Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 146 of 213
Found at i:43783342 original size:20 final size:19
Alignment explanation
Indices: 43783317--43783355 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
43783307 ATAAACTTGC
43783317 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
43783337 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
43783356 GCATACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:43785070 original size:21 final size:21
Alignment explanation
Indices: 43785039--43785088 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
43785029 GCTACAACTT
*
43785039 AAAGTAGAGGC-AGCAGCGAGG
1 AAAGCAGAGGCGA-CAGCGAGG
* *
43785060 GAAGCAGAGGCGATAGCGAGG
1 AAAGCAGAGGCGACAGCGAGG
43785081 AAAGCAGA
1 AAAGCAGA
43785089 ACAGAGCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.42, T:0.04
Consensus pattern (21 bp):
AAAGCAGAGGCGACAGCGAGG
Found at i:43785464 original size:43 final size:43
Alignment explanation
Indices: 43785392--43785483 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
43785382 AATCCCAAAA
* * *
43785392 TTAGTGGCGTTTGTGAGGAAAGCATTGCTAAAGAACATGAACT
1 TTAGCGGCGTTTGTGAGAAAAGCACTGCTAAAGAACATGAACT
* * *
43785435 TTAGCGGCGTTTGTGATAAAAGCGCTGCTAAAGAACATGACCT
1 TTAGCGGCGTTTGTGAGAAAAGCACTGCTAAAGAACATGAACT
43785478 TTAGCG
1 TTAGCG
43785484 CCGCTAAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGAGAAAAGCACTGCTAAAGAACATGAACT
Found at i:43789474 original size:17 final size:17
Alignment explanation
Indices: 43789467--43789515 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
43789457 TCGTCTGGCG
43789467 GATAGTATCGCCTAGCA
1 GATAGTATCGCCTAGCA
**
43789484 GATAGTATTACCTAGCA
1 GATAGTATCGCCTAGCA
*
43789501 GACAGTATCGCCTAG
1 GATAGTATCGCCTAG
43789516 GGAATACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (17 bp):
GATAGTATCGCCTAGCA
Found at i:43790087 original size:19 final size:20
Alignment explanation
Indices: 43790060--43790097 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43790050 AAATCAATAC
43790060 ATCAATT-AATATGTTGTAA
1 ATCAATTAAATATGTTGTAA
* *
43790079 ATCATTTAAATATTTTGTA
1 ATCAATTAAATATGTTGTA
43790098 TAAAAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
ATCAATTAAATATGTTGTAA
Found at i:43793355 original size:89 final size:90
Alignment explanation
Indices: 43793169--43793365 Score: 238
Period size: 89 Copynumber: 2.2 Consensus size: 90
43793159 TCTTAACCCC
* * * *
43793169 AAACCCCAAACCCCTAACCCCTAAGCCTTATTTAATATATAAATTAAAAAACATTAATTAATCTA
1 AAACCCTAAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
* * *
43793234 AATCATAAACCCTAACCAGACCCCG
66 AACCATAAACCCTAACCAAACCCAG
* *
43793259 AATCCCT-AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTA
1 AAACCCTAAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
* * *
43793323 AACCCT-AA-CCTGACACCAAATCCAT
66 AACCATAAACCCT-A-ACCAAACCCAG
*
43793348 AAACCCTAAATCCCTAAC
1 AAACCCTAAACCCCTAAC
43793366 TCTTAACCTC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
87 3 0.03
88 3 0.03
89 70 0.78
90 14 0.16
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (90 bp):
AAACCCTAAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
AACCATAAACCCTAACCAAACCCAG
Found at i:43793943 original size:41 final size:41
Alignment explanation
Indices: 43793883--43794069 Score: 230
Period size: 41 Copynumber: 4.6 Consensus size: 41
43793873 TTTTGCGACA
* ** * *
43793883 CTTTTTCAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCAGCG
* * *
43793924 CTTTTCCAAAAACGCCGCTAAAGATTTGAGCATTACCAGCG
1 CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCAGCG
* * *
43793965 CTTTTTCAAAAACCCCGCTAAAGATATGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCAGCG
* *
43794006 CTTTTTCAAAAACGCCTCTAAAGATCTGAGCACTAGCAGCG
1 CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCAGCG
* * *
43794047 ATTTTTTAAAAACGCCACTAAAG
1 CTTTTTCAAAAACGCCGCTAAAG
43794070 CCCCGAAAGG
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 125 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCAGCG
Found at i:43801617 original size:28 final size:28
Alignment explanation
Indices: 43801566--43801644 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
43801556 AGCACTATTC
* * *
43801566 TTGATGGATACCGCTTACTTATCATACTT
1 TTGATGAATACC-TTTACTAATCATACTT
*
43801595 TTGGTGAATACCTTTACTAATCATACTT
1 TTGATGAATACCTTTACTAATCATACTT
*
43801623 TTGATGAATACCTTTGCTAATC
1 TTGATGAATACCTTTACTAATC
43801645 TTGATAAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 34 0.77
29 10 0.23
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.42
Consensus pattern (28 bp):
TTGATGAATACCTTTACTAATCATACTT
Found at i:43802138 original size:21 final size:21
Alignment explanation
Indices: 43802114--43802186 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
43802104 GGGCTAGCAG
*
43802114 AATGCTACAAAAGCCATATCA
1 AATGCCACAAAAGCCATATCA
* * *
43802135 AATGCCA-GAAAGGC-TAACA
1 AATGCCACAAAAGCCATATCA
*
43802154 TAATGCCACAAATGCCATATCA
1 -AATGCCACAAAAGCCATATCA
*
43802176 GATGCCACAAA
1 AATGCCACAAA
43802187 GGCTAACAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.10
20 12 0.30
21 20 0.50
22 4 0.10
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (21 bp):
AATGCCACAAAAGCCATATCA
Found at i:43802150 original size:41 final size:41
Alignment explanation
Indices: 43802098--43802202 Score: 147
Period size: 41 Copynumber: 2.6 Consensus size: 41
43802088 ACAGATTACA
* * *
43802098 CCACAAGGGCTAGCAGAATGCTACAAAAGCCATATCAAATG
1 CCACAAAGGCTAACAGAATGCCACAAAAGCCATATCAAATG
* * * *
43802139 CCAGAAAGGCTAACATAATGCCACAAATGCCATATCAGATG
1 CCACAAAGGCTAACAGAATGCCACAAAAGCCATATCAAATG
43802180 CCACAAAGGCTAACAGAATGCCA
1 CCACAAAGGCTAACAGAATGCCA
43802203 GAAGGGCTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.14
Consensus pattern (41 bp):
CCACAAAGGCTAACAGAATGCCACAAAAGCCATATCAAATG
Found at i:43802210 original size:20 final size:20
Alignment explanation
Indices: 43802135--43802211 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
43802125 AGCCATATCA
*
43802135 AATGCCAGAAAGGCTAACAT
1 AATGCCAGAAAGGCTAACAG
* * *
43802155 AATGCCACAAATGCCATATCAG
1 AATGCCAGAAA-GGC-TAACAG
*
43802177 -ATGCCACAAAGGCTAACAG
1 AATGCCAGAAAGGCTAACAG
*
43802196 AATGCCAGAAGGGCTA
1 AATGCCAGAAAGGCTA
43802212 TATTCGAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.11
20 25 0.54
21 12 0.26
22 4 0.09
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (20 bp):
AATGCCAGAAAGGCTAACAG
Found at i:43803671 original size:570 final size:571
Alignment explanation
Indices: 43802493--43804211 Score: 3242
Period size: 570 Copynumber: 3.0 Consensus size: 571
43802483 GAAGCTTTAA
43802493 GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACGAATATAGGCCATT
1 GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGT-G--G-----A--CCATT
*
43802558 TGCAAGGCCAATTCACCACCCATAAGGGTCAACCCTACACAAGCACAAAATATACCATTTTTATA
56 TGCAAGGCCAATTCACCACCCATAAGGGTCAACCCTACATAAGCACAAAATATACCATTTTTATA
*
43802623 CACAATAGGTAGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTC
121 CACAATAGGCAGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTC
43802688 ATCTATTCATACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAG
186 ATCTATTCATACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAG
*
43802753 CCAAACAATCATCATTTAAACCAATTTAACAAGGCATGTAAATCAATATCTTTTAGACCTAAAAT
251 CCAAACAATCATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAAT
43802818 ACTCCATTCCTTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCA
316 ACTCCATTCCTTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCA
43802883 TAAATACCATTATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTT
381 TAAATACCATTATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTT
43802948 TACTGAAGCTTACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTC
446 TACTGAAGCTTACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTC
43803013 ACATTATAAACAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAATTGT
511 ACATTATAAACAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAATTGT
*
43803074 GAATTTTCTAAGTAATAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACCATTTGCAAGGCCA
1 GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACCATTTGCAAGGCCA
*
43803139 ATTCACCACCCATAAGGGTCAACCCTATATAAGCACAAAATATACCATTTTTATACACAATAGGC
66 ATTCACCACCCATAAGGGTCAACCCTACATAAGCACAAAATATACCATTTTTATACACAATAGGC
43803204 AGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTCATCTATTCAT
131 AGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTCATCTATTCAT
* *
43803269 ACACAAACTTTTGCCTAACCACAAAAATACAAAATAGATATGATTTATTATTTAGCCAAACAATC
196 ACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAGCCAAACAATC
43803334 ATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAATACTCCATTCC
261 ATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAATACTCCATTCC
*
43803399 -TTTTCATCATCTTAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCATAAATACCAT
326 TTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCATAAATACCAT
43803463 TATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTTTACTGAAGCT
391 TATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTTTACTGAAGCT
*
43803528 TACCAAATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTCACATTATAAA
456 TACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTCACATTATAAA
43803593 CAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAATTGT
521 CAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAATTGT
43803644 GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACCATTTGCAAGGCCA
1 GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACCATTTGCAAGGCCA
43803709 ATTCACCACCCATAAGGGTCAACCCTACATAAGCACAAAATATACCATTTTTATACACAATAGGC
66 ATTCACCACCCATAAGGGTCAACCCTACATAAGCACAAAATATACCATTTTTATACACAATAGGC
43803774 AGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTCATCTATTCAT
131 AGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTCATCTATTCAT
43803839 ACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAGCCAAACAATC
196 ACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAGCCAAACAATC
43803904 ATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAATACTCCATTCC
261 ATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAATACTCCATTCC
*
43803969 TTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAAATGCATAAATACCAT
326 TTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCATAAATACCAT
43804034 TATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTTTACTGAAGCT
391 TATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTTTACTGAAGCT
43804099 TACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTCACATTATAAA
456 TACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTCACATTATAAA
*
43804164 CAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCACCAAT
521 CAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAAT
43804212 AGCCAAAATC
Statistics
Matches: 1120, Mismatches: 17, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
570 564 0.50
571 507 0.45
573 1 0.00
578 1 0.00
580 1 0.00
581 46 0.04
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (571 bp):
GAATTTTCTAAGTAACAGATGTCACACGCCCGTGTGAACAGCCGTGTGGACCATTTGCAAGGCCA
ATTCACCACCCATAAGGGTCAACCCTACATAAGCACAAAATATACCATTTTTATACACAATAGGC
AGCTTAAACATTGTGAATTCATGCATCAAACATGCCATACCAATTCAACCATTTCATCTATTCAT
ACACAAACTTTTGCCTAACCACAAAAATACAATATCGATATGATTTATTATTTAGCCAAACAATC
ATCATTTAAACCAATTTAACAAGGCATGTAAATCAATGTCTTTTAGACCTAAAATACTCCATTCC
TTTTTCATCATCTCAATTGCAACCTAACCTCTCAATACCAATATAAACAACTGCATAAATACCAT
TATTCATCAATTGTGAATATCAATTTGGACACTTCCATTAATGCATCAATAACTTTACTGAAGCT
TACCACATAAGCACAATCACATACCAATTATAAGGCCATCTACATATCAAACCTCACATTATAAA
CAAGTCAAATCTCATGGCTCAATACATTTCAAACATATAGGCATCAATTGT
Found at i:43804970 original size:43 final size:43
Alignment explanation
Indices: 43804923--43805082 Score: 225
Period size: 43 Copynumber: 3.7 Consensus size: 43
43804913 TGTAATCTTG
* *
43804923 TATCGATGCCAATAG-CCCAGCCATGATCTTACACGAAATCACA
1 TATCGATGCCAAT-GTCCCAGACATGGTCTTACACGAAATCACA
*
43804966 TATCGATGCCAATGTCCCAGACATGGTCTTACATGAAATCACA
1 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
* * *
43805009 TATCGATGCCAATGTCCCAGACATGGTTTTACACGAAGTCTCA
1 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
* *
43805052 TATCGATGCC-ATATCCCAGATATGGTCTTAC
1 TATCGATGCCAATGTCCCAGACATGGTCTTAC
43805083 TGGAAACACA
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 19 0.18
43 87 0.82
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
TATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
Found at i:43805041 original size:86 final size:85
Alignment explanation
Indices: 43804889--43805082 Score: 255
Period size: 86 Copynumber: 2.3 Consensus size: 85
43804879 CGTAACAATA
* * *** *
43804889 CCATATCCCAGATATGGTCTTTCATGTAATCTTGTATCGATGCCAATAGCCCAGCCATGATCTTA
1 CCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAGCCCAGACATGATCTTA
43804954 CACGAAATCACATATCGATG
66 CACGAAATCACATATCGATG
* * * *
43804974 CCAATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAAT-GTCCCAGACATGGTTT
1 CC-ATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAG-CCCAGACATGATCT
* *
43805038 TACACGAAGTCTCATATCGATG
64 TACACGAAATCACATATCGATG
43805060 CCATATCCCAGATATGGTCTTAC
1 CCATATCCCAGATATGGTCTTAC
43805083 TGGAAACACA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
85 22 0.24
86 71 0.76
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
CCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAGCCCAGACATGATCTTA
CACGAAATCACATATCGATG
Found at i:43812177 original size:27 final size:27
Alignment explanation
Indices: 43812130--43812183 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
43812120 TTTTTCGTGT
* *
43812130 ATTATTTTTAATTATTTTATA-CATTA
1 ATTATTTTAAATTATTATATATCATTA
43812156 ATTATTTTAAAATTATTATATATCATTA
1 ATTATTTT-AAATTATTATATATCATTA
43812184 TCTTTATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 11 0.46
28 5 0.21
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTTTAAATTATTATATATCATTA
Found at i:43815751 original size:27 final size:27
Alignment explanation
Indices: 43815708--43815909 Score: 253
Period size: 27 Copynumber: 7.5 Consensus size: 27
43815698 ATCCAAAATA
** *
43815708 GGTAAAATGACCAAAATACCCTTATAA
1 GGTAAAATGACTGAAATACCCTTATAG
* *
43815735 CGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCTTATAG
*
43815762 GGTAAAATGACTGAAATACCCTTATAA
1 GGTAAAATGACTGAAATACCCTTATAG
**
43815789 GGTAAAATGAAC-GAAATACCCCCATAG
1 GGTAAAATG-ACTGAAATACCCTTATAG
* *
43815816 GGTAAAATGACTGAAATAACCTCATAG
1 GGTAAAATGACTGAAATACCCTTATAG
* * **
43815843 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCTTATAG
43815870 GGTAAAATGACTGAAATACCCTTATAG
1 GGTAAAATGACTGAAATACCCTTATAG
*
43815897 AGTAAAATGACTG
1 GGTAAAATGACTG
43815910 TTATACCCCT
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 147 0.97
28 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTTATAG
Found at i:43815772 original size:54 final size:54
Alignment explanation
Indices: 43815708--43815918 Score: 291
Period size: 54 Copynumber: 3.9 Consensus size: 54
43815698 ATCCAAAATA
** * *
43815708 GGTAAAATGACCAAAATACCCTTATAACGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCTTATAAGGTAAAATGACTGAAATACCCCCATAG
43815762 GGTAAAATGACTGAAATACCCTTATAAGGTAAAATGAAC-GAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCTTATAAGGTAAAATG-ACTGAAATACCCCCATAG
* * * * *
43815816 GGTAAAATGACTGAAATAACCTCATAGGGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCTTATAAGGTAAAATGACTGAAATACCCCCATAG
**
43815870 GGTAAAATGACTGAAATACCCTTAT-AGAGTAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCTTATAAG-GTAAAATGACTGAAATACCCC
43815919 TAGGAGATGA
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.02
54 134 0.96
55 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (54 bp):
GGTAAAATGACTGAAATACCCTTATAAGGTAAAATGACTGAAATACCCCCATAG
Found at i:43818345 original size:25 final size:25
Alignment explanation
Indices: 43818310--43818370 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
43818300 CTCCTAAATT
* *
43818310 TTAATTTAATTATCTACT-TTTTATA
1 TTAATTAAATTAT-TAATATTTTATA
*
43818335 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
43818360 TTAATTAAATT
1 TTAATTAAATT
43818371 TTTAGAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:43832394 original size:25 final size:24
Alignment explanation
Indices: 43832338--43832435 Score: 99
Period size: 25 Copynumber: 4.0 Consensus size: 24
43832328 TACGAGCCAT
* *
43832338 AATCGGTAAGCTCTTTCGAGCTGA
1 AATCGGTAAGCTCATACGAGCTGA
*
43832362 ACAACGGTAAGCTCATACGAGCTGA
1 A-ATCGGTAAGCTCATACGAGCTGA
* *
43832387 GAATCGGTAAACTC-TCACGAGTTGTA
1 -AATCGGTAAGCTCAT-ACGAGCTG-A
*
43832413 AATTGGTAAGCTCATACGAGCTG
1 AATCGGTAAGCTCATACGAGCTG
43832436 TGGTGGGTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
24 2 0.03
25 55 0.92
26 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:43835204 original size:11 final size:13
Alignment explanation
Indices: 43835184--43835215 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
43835174 AATAAAATAA
43835184 TAAAATATC-ATT
1 TAAAATATCAATT
43835196 TAAAA-ATCAATT
1 TAAAATATCAATT
43835208 TAAAATAT
1 TAAAATAT
43835216 TAATAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCAATT
Found at i:43845444 original size:31 final size:31
Alignment explanation
Indices: 43845409--43845470 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
43845399 CGATTTGGTT
43845409 ACTGAACTATTC-AAAAATTTCCATTTAAGTC
1 ACTGAACTATTCAAAAAATTT-CATTTAAGTC
*
43845440 ACTGAACTATTCAAAAAATTTTATTTAAGTC
1 ACTGAACTATTCAAAAAATTTCATTTAAGTC
43845471 CCTGGTCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (31 bp):
ACTGAACTATTCAAAAAATTTCATTTAAGTC
Found at i:43849916 original size:25 final size:25
Alignment explanation
Indices: 43849882--43849931 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43849872 CTATTGGATC
43849882 ACCTATACTTGAGTTAAACATCGAG
1 ACCTATACTTGAGTTAAACATCGAG
43849907 ACCTATACTTGAGTTAAACATCGAG
1 ACCTATACTTGAGTTAAACATCGAG
43849932 TTTGTCGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ACCTATACTTGAGTTAAACATCGAG
Found at i:43854272 original size:18 final size:18
Alignment explanation
Indices: 43854249--43854283 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43854239 TGATGAAATA
43854249 TGGATATGTATG-TATGTC
1 TGGATA-GTATGTTATGTC
43854267 TGGATAGTATGTTATGT
1 TGGATAGTATGTTATGT
43854284 GATGTGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (18 bp):
TGGATAGTATGTTATGTC
Found at i:43854631 original size:27 final size:27
Alignment explanation
Indices: 43854591--43854746 Score: 125
Period size: 27 Copynumber: 5.8 Consensus size: 27
43854581 AACACATCGG
* * * *
43854591 AAAAGGATAACCTTTGTGACGAAGTCT
1 AAAAGAATAACCTTTGTGGCGTATTCT
* *
43854618 AAAAGAATAGCCTTTGTGGTGTATTAC-
1 AAAAGAATAACCTTTGTGGCGTATT-CT
* * *** *
43854645 AAAATAATAGCCTTTGTGGTAAAGTCT
1 AAAAGAATAACCTTTGTGGCGTATTCT
* * * *
43854672 AAAAGAATAAACTTTATGCCGTATTAT
1 AAAAGAATAACCTTTGTGGCGTATTCT
*
43854699 GAAAGAATAACCTTTGTGGCGTATTCT
1 AAAAGAATAACCTTTGTGGCGTATTCT
**
43854726 AAAAGAATAGGCTTTGTGGCG
1 AAAAGAATAACCTTTGTGGCG
43854747 CACTTTGAAT
Statistics
Matches: 99, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (27 bp):
AAAAGAATAACCTTTGTGGCGTATTCT
Found at i:43854727 original size:54 final size:54
Alignment explanation
Indices: 43854591--43854734 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 54
43854581 AACACATCGG
* * ** * **
43854591 AAAAGGATAACCTTTGTGACGAAGTCTAAAAGAATAGCCTTTGTGGTGTATTAC
1 AAAAGAATAACCTTTGTGGCGAAGTCTAAAAGAATAAACTTTATGCCGTATTAC
* * ** *
43854645 AAAATAATAGCCTTTGTGGTAAAGTCTAAAAGAATAAACTTTATGCCGTATTAT
1 AAAAGAATAACCTTTGTGGCGAAGTCTAAAAGAATAAACTTTATGCCGTATTAC
* * *
43854699 GAAAGAATAACCTTTGTGGCGTATTCTAAAAGAATA
1 AAAAGAATAACCTTTGTGGCGAAGTCTAAAAGAATA
43854735 GGCTTTGTGG
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (54 bp):
AAAAGAATAACCTTTGTGGCGAAGTCTAAAAGAATAAACTTTATGCCGTATTAC
Found at i:43855935 original size:43 final size:43
Alignment explanation
Indices: 43855875--43855959 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
43855865 TTTATCCTAT
* * * *
43855875 AAAAATAATTTAAAAAGAGGAGAATATAATA-TTGGGTTGTTGA
1 AAAAAGAATTTAAAAAGAGAAGAAGATAA-ACATGGGTTGTTGA
43855918 AAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTTGTTG
1 AAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTTGTTG
43855960 GATTTACCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.51, C:0.01, G:0.22, T:0.26
Consensus pattern (43 bp):
AAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTTGTTGA
Found at i:43856892 original size:17 final size:17
Alignment explanation
Indices: 43856848--43856886 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
43856838 GCCATAACAT
43856848 TTCCAAGTATTCATTAA
1 TTCCAAGTATTCATTAA
*
43856865 TTTCAAGTATTCATTAA
1 TTCCAAGTATTCATTAA
43856882 TTCCA
1 TTCCA
43856887 CATATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (17 bp):
TTCCAAGTATTCATTAA
Found at i:43857984 original size:36 final size:36
Alignment explanation
Indices: 43857930--43858031 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
43857920 TATGATTATC
*
43857930 GATATTCTGATTTGCATGTTAAGCATGCCATATTCT
1 GATATTCTGATTTACATGTTAAGCATGCCATATTCT
* *
43857966 GATATTCTAATTTACATGTTAAGCATGTCATATTCT
1 GATATTCTGATTTACATGTTAAGCATGCCATATTCT
* * * *
43858002 AATATTCTGATTTTCGTGTAAAGCATGCCA
1 GATATTCTGATTTACATGTTAAGCATGCCA
43858032 CTAAAAATCC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (36 bp):
GATATTCTGATTTACATGTTAAGCATGCCATATTCT
Found at i:43892863 original size:27 final size:27
Alignment explanation
Indices: 43892833--43892887 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
43892823 AATATAATAT
*
43892833 AATTAT-AAAATAATGAAATTTTACTTA
1 AATTATGAAAATAATG-AATTTTAATTA
* *
43892860 AATTATGAACATATTGAATTTTAATTA
1 AATTATGAAAATAATGAATTTTAATTA
43892887 A
1 A
43892888 TTTTATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (27 bp):
AATTATGAAAATAATGAATTTTAATTA
Found at i:43892895 original size:22 final size:22
Alignment explanation
Indices: 43892870--43892913 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43892860 AATTATGAAC
* *
43892870 ATATTGAATTTTAATTAATTTT
1 ATATTAAATTTTAATAAATTTT
*
43892892 ATATTAAATTTTCATAAATTTT
1 ATATTAAATTTTAATAAATTTT
43892914 GATTTACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAAATTTTAATAAATTTT
Found at i:43893191 original size:23 final size:23
Alignment explanation
Indices: 43893165--43893210 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43893155 AGGTTGATCC
*
43893165 AACTGAGCACACATGCT-ACCCAA
1 AACTGACCA-ACATGCTGACCCAA
*
43893188 AACTGTCCAACATGCTGACCCAA
1 AACTGACCAACATGCTGACCCAA
43893211 TCAGCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (23 bp):
AACTGACCAACATGCTGACCCAA
Found at i:43894415 original size:28 final size:28
Alignment explanation
Indices: 43894378--43894433 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
43894368 TTATTTTACT
43894378 TAGTTAAATTTTAGTTTTTAATCACTTC
1 TAGTTAAATTTTAGTTTTTAATCACTTC
43894406 TAGTTAAATTTTAGTTTTTAATCACTTC
1 TAGTTAAATTTTAGTTTTTAATCACTTC
43894434 ATCAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (28 bp):
TAGTTAAATTTTAGTTTTTAATCACTTC
Found at i:43905702 original size:41 final size:42
Alignment explanation
Indices: 43905609--43905712 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
43905599 TAACACAGAT
* ***
43905609 GCTAACAGAATGCCACAAAGGCCATATCAAAATACCATGGAG
1 GCTAACAGAATGCCACAAAGGCCATACCAAAATACCACAAAG
* *
43905651 GCTAATAGAATGCCACAAA-GCCATACCAAAGTACCACAAAG
1 GCTAACAGAATGCCACAAAGGCCATACCAAAATACCACAAAG
* *
43905692 GTTAACAGAATG-CAAAAAGGC
1 GCTAACAGAATGCCACAAAGGC
43905713 TATGTAAAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.10
41 29 0.56
42 18 0.35
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.13
Consensus pattern (42 bp):
GCTAACAGAATGCCACAAAGGCCATACCAAAATACCACAAAG
Found at i:43914823 original size:46 final size:44
Alignment explanation
Indices: 43914723--43914941 Score: 151
Period size: 46 Copynumber: 4.9 Consensus size: 44
43914713 CAAGGGCTAG
* * * * * *
43914723 TGTAAGACATGTTTGGGACATGCATCAGCCA-TAGTATGAGATCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAG-ATGTG--CCAA
43914769 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTTAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-T-GCCAA
* * * * * *
43914815 TGTCAGACATGTCTGGGACATGCGTTGGCTACGGGATGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCCAA
* * * * *
43914859 TGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTAC-G--AGATGTGCCAA
*
43914905 TGTAAGACCTGTCTGGGACATGGCATCGGC-AC-AGATG
1 TGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATG
43914942 GATGAGAGCT
Statistics
Matches: 141, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
43 6 0.04
44 30 0.21
45 3 0.02
46 90 0.64
47 11 0.08
48 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCCAA
Found at i:43924349 original size:24 final size:24
Alignment explanation
Indices: 43924310--43924355 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43924300 AAGCTCTATG
* *
43924310 TTAGTGGTTACTTCTACTTTTACA
1 TTAGTGGCTACATCTACTTTTACA
43924334 TTAGTGGCTACATCTACTTTTA
1 TTAGTGGCTACATCTACTTTTA
43924356 TGTCTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (24 bp):
TTAGTGGCTACATCTACTTTTACA
Found at i:43937125 original size:24 final size:24
Alignment explanation
Indices: 43937098--43937145 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43937088 TAACACTACA
43937098 CAGCCTAATTCGCATTCAATTGCT
1 CAGCCTAATTCGCATTCAATTGCT
43937122 CAGCCTAATTCGCATTCAATTGCT
1 CAGCCTAATTCGCATTCAATTGCT
43937146 AAATTATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
CAGCCTAATTCGCATTCAATTGCT
Found at i:43937681 original size:35 final size:31
Alignment explanation
Indices: 43937642--43937722 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 31
43937632 TTCTACCAAC
43937642 TTTATTTTATTACTTAAGTTATGTTTTATTTTATT
1 TTTATTTTATTAC-T-A--TATGTTTTATTTTATT
* *
43937677 TTTATTTTATAACTATATGTTTTGTTTTATT
1 TTTATTTTATTACTATATGTTTTATTTTATT
43937708 TATTCATTTTATTAC
1 T-TT-ATTTTATTAC
43937723 ATTTTCTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 16 0.39
32 2 0.05
33 10 0.24
34 1 0.02
35 12 0.29
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (31 bp):
TTTATTTTATTACTATATGTTTTATTTTATT
Found at i:43939053 original size:50 final size:50
Alignment explanation
Indices: 43938998--43939137 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
43938988 TATTGAGATT
* * * *
43938998 ATGAGAGGTCCCACGTAAGACTATGTCTGGGACATGGCGTTTGCACCGAG
1 ATGAGAGATCCCACGTAAGACTATATCTGGGACATGGCATGTGCACCGAG
* * * *
43939048 ATGAGAGATCCCCCGTAAGACCATCTCTGGGACATGGCATGTGCACCGAT
1 ATGAGAGATCCCACGTAAGACTATATCTGGGACATGGCATGTGCACCGAG
* *
43939098 ATGAGA-ACTCCCATGTAAGACTATATCTGGGATATGGCAT
1 ATGAGAGA-TCCCACGTAAGACTATATCTGGGACATGGCAT
43939138 TGGTAGTACA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 76 0.99
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
ATGAGAGATCCCACGTAAGACTATATCTGGGACATGGCATGTGCACCGAG
Found at i:43948288 original size:44 final size:46
Alignment explanation
Indices: 43948188--43948289 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 46
43948178 GAATGAATAG
* *
43948188 AAAAATGGAAATGGAAAACATTTAGAAATGATTATGGTTTTCCCGA
1 AAAAATGGAAATGGAAAACATTTAGAAATGAATATGGGTTTCCCGA
* * * *
43948234 AATAAA--GAAATGG-AATCATTTGGAAATGAATGTGGGTTTCTC-A
1 AA-AAATGGAAATGGAAAACATTTAGAAATGAATATGGGTTTCCCGA
43948277 AAAAATGGAAATG
1 AAAAATGGAAATG
43948290 ATAATGGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.06
43 3 0.06
44 29 0.62
45 7 0.15
46 2 0.04
47 3 0.06
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAATGGAAATGGAAAACATTTAGAAATGAATATGGGTTTCCCGA
Found at i:43948297 original size:12 final size:12
Alignment explanation
Indices: 43948280--43948314 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
43948270 TTTCTCAAAA
43948280 AATGGAAATGAT
1 AATGGAAATGAT
43948292 AATGGAAATGAT
1 AATGGAAATGAT
43948304 AATGGAAATGA
1 AATGGAAATGA
43948315 AAATAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (12 bp):
AATGGAAATGAT
Found at i:43949540 original size:27 final size:29
Alignment explanation
Indices: 43949492--43949547 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
43949482 AGGTTCGCTA
43949492 ATGTATTGACGAGCTAGGGCTTCACTAGT
1 ATGTATTGACGAGCTAGGGCTTCACTAGT
*
43949521 ATGT-TTGGCGAGCT-GGGCTTCACTAGT
1 ATGTATTGACGAGCTAGGGCTTCACTAGT
43949548 CTGTGTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.50
28 9 0.35
29 4 0.15
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (29 bp):
ATGTATTGACGAGCTAGGGCTTCACTAGT
Found at i:43949564 original size:27 final size:27
Alignment explanation
Indices: 43949501--43949564 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
43949491 AATGTATTGA
*
43949501 CGAGCTAGGGCTTCACTAGTATGTTTGG
1 CGAGCT-GGGCTTCACTAGTATGTGTGG
*
43949529 CGAGCTGGGCTTCACTAGTCTGTGTGG
1 CGAGCTGGGCTTCACTAGTATGTGTGG
* *
43949556 TGAGTTGGG
1 CGAGCTGGG
43949565 TTGGCCAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.14, C:0.17, G:0.38, T:0.31
Consensus pattern (27 bp):
CGAGCTGGGCTTCACTAGTATGTGTGG
Found at i:43950599 original size:14 final size:14
Alignment explanation
Indices: 43950580--43950606 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43950570 ATGCAAGTTC
43950580 TTTTTAAAAGAAAT
1 TTTTTAAAAGAAAT
43950594 TTTTTAAAAGAAA
1 TTTTTAAAAGAAA
43950607 GGATTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTTTAAAAGAAAT
Found at i:43952150 original size:45 final size:45
Alignment explanation
Indices: 43952101--43952271 Score: 236
Period size: 45 Copynumber: 3.8 Consensus size: 45
43952091 TACTAGAAAT
*
43952101 GAGTAAGACTATGACTGAAAGACGTTATGGCATCACTATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATC
*
43952146 GAGTAAGACCATGACTGAAAAACGTTATGGCATCACTATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATC
* * * *
43952191 GAATAAGACCATGACTGAAAGACGTTATGACATCACGATTCTATT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATC
* * * *
43952236 GAGTAAGTCCAT-AGTTGAAAGATGCTATGGCATCAC
1 GAGTAAGACCATGA-CTGAAAGACGTTATGGCATCAC
43952272 GAATCAAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 111 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATC
Found at i:43952303 original size:90 final size:90
Alignment explanation
Indices: 43952105--43952293 Score: 227
Period size: 90 Copynumber: 2.1 Consensus size: 90
43952095 AGAAATGAGT
* * *
43952105 AAGACTATGACTGAAAGACGTTATGGCATCACTATTCTATCGAGTAAGACCATGACTGAAAAACG
1 AAGACCATGACTGAAAGACGTTATGACATCACGATTCTATCGAGTAAGACCATGACTGAAAAACG
* * * * * *
43952170 TTATGGCATCACTATTCTATCGAAT
66 CTATGGCATCACGAATCAAACGAAC
* * * * *
43952195 AAGACCATGACTGAAAGACGTTATGACATCACGATTCTATTGAGTAAGTCCAT-AGTTGAAAGAT
1 AAGACCATGACTGAAAGACGTTATGACATCACGATTCTATCGAGTAAGACCATGA-CTGAAAAAC
*
43952259 GCTATGGCATCACGAATCAAAGGAAC
65 GCTATGGCATCACGAATCAAACGAAC
43952285 AAGACCATG
1 AAGACCATG
43952294 GTTTAAAGAC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 82 0.99
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (90 bp):
AAGACCATGACTGAAAGACGTTATGACATCACGATTCTATCGAGTAAGACCATGACTGAAAAACG
CTATGGCATCACGAATCAAACGAAC
Found at i:43952350 original size:48 final size:46
Alignment explanation
Indices: 43952285--43952405 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 46
43952275 TCAAAGGAAC
* *
43952285 AAGACCATGGTTTAAAGACACTATGGCAACGCAATGGA-AAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGCAA-GCAA--GATAAAAATAAAT
* * * *
43952333 AAGACCATGGTTGAAAGACACTGTGGC-ATCAAGATGAGAATAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAAGCAAGATAAAAATAAAT
*
43952378 AAGACCATGGTTGAAAGACACCATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
43952406 CACTCCGATC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.03
45 32 0.51
46 3 0.05
47 1 0.02
48 25 0.40
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGACACTATGGCAAGCAAGATAAAAATAAAT
Found at i:43952711 original size:50 final size:50
Alignment explanation
Indices: 43952652--43952749 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
43952642 ACGGGCATGA
* *
43952652 AAAGGAAAGGTATGTGTTCGAATGAACTATGTCATGAAGTTATAAAAAAG
1 AAAGGAAAGGTATGTATTCGAATGAACTATGTCATGAAATTATAAAAAAG
* *
43952702 AAAGTAAAGGTATGTATTCGAATGAACTATGTCATGAAATTATGAAAA
1 AAAGGAAAGGTATGTATTCGAATGAACTATGTCATGAAATTATAAAAA
43952750 GGATTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (50 bp):
AAAGGAAAGGTATGTATTCGAATGAACTATGTCATGAAATTATAAAAAAG
Found at i:43953509 original size:43 final size:43
Alignment explanation
Indices: 43953447--43953537 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
43953437 ACATGTGCAA
* *
43953447 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATGCATTTACTTAATCAAGGAAATCTT
* *
43953490 GGTAATAAAAGATATAATGCATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATGCATTTACTTAATCAAGGAAATCTT
43953533 -GTAAT
1 GGTAAT
43953538 GAACTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATGCATTTACTTAATCAAGGAAATCTT
Found at i:43959941 original size:7 final size:7
Alignment explanation
Indices: 43959929--43959990 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
43959919 CCCTAGAATC
43959929 CCTAAAT
1 CCTAAAT
43959936 CCTAAAT
1 CCTAAAT
43959943 CCTAAAT
1 CCTAAAT
43959950 CCTTAAAT
1 CC-TAAAT
* **
43959958 CTTAACC
1 CCTAAAT
**
43959965 CCTAACC
1 CCTAAAT
43959972 CCTAAA-
1 CCTAAAT
43959978 CCTTAAAT
1 CC-TAAAT
43959986 CCTAA
1 CCTAA
43959991 CCCCCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
6 2 0.04
7 37 0.79
8 8 0.17
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (7 bp):
CCTAAAT
Found at i:43959950 original size:22 final size:22
Alignment explanation
Indices: 43959920--43959990 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
43959910 CTGATCTGAC
43959920 CCTAGAATCCCTAAATCCTAAAT
1 CCTA-AATCCCTAAATCCTAAAT
* * **
43959943 CCTAAATCCTTAAATCTTAACC
1 CCTAAATCCCTAAATCCTAAAT
*
43959965 CCT-AACCCCTAAA-CCTTAAAT
1 CCTAAATCCCTAAATCC-TAAAT
43959986 CCTAA
1 CCTAA
43959991 CCCCCAAATC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 18 0.49
23 4 0.11
ACGTcount: A:0.38, C:0.34, G:0.01, T:0.27
Consensus pattern (22 bp):
CCTAAATCCCTAAATCCTAAAT
Found at i:43961795 original size:41 final size:41
Alignment explanation
Indices: 43961745--43962039 Score: 244
Period size: 41 Copynumber: 7.2 Consensus size: 41
43961735 ATATTTTTTT
* * *
43961745 GCGGCGCTTTCATAAAAAAGACGCTAAAAACCCGAGCATTA
1 GCGGCGCTTTCATAAAAACGCCGCTAAAACCCCGAGCATTA
* * * * * *
43961786 CCGGTGCTTT-TTAAAAAATGCCGCTAAAGCCCCGAGCATTG
1 GCGGCGCTTTCAT-AAAAACGCCGCTAAAACCCCGAGCATTA
* * *
43961827 GTGGCGCTTTTC-TAAAAACGCCACTAAAACCCTGAGCATTA
1 GCGGCGC-TTTCATAAAAACGCCGCTAAAACCCCGAGCATTA
* *
43961868 GCGGCGCTTTTC-TAAAAATGCCGGTAAAACCCCGAGCATTA
1 GCGGCGC-TTTCATAAAAACGCCGCTAAAACCCCGAGCATTA
* * *
43961909 GCGGTGCTTAATCAT--AAACGCCCCTAAAACCCCAAGCATTA
1 GCGGCGCTT--TCATAAAAACGCCGCTAAAACCCCGAGCATTA
* * *
43961950 GCGGCGCTTT-ATCAAAAACGCCACTAAAATCCCAAGCATTA
1 GCGGCGCTTTCAT-AAAAACGCCGCTAAAACCCCGAGCATTA
* ** * *
43961991 GCGGTGCTTTTTTAAAAATGCTGCTAAAACCCAC-AGCATTA
1 GCGGCGCTTTCATAAAAACGCCGCTAAAACCC-CGAGCATTA
*
43962032 GTGGCGCT
1 GCGGCGCT
43962040 ACTCCAAAAA
Statistics
Matches: 206, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.01
39 1 0.00
40 3 0.01
41 191 0.93
42 8 0.04
43 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTCATAAAAACGCCGCTAAAACCCCGAGCATTA
Found at i:43961885 original size:82 final size:81
Alignment explanation
Indices: 43961771--43962039 Score: 274
Period size: 82 Copynumber: 3.3 Consensus size: 81
43961761 AAAGACGCTA
* * * * * *
43961771 AAAACCCGAGCATTACCGGTGCTTTT-TAAAAAATGCCGCTAAAGCCCCGAGCATTGGTGGCGCT
1 AAAACCCGAGCATTAGCGGCGCTTTTCT-AAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCT
43961835 TTTCTAAAAACGCCACT
65 TTTCTAAAAACGCCACT
*
43961852 AAAACCCTGAGCATTAGCGGCGCTTTTCTAAAAATGCCGGTAAAACCCCGAGCATTAGCGGTGCT
1 AAAACCC-GAGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCT
* * *
43961917 TAATC-ATAAACGCCCCT
65 T-TTCTAAAAACGCCACT
* * * * *
43961934 AAAACCCCAAGCATTAGCGGCGCTTTATC-AAAAACGCCACTAAAATCCCAAGCATTAGCGGTGC
1 AAAA-CCCGAGCATTAGCGGCGCTTT-TCTAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGC
* * **
43961998 TTTTTTAAAAATGCTGCT
64 TTTTCTAAAAACGCCACT
* *
43962016 AAAACCCACAGCATTAGTGGCGCT
1 AAAACCC-GAGCATTAGCGGCGCT
43962040 ACTCCAAAAA
Statistics
Matches: 157, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
81 11 0.07
82 138 0.88
83 8 0.05
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (81 bp):
AAAACCCGAGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCTT
TTCTAAAAACGCCACT
Found at i:43961967 original size:123 final size:123
Alignment explanation
Indices: 43961745--43962032 Score: 341
Period size: 123 Copynumber: 2.3 Consensus size: 123
43961735 ATATTTTTTT
* * * * ** * *
43961745 GCGGCGC-TTTCATAAAAAAGACGCTAAAAACCCGAGCATTACCGGTGCTTTTTAAAAAATGCCG
1 GCGGCGCTTTTC-TAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCTTAATAAAAAACGCCC
* * * * *
43961809 CTAAAGCCCCGAGCATTGGTGGCGCTTTTCTAAAAACGCCACTAAAA-CCCTGAGCATTA
65 CTAAAACCCCAAGCATTAGCGGCGCTTTTCTAAAAACGCCACTAAAATCCC-AAGCATTA
* * *
43961868 GCGGCGCTTTTCTAAAAATGCCGGTAAAACCCCGAGCATTAGCGGTGCTTAATCATAAACGCCCC
1 GCGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCTTAATAAAAAACGCCCC
43961933 TAAAACCCCAAGCATTAGCGGCGCTTTATC-AAAAACGCCACTAAAATCCCAAGCATTA
66 TAAAACCCCAAGCATTAGCGGCGCTTT-TCTAAAAACGCCACTAAAATCCCAAGCATTA
* * *
43961991 GCGGTGCTTTTTTAAAAATGCTGCTAAAACCCAC-AGCATTAG
1 GCGGCGCTTTTCTAAAAATGCCGCTAAAACCC-CGAGCATTAG
43962033 TGGCGCTACT
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
123 131 0.93
124 10 0.07
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (123 bp):
GCGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGAGCATTAGCGGTGCTTAATAAAAAACGCCCC
TAAAACCCCAAGCATTAGCGGCGCTTTTCTAAAAACGCCACTAAAATCCCAAGCATTA
Found at i:43981853 original size:16 final size:16
Alignment explanation
Indices: 43981832--43981865 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43981822 CATACCATCA
43981832 TTCTTTTTCTC-TTTTT
1 TTCTTTTTC-CATTTTT
43981848 TTCTTTTTCCATTTTT
1 TTCTTTTTCCATTTTT
43981864 TT
1 TT
43981866 ATCCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTCTTTTTCCATTTTT
Found at i:43982697 original size:22 final size:23
Alignment explanation
Indices: 43982644--43982699 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
43982634 CCCGTTTTTA
* * *
43982644 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
43982667 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
43982689 ATTAAAATTAA
1 ATTAAAATTAA
43982700 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:43982712 original size:16 final size:16
Alignment explanation
Indices: 43982675--43982714 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
43982665 TTAATAAAAT
* *
43982675 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
43982691 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
43982707 TAAAATTA
1 TAAAATTA
43982715 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:43982793 original size:59 final size:59
Alignment explanation
Indices: 43982725--43982864 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
43982715 TCAAATTATT
*
43982725 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
43982784 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
43982843 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
43982865 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:43982858 original size:9 final size:9
Alignment explanation
Indices: 43982846--43982873 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
43982836 TTTATCAAAT
43982846 TATTAATTG
1 TATTAATTG
43982855 TATTAATTG
1 TATTAATTG
43982864 TATTAATTG
1 TATTAATTG
43982873 T
1 T
43982874 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:43983003 original size:24 final size:24
Alignment explanation
Indices: 43982968--43983015 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
43982958 GTAAATAAAC
* *
43982968 TTAAAATTAAAAACTAT-TATATT
1 TTAAAAATAAAAAATATATATATT
43982991 TTAAAAATAAAAAATATATATATT
1 TTAAAAATAAAAAATATATATATT
43983015 T
1 T
43983016 AATATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAAAATAAAAAATATATATATT
Found at i:43989065 original size:35 final size:35
Alignment explanation
Indices: 43989019--43989088 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
43989009 ATCTTTGTTT
43989019 TATTTTGGAAGCTTTAGTTTGTGGATACAATCAAA
1 TATTTTGGAAGCTTTAGTTTGTGGATACAATCAAA
43989054 TATTTTGGAAGCTTTAGTTTGTGGATACAATCAAA
1 TATTTTGGAAGCTTTAGTTTGTGGATACAATCAAA
43989089 CTTTGTGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (35 bp):
TATTTTGGAAGCTTTAGTTTGTGGATACAATCAAA
Found at i:43996638 original size:16 final size:16
Alignment explanation
Indices: 43996617--43996654 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43996607 TAGAAAATAA
*
43996617 AAAATGCACG-CTTCTT
1 AAAATGCAAGCCTT-TT
43996633 AAAATGCAAGCCTTTT
1 AAAATGCAAGCCTTTT
43996649 AAAATG
1 AAAATG
43996655 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (16 bp):
AAAATGCAAGCCTTTT
Found at i:43996758 original size:12 final size:13
Alignment explanation
Indices: 43996733--43996780 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
43996723 TTTTCTGAGG
43996733 TAAAAATAATTAT
1 TAAAAATAATTAT
*
43996746 TAAAAGTAA-TAT
1 TAAAAATAATTAT
*
43996758 TAAAAATAAATCAT
1 TAAAAAT-AATTAT
43996772 ATAAAAATA
1 -TAAAAATA
43996781 CAAATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 9 0.31
13 10 0.34
14 3 0.10
15 7 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
TAAAAATAATTAT
Found at i:43996968 original size:20 final size:20
Alignment explanation
Indices: 43996943--43996983 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43996933 CTTGGTTTAG
43996943 TTAGTCAATTTATGAATGCT
1 TTAGTCAATTTATGAATGCT
43996963 TTAGTCAATTTATGAATGCT
1 TTAGTCAATTTATGAATGCT
43996983 T
1 T
43996984 AAGTTCGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TTAGTCAATTTATGAATGCT
Found at i:44002349 original size:19 final size:20
Alignment explanation
Indices: 44002327--44002364 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
44002317 CTGCTAAACC
44002327 ATTTCATTGCAT-TTAGTTT
1 ATTTCATTGCATATTAGTTT
44002346 ATTTCATTGCATATTAGTT
1 ATTTCATTGCATATTAGTT
44002365 GTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTTCATTGCATATTAGTTT
Found at i:44036754 original size:15 final size:16
Alignment explanation
Indices: 44036728--44036758 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
44036718 CAAAGGCACC
44036728 ACAATATATAAAAACA
1 ACAATATATAAAAACA
44036744 ACAAT-TATAAAAACA
1 ACAATATATAAAAACA
44036759 TGTCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
ACAATATATAAAAACA
Found at i:44038745 original size:18 final size:16
Alignment explanation
Indices: 44038711--44038746 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
44038701 TAATATAATA
44038711 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
44038727 TATTTTGTAATATACTTT
1 TATTTT-TAATA-ACTTT
44038745 TA
1 TA
44038747 AAAACCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:44042617 original size:57 final size:57
Alignment explanation
Indices: 44042524--44042637 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
44042514 ACCCTAATTC
* *
44042524 AGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCA
1 AGATCACCCGTCCAGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCA
* * *
44042581 AGATCACCCGTCCAGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCAGGCTAAATCCATTTTC-CACATATTCTTCAGGAGGGCTATATCA
44042638 GGATAGGATC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 6 0.12
57 45 0.88
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (57 bp):
AGATCACCCGTCCAGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCA
Found at i:44048240 original size:50 final size:50
Alignment explanation
Indices: 44048160--44048352 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
44048150 ATTTGGGTAA
* *
44048160 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
* *
44048210 AGAGGTCCCATGTTAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
** * * *
44048260 AGAGGTCCCCCGTAAGACCATGTCTAGGATATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
** * * *
44048310 AGAACATCCCATGTAAGACCATGTCTGGGACATTGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
44048353 TGTTATTAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 91 0.75
51 31 0.25
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
Found at i:44060814 original size:23 final size:23
Alignment explanation
Indices: 44060784--44060838 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
44060774 CTACCGATTT
* *
44060784 TATGGAAGCATTTGTGGTTGTTC
1 TATGGAAGCATTTGTGGCTATTC
*
44060807 TATGGAAGCCTTTGTGGCTATTC
1 TATGGAAGCATTTGTGGCTATTC
*
44060830 TGTGGAAGC
1 TATGGAAGC
44060839 TTTTCTGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.13, G:0.31, T:0.38
Consensus pattern (23 bp):
TATGGAAGCATTTGTGGCTATTC
Found at i:44075042 original size:19 final size:19
Alignment explanation
Indices: 44075018--44075067 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
44075008 AGGTGATAGT
44075018 CTTGAATGTCCTACCGATG
1 CTTGAATGTCCTACCGATG
44075037 CTTGAATGTCCTACCGATG
1 CTTGAATGTCCTACCGATG
*
44075056 GTTGAA-GTCCTA
1 CTTGAATGTCCTA
44075068 TATTTGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (19 bp):
CTTGAATGTCCTACCGATG
Found at i:44093296 original size:20 final size:20
Alignment explanation
Indices: 44093266--44093303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44093256 TGCTAAACCA
44093266 TTTCATTGCAT-ATAGTTTG
1 TTTCATTGCATAATAGTTTG
44093285 TTTCATTTGCATAATAGTT
1 TTTCA-TTGCATAATAGTT
44093304 GTTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCATTGCATAATAGTTTG
Found at i:44106128 original size:6 final size:6
Alignment explanation
Indices: 44106117--44106156 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
44106107 AGTTTATTTG
* *
44106117 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
44106157 TTAGACTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:44108842 original size:14 final size:14
Alignment explanation
Indices: 44108823--44108852 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44108813 TTTGCATCCG
44108823 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
44108837 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
44108851 TA
1 TA
44108853 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:44109833 original size:133 final size:134
Alignment explanation
Indices: 44109579--44109820 Score: 353
Period size: 133 Copynumber: 1.8 Consensus size: 134
44109569 GGAAAAGAAA
* *
44109579 AAATAGGGTGTTGTGATTAGGGATTAATACGATGACTTAAGATCCAACATATCTTGCGGATTCTC
1 AAATAGGGTGTTGTGATCAGGGACTAATACGATGACTTAAGATCCAACATATCTTGCGGATTCTC
** *
44109644 TGAAGCTAGTGTTACCAAACTTGATCTGAAGCTAGTGTTAGTAGTCCTAATATGTCATTTTGCAA
66 TGAAGCTAGTGTTACCAAACTTGATCCAAAGCTAGTGTTAGCAGTCCTAATATGTCATTTTGCAA
44109709 AAAC
131 AAAC
* * * * *
44109713 AAATA-GGTTTTGTGATCAGGGACTAATTCGATTACTTGAGATCCAACATATGTTGCGGATTCTC
1 AAATAGGGTGTTGTGATCAGGGACTAATACGATGACTTAAGATCCAACATATCTTGCGGATTCTC
* *
44109777 TGAAGCTAGTGTTAGC-AACTCTGATCCAAAGTTAGTGTTAGCAG
66 TGAAGCTAGTGTTACCAAACT-TGATCCAAAGCTAGTGTTAGCAG
44109821 CTCAATAATG
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
132 4 0.04
133 86 0.91
134 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (134 bp):
AAATAGGGTGTTGTGATCAGGGACTAATACGATGACTTAAGATCCAACATATCTTGCGGATTCTC
TGAAGCTAGTGTTACCAAACTTGATCCAAAGCTAGTGTTAGCAGTCCTAATATGTCATTTTGCAA
AAAC
Found at i:44112499 original size:15 final size:15
Alignment explanation
Indices: 44112481--44112509 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44112471 ATAATTTATC
44112481 TTATAATAAAACATT
1 TTATAATAAAACATT
44112496 TTATAATAAAACAT
1 TTATAATAAAACAT
44112510 CACACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATAATAAAACATT
Found at i:44114289 original size:12 final size:12
Alignment explanation
Indices: 44114274--44114298 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44114264 GATATGTAAT
44114274 TTACAGAATAAG
1 TTACAGAATAAG
44114286 TTACAGAATAAG
1 TTACAGAATAAG
44114298 T
1 T
44114299 AGTTTACAAT
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TTACAGAATAAG
Found at i:44118511 original size:56 final size:56
Alignment explanation
Indices: 44118444--44118555 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
44118434 CTACCCTTTG
* * * *
44118444 ACCAATGAATATTTGCATCCCCAATATTAAACCCAAATGGTTACAAATCACTCTCC
1 ACCAATGAATATTTACAACCCCAATATTAAACCCAAATGATTACAAACCACTCTCC
*
44118500 ACCAATGAATATTTACAACCCCAATATTAAACCTAAATGATTACAAACCACTCTCC
1 ACCAATGAATATTTACAACCCCAATATTAAACCCAAATGATTACAAACCACTCTCC
44118556 TAAAATCTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.40, C:0.29, G:0.05, T:0.26
Consensus pattern (56 bp):
ACCAATGAATATTTACAACCCCAATATTAAACCCAAATGATTACAAACCACTCTCC
Found at i:44121740 original size:21 final size:19
Alignment explanation
Indices: 44121702--44121742 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44121692 AATAAATATA
*
44121702 AAAATATTTTTAAGTTTTT
1 AAAATATTTTTAAATTTTT
44121721 AAAATATATTTTAGAATTTTT
1 AAAATAT-TTTTA-AATTTTT
44121742 A
1 A
44121743 GAATTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
AAAATATTTTTAAATTTTT
Found at i:44122447 original size:25 final size:23
Alignment explanation
Indices: 44122405--44122452 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44122395 CTACAAACAA
*
44122405 TTTTTAAATTTTGATATATTTAT
1 TTTTTAAATTTTGATATACTTAT
*
44122428 TTTTTAAATATTTTATTATACTTAT
1 TTTTTAAAT-TTTGA-TATACTTAT
44122453 ATAAGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTAAATTTTGATATACTTAT
Found at i:44123404 original size:30 final size:30
Alignment explanation
Indices: 44123370--44123432 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44123360 ACTTATTTTA
*
44123370 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
44123400 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
44123430 TTG
1 TTG
44123433 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:44123567 original size:12 final size:12
Alignment explanation
Indices: 44123546--44123579 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44123536 TATATATTTT
*
44123546 AAAATTATATAA
1 AAAATAATATAA
44123558 AAAATAATATAA
1 AAAATAATATAA
*
44123570 AAATTAATAT
1 AAAATAATAT
44123580 GGATGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:44130230 original size:31 final size:32
Alignment explanation
Indices: 44130179--44130239 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
44130169 GGTCTCAGAA
44130179 ATATTATTTTAGATTATTTTA-ACTTTTTTAT
1 ATATTATTTTAGATTATTTTAGACTTTTTTAT
* *
44130210 ATATTA-TTTAGAATTTTTTTAGAGTTTTTT
1 ATATTATTTTAG-ATTATTTTAGACTTTTTT
44130240 TAACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 14 0.54
32 7 0.27
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (32 bp):
ATATTATTTTAGATTATTTTAGACTTTTTTAT
Found at i:44134448 original size:28 final size:29
Alignment explanation
Indices: 44134384--44134448 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
44134374 CTATTTTGAC
* *
44134384 TTTTATTTTTTTTATTTTTAATGAATTTT
1 TTTTATTTGTTATATTTTTAATGAATTTT
** *
44134413 TTAAATTTGTTAT-TTTTTAGTGAATTTT
1 TTTTATTTGTTATATTTTTAATGAATTTT
44134441 TTTTATTT
1 TTTTATTT
44134449 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (29 bp):
TTTTATTTGTTATATTTTTAATGAATTTT
Found at i:44144672 original size:29 final size:29
Alignment explanation
Indices: 44144611--44144750 Score: 110
Period size: 29 Copynumber: 4.9 Consensus size: 29
44144601 CATATAAGTG
* *
44144611 AGCCTTTGTG--GATATCT-TTGAAAGGA
1 AGCCTTTGTGTCGATCTCTGTTAAAAGGA
*
44144637 AGCCTTTGTGTCGATCTCTGTTAAATGGA
1 AGCCTTTGTGTCGATCTCTGTTAAAAGGA
* *
44144666 AGCCTTTGTGACTG-TCTCTTTTAAAAGGA
1 AGCCTTTGTGTC-GATCTCTGTTAAAAGGA
* * * * *
44144695 TGCATTCGTGGCTATCTCTGTTAAAAGGA
1 AGCCTTTGTGTCGATCTCTGTTAAAAGGA
* * *
44144724 TGTCTTTGTGGTC-ATCTATGTTAAAAG
1 AGCCTTTGT-GTCGATCTCTGTTAAAAG
44144751 AATGCATTGT
Statistics
Matches: 91, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
26 10 0.11
28 6 0.07
29 72 0.79
30 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (29 bp):
AGCCTTTGTGTCGATCTCTGTTAAAAGGA
Found at i:44146822 original size:15 final size:17
Alignment explanation
Indices: 44146802--44146833 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44146792 TAATTAGGTT
44146802 TAGG-AAATT-ATTTAA
1 TAGGAAAATTAATTTAA
44146817 TAGGAAAATTAATTTAA
1 TAGGAAAATTAATTTAA
44146834 GATGTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGGAAAATTAATTTAA
Found at i:44148911 original size:39 final size:39
Alignment explanation
Indices: 44148834--44148912 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
44148824 TGTGCTTATC
* *
44148834 TATTGTTTTAATACTTTCGGGATATTAATTCAGGTTTAA
1 TATTGTTTTAATACTTTCGGAATATTAATTCAGATTTAA
*
44148873 TATTGTTTTAATA-TTTCTGGAATATTAATTCATATTTAA
1 TATTGTTTTAATACTTTC-GGAATATTAATTCAGATTTAA
44148912 T
1 T
44148913 GTGCTTAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 4 0.11
39 32 0.89
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.52
Consensus pattern (39 bp):
TATTGTTTTAATACTTTCGGAATATTAATTCAGATTTAA
Found at i:44149534 original size:14 final size:13
Alignment explanation
Indices: 44149517--44149567 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
44149507 GTCATTTCTA
44149517 TTTTATTTTTATAT
1 TTTTATTTTTA-AT
44149531 TTTT-TTAATTTAAT
1 TTTTATT--TTTAAT
*
44149545 TTTTATATTTTAAA
1 TTTTAT-TTTTAAT
44149559 TTTTATTTT
1 TTTTATTTT
44149568 GTTTGCATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
13 5 0.16
14 21 0.66
15 5 0.16
16 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:44149563 original size:36 final size:37
Alignment explanation
Indices: 44149492--44149564 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
44149482 GGAATACTTG
* * *
44149492 ATTTTTATTAATTTAGTCATTTCTATTTTATTTTTAT
1 ATTTTTATTAATTTAATCATTTATATTTTAATTTTAT
*
44149529 ATTTTT-TTAATTTAAT-TTTTATATTTTAAATTTTAT
1 ATTTTTATTAATTTAATCATTTATATTTT-AATTTTAT
44149565 TTTGTTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 9 0.29
36 16 0.52
37 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (37 bp):
ATTTTTATTAATTTAATCATTTATATTTTAATTTTAT
Found at i:44152523 original size:15 final size:17
Alignment explanation
Indices: 44152493--44152524 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44152483 GCCTAGCGAT
44152493 ATGGCCATGTGACACAC
1 ATGGCCATGTGACACAC
44152510 ATGGCC-TG-GACACAC
1 ATGGCCATGTGACACAC
44152525 GGGCATGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.16
Consensus pattern (17 bp):
ATGGCCATGTGACACAC
Found at i:44155244 original size:20 final size:20
Alignment explanation
Indices: 44155206--44155255 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
44155196 ATTTCTTTTC
* *
44155206 TTTTTGGTTTTATTTTTCT-
1 TTTTTGTTTTTATTGTTCTA
44155225 TTTTTGTTTTTAGTTGTTCTA
1 TTTTTGTTTTTA-TTGTTCTA
*
44155246 TTTTTATTTT
1 TTTTTGTTTT
44155256 CTTAGACTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 6 0.23
21 9 0.35
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.78
Consensus pattern (20 bp):
TTTTTGTTTTTATTGTTCTA
Found at i:44155516 original size:10 final size:10
Alignment explanation
Indices: 44155497--44155527 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
44155487 GCTTATTTTG
44155497 TGTTTATACA
1 TGTTTATACA
*
44155507 TGTTTGTACA
1 TGTTTATACA
44155517 TGTTTATACA
1 TGTTTATACA
44155527 T
1 T
44155528 TGAGGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (10 bp):
TGTTTATACA
Found at i:44155849 original size:32 final size:31
Alignment explanation
Indices: 44155807--44155910 Score: 83
Period size: 32 Copynumber: 3.4 Consensus size: 31
44155797 CTTGAAGTTG
*
44155807 TGCCATAAAGGCATTGCTTAGTATCCAGTACT
1 TGCCACAAAGGCATT-CTTAGTATCCAGTACT
* *
44155839 TGCCACAAAGGC--T-TTA-TGTCCAG-AGTT
1 TGCCACAAAGGCATTCTTAGTATCCAGTA-CT
* *
44155866 ATGCCACAAAGGCATTTCTTAGTATCTATTACT
1 -TGCCACAAAGGCA-TTCTTAGTATCCAGTACT
*
44155899 CGCCACAAAGGC
1 TGCCACAAAGGC
44155911 TTTCCTGTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
26 1 0.02
27 7 0.12
28 15 0.27
30 1 0.02
31 1 0.02
32 25 0.45
33 5 0.09
34 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
TGCCACAAAGGCATTCTTAGTATCCAGTACT
Found at i:44155960 original size:61 final size:61
Alignment explanation
Indices: 44155802--44155975 Score: 224
Period size: 61 Copynumber: 2.9 Consensus size: 61
44155792 ATTATCTTGA
* *
44155802 AGTTGTGCCATAAAGGCATTGCTTAGTATCCAGTACTTGCCACAAAGGCTTT-ATGTCCAG
1 AGTTGTGCCATAAAGGCATTCCTTAGTATCCAGTACTCGCCACAAAGGCTTTCATGTCCAG
* * * * * * *
44155862 AGTTATGCCACAAAGGCATTTCTTAGTATCTATTACTCGCCACAAAGGCTTTCCTGTCTAG
1 AGTTGTGCCATAAAGGCATTCCTTAGTATCCAGTACTCGCCACAAAGGCTTTCATGTCCAG
* * * *
44155923 AGTTGTGTCATAAAGGCATTCCTTAATATCCAGTACTCACCACAAAGACTTTC
1 AGTTGTGCCATAAAGGCATTCCTTAGTATCCAGTACTCGCCACAAAGGCTTTC
44155976 TCTTTCCTAG
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 46 0.48
61 50 0.52
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (61 bp):
AGTTGTGCCATAAAGGCATTCCTTAGTATCCAGTACTCGCCACAAAGGCTTTCATGTCCAG
Found at i:44157921 original size:18 final size:18
Alignment explanation
Indices: 44157894--44157932 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
44157884 TTTAAACTCT
*
44157894 TTAAACTCAATTAAAAAA
1 TTAAAATCAATTAAAAAA
*
44157912 TTAAAATCAATTGAAAAA
1 TTAAAATCAATTAAAAAA
44157930 TTA
1 TTA
44157933 CTACCTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAAAATCAATTAAAAAA
Found at i:44160348 original size:9 final size:10
Alignment explanation
Indices: 44160325--44160349 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44160315 GCTTTATCTA
44160325 AAAAAGTTTT
1 AAAAAGTTTT
44160335 AAAAAGTTTT
1 AAAAAGTTTT
44160345 AAAAA
1 AAAAA
44160350 TTGAGAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
AAAAAGTTTT
Found at i:44165242 original size:14 final size:14
Alignment explanation
Indices: 44165223--44165253 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44165213 AATGCTCTTT
44165223 TTTACATCTATTTC
1 TTTACATCTATTTC
44165237 TTTACATCTATTTC
1 TTTACATCTATTTC
44165251 TTT
1 TTT
44165254 CGAGTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTACATCTATTTC
Found at i:44167172 original size:46 final size:46
Alignment explanation
Indices: 44167105--44167279 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44167095 TGTAACCCGC
*
44167105 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
44167151 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** * *
44167201 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
44167244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
44167280 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:44167225 original size:93 final size:93
Alignment explanation
Indices: 44167112--44167283 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44167102 CGCCCATAAG
* * *
44167112 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44167177 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
44167205 CGAACTCGGACTCAACTCAACGAGTTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44167270 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44167284 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44177445 original size:20 final size:19
Alignment explanation
Indices: 44177382--44177488 Score: 88
Period size: 20 Copynumber: 5.4 Consensus size: 19
44177372 CCAGTTTATG
44177382 GACAAGCCACCAATATTGCA
1 GACAAGCCACCAA-ATTGCA
* * * * **
44177402 GATAAACCAACAGTATTGTG
1 GACAAGCCACCA-AATTGCA
44177422 GACAAGCCACCATAATTGCA
1 GACAAGCCACCA-AATTGCA
** *
44177442 GACAAGGTACCAATATTGTA
1 GACAAGCCACCAA-ATTGCA
44177462 GACAAGCCACCAGAATTGCA
1 GACAAGCCACCA-AATTGCA
44177482 GACAAGC
1 GACAAGC
44177489 TGTTAGTATT
Statistics
Matches: 65, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.02
20 63 0.97
21 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (19 bp):
GACAAGCCACCAAATTGCA
Found at i:44177506 original size:40 final size:39
Alignment explanation
Indices: 44177373--44177514 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
44177363 AATAACACAC
* * *
44177373 CAGT-TTATGGACAAGCCACCAATATTGCAGATAAACCAA
1 CAGTATTATGGACAAGCCACCAA-ATTGCAGACAAGCTAA
* * *
44177412 CAGTATTGTGGACAAGCCACCATAATTGCAGACAAGGTAC
1 CAGTATTATGGACAAGCCACCA-AATTGCAGACAAGCTAA
* * * **
44177452 CAATATTGTAGACAAGCCACCAGAATTGCAGACAAGCTGT
1 CAGTATTATGGACAAGCCACCA-AATTGCAGACAAGCTAA
*
44177492 TAGTATTATGGACAAGCCACCAA
1 CAGTATTATGGACAAGCCACCAA
44177515 TGCTGCAAAC
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 5 0.06
40 79 0.93
41 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (39 bp):
CAGTATTATGGACAAGCCACCAAATTGCAGACAAGCTAA
Found at i:44177527 original size:80 final size:79
Alignment explanation
Indices: 44177413--44177567 Score: 197
Period size: 80 Copynumber: 1.9 Consensus size: 79
44177403 ATAAACCAAC
* * * *
44177413 AGTATTGTGGACAAGCCACCATAATTGCAGACAAGGTA-CCAATATTGTAGACAAGCCACCAGAA
1 AGTATTATGGACAAGCCACCA-AATTGCAAACAA-GCAGCCAATAATGTAGACAAGCCACCAGAA
44177477 TTGCAGACAAGCTGTT
64 TTGCAGACAAGCTGTT
* **
44177493 AGTATTATGGACAAGCCACC-AATGCTGCAAACAAGCAGCCAATAATGTGGACAAGCCACCAGTG
1 AGTATTATGGACAAGCCACCAAAT--TGCAAACAAGCAGCCAATAATGTAGACAAGCCACCAGAA
44177557 TTGCAGACAAG
64 TTGCAGACAAG
44177568 ATGCCAGTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.05
79 2 0.03
80 60 0.92
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (79 bp):
AGTATTATGGACAAGCCACCAAATTGCAAACAAGCAGCCAATAATGTAGACAAGCCACCAGAATT
GCAGACAAGCTGTT
Found at i:44178343 original size:19 final size:19
Alignment explanation
Indices: 44178319--44178414 Score: 129
Period size: 21 Copynumber: 4.8 Consensus size: 19
44178309 AATTTTTGAG
44178319 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
44178338 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
44178357 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
44178378 GATAAATGCAATCTTAGATAT
1 GAