAAGATGCCAGTAATAGGCTTATAGACTTTTAGTACACTTCCTTCAAGATCATATA
1 ATTTGTAGCAAAGATGCCAATAATAGGCTTATAGACTTTTAGTACACTTCCTCCAAGATCATATA
57069076 TCCCACCCCATGCAATGCTACATAATATGAATGTAAATACAATAAGAATGGCATGCTCAAACAGT
66 TCCCACCCCATGCAATGCTACATAATATGAATGTAAATACAATAAGAATGGCATGCTCAAACAGT
57069141 CATACATCACATAAGGGTAAAATCATCATCTTACCAAAATAAGGGCCCAGGTACACTTACCG
131 CATACATCACATAAGGGTAAAATCATCATCTTACCAAAATAAGGGCCCAGGTACACTTACCG
57069203 GCCCAACAGT
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
192 187 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (192 bp):
ATTTGTAGCAAAGATGCCAATAATAGGCTTATAGACTTTTAGTACACTTCCTCCAAGATCATATA
TCCCACCCCATGCAATGCTACATAATATGAATGTAAATACAATAAGAATGGCATGCTCAAACAGT
CATACATCACATAAGGGTAAAATCATCATCTTACCAAAATAAGGGCCCAGGTACACTTACCG
Found at i:57079852 original size:42 final size:42
Alignment explanation
Indices: 57079805--57079890 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
57079795 GTTCAATTCA
57079805 TCAACAAACCGCTTGCACATAATCTCTTCGGTAGAAACATAC
1 TCAACAAACCGCTTGCACATAATCTCTTCGGTAGAAACATAC
57079847 TCAACAAACCGCTTGCACATAATCTCTTCGGTAGAAACATAC
1 TCAACAAACCGCTTGCACATAATCTCTTCGGTAGAAACATAC
57079889 TC
1 TC
57079891 TTGAGTGTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (42 bp):
TCAACAAACCGCTTGCACATAATCTCTTCGGTAGAAACATAC
Found at i:57085514 original size:13 final size:13
Alignment explanation
Indices: 57085496--57085523 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57085486 CATATATGCA
57085496 CATATTTACAAAC
1 CATATTTACAAAC
57085509 CATATTTACAAAC
1 CATATTTACAAAC
57085522 CA
1 CA
57085524 AAACATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (13 bp):
CATATTTACAAAC
Found at i:57085858 original size:12 final size:12
Alignment explanation
Indices: 57085841--57085865 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57085831 TAACAAACCT
57085841 TTCATATGCTTA
1 TTCATATGCTTA
57085853 TTCATATGCTTA
1 TTCATATGCTTA
57085865 T
1 T
57085866 ATGCAAACTT
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTCATATGCTTA
Found at i:57086075 original size:39 final size:39
Alignment explanation
Indices: 57085979--57086120 Score: 212
Period size: 40 Copynumber: 3.6 Consensus size: 39
57085969 ACGATATCTT
* * *
57085979 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTC-GATC
* *
57086019 GCATACTAAGTGCCATATATAGCTGAAGCTATGTCGATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGATC
*
57086058 ACACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCG-ATC
57086098 GCACACTAAGTGCCATATATAGC
1 GCACACTAAGTGCCATATATAGC
57086121 AGATTTGTCG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.39
40 56 0.61
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (39 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGATC
Found at i:57086157 original size:79 final size:77
Alignment explanation
Indices: 57085980--57086130 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 77
57085970 CGATATCTTG
* *
57085980 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCATACTAAGTGCCATATATAGCTGA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGC--A
*
57086045 AGCTATGTCGATCA
64 AGATATGTCGATCA
* *
57086059 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCATATATAGC-AG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCAAG
*
57086123 ATTTGTCG
66 ATATGTCG
57086131 TCAAACATGA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
76 8 0.12
79 58 0.88
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (77 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCAAG
ATATGTCGATCA
Found at i:57089256 original size:22 final size:23
Alignment explanation
Indices: 57089231--57089283 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 23
57089221 ACATGAAATG
57089231 CCCATCATGGAACA-TTACCTAA
1 CCCATCATGGAACATTTACCTAA
57089253 CCCATTATCATGGAACATTTACCTAA
1 CCC---ATCATGGAACATTTACCTAA
57089279 CCCAT
1 CCCAT
57089284 TATCAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 2 0.07
25 11 0.41
26 11 0.41
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (23 bp):
CCCATCATGGAACATTTACCTAA
Found at i:57089263 original size:25 final size:26
Alignment explanation
Indices: 57089234--57089288 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
57089224 TGAAATGCCC
57089234 ATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57089259 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57089285 ATCA
1 ATCA
57089289 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57092441 original size:29 final size:29
Alignment explanation
Indices: 57092408--57092481 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57092398 GTGACGAGAT
57092408 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57092437 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57092466 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57092482 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57092497 original size:29 final size:29
Alignment explanation
Indices: 57092465--57092540 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
57092455 CTGGAAATAT
* *
57092465 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
57092494 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
57092523 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
57092541 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:57092508 original size:58 final size:58
Alignment explanation
Indices: 57092408--57092540 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
57092398 GTGACGAGAT
* * * * * *
57092408 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
57092466 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
57092524 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57092541 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:57100315 original size:29 final size:29
Alignment explanation
Indices: 57100282--57100355 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57100272 GTGACGAGAT
57100282 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57100311 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57100340 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57100356 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57100371 original size:29 final size:28
Alignment explanation
Indices: 57100339--57100413 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
57100329 CTGGAAATAT
* *
57100339 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
57100368 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
57100396 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
57100414 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:57100382 original size:58 final size:57
Alignment explanation
Indices: 57100282--57100413 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
57100272 GTGACGAGAT
* * * * * *
57100282 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
57100340 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
57100397 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57100414 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:57101887 original size:40 final size:40
Alignment explanation
Indices: 57101832--57102001 Score: 270
Period size: 40 Copynumber: 4.3 Consensus size: 40
57101822 GGGTGCTACA
* *
57101832 AGCCCGGTTATAGTAACTAGCACAATTGCCTTCGGGACTT
1 AGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* * *
57101872 AGCCCGATTATAGTAACTCGCACAATTGCCTTCGCGACTT
1 AGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
*
57101912 GGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 AGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
*
57101952 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTT
1 AGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
57101991 AGCCCGGTTAT
1 AGCCCGGTTAT
57102002 CAATCCGAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.11
40 107 0.89
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
Found at i:57107671 original size:32 final size:32
Alignment explanation
Indices: 57107634--57107699 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
57107624 TGGTTAGAAG
57107634 ATAAACAAATTAAAAAGATGAATATTTATCAA
1 ATAAACAAATTAAAAAGATGAATATTTATCAA
57107666 ATAAACAAATTAAAAAGATGAATATTTATCAA
1 ATAAACAAATTAAAAAGATGAATATTTATCAA
57107698 AT
1 AT
57107700 TTTAAAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (32 bp):
ATAAACAAATTAAAAAGATGAATATTTATCAA
Found at i:57110959 original size:2 final size:2
Alignment explanation
Indices: 57110952--57110984 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57110942 GAGACTAGTC
57110952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57110985 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57113014 original size:30 final size:30
Alignment explanation
Indices: 57112980--57113040 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57112970 TCCTTAACTC
57112980 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57113010 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57113040 A
1 A
57113041 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57117170 original size:17 final size:17
Alignment explanation
Indices: 57117148--57117187 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
57117138 CTTGCCTCGA
57117148 TACTAAAACGGCCATTT
1 TACTAAAACGGCCATTT
57117165 TACTAAAACGGCCATTT
1 TACTAAAACGGCCATTT
57117182 TACTAA
1 TACTAA
57117188 CTTTCCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (17 bp):
TACTAAAACGGCCATTT
Found at i:57121201 original size:9 final size:9
Alignment explanation
Indices: 57121189--57121254 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
57121179 TTTTATATAT
57121189 TTATGTAAG
1 TTATGTAAG
*
57121198 TTATGATATG
1 TTATG-TAAG
* * *
57121208 ATATAT-AT
1 TTATGTAAG
57121216 TTATGT-A-
1 TTATGTAAG
57121223 TTATGTAAG
1 TTATGTAAG
57121232 TTATGTAAG
1 TTATGTAAG
57121241 TTATGTAAG
1 TTATGTAAG
57121250 TTATG
1 TTATG
57121255 ATCCAAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
8 6 0.13
9 29 0.62
10 6 0.13
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:57121254 original size:34 final size:34
Alignment explanation
Indices: 57121189--57121254 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
57121179 TTTTATATAT
* *
57121189 TTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGATAAGATATATAGTTATGTA
* *
57121223 TTATGTAAGTTATG-TAAGTTATGTAAGTTATG
1 TTATGTAAGTTATGATAAGATATAT-AGTTATG
57121255 ATCCAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATAAGATATATAGTTATGTA
Found at i:57121330 original size:13 final size:13
Alignment explanation
Indices: 57121312--57121337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57121302 GATTATCATA
57121312 TTTAAATTTTAAC
1 TTTAAATTTTAAC
57121325 TTTAAATTTTAAC
1 TTTAAATTTTAAC
57121338 CCTTTAATTG
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAC
Found at i:57121678 original size:18 final size:18
Alignment explanation
Indices: 57121655--57121703 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
57121645 TCAATTGATC
*
57121655 TAATTTTATTTATATTTT
1 TAATTTTATTTAAATTTT
57121673 TAATTTTA--TAAATTTT
1 TAATTTTATTTAAATTTT
57121689 TAATATTTTATTTAA
1 T-A-ATTTTATTTAA
57121704 TCGAACCGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 8 0.31
17 1 0.04
18 14 0.54
20 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTATTTAAATTTT
Found at i:57129557 original size:30 final size:31
Alignment explanation
Indices: 57129502--57129563 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
57129492 AATGGATAAT
57129502 GTGATGAAAGACCCAAGGAGGGCATGTTAAA
1 GTGATGAAAGACCCAAGGAGGGCATGTTAAA
57129533 GTGATGAAAGACCCAAGG-GGGCATGTTAAA
1 GTGATGAAAGACCCAAGGAGGGCATGTTAAA
57129563 G
1 G
57129564 AAGGTATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.37, C:0.13, G:0.34, T:0.16
Consensus pattern (31 bp):
GTGATGAAAGACCCAAGGAGGGCATGTTAAA
Found at i:57148050 original size:40 final size:40
Alignment explanation
Indices: 57147995--57148158 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
57147985 TGAATGATAC
* * *
57147995 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
57148035 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGCGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGATTATAT
* * * ** *
57148075 CCGGGCTAAGACCTGAAGGCAATTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
57148115 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
57148155 CCGG
1 CCGG
57148159 TTAAATCCCG
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 2 0.02
40 94 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Done.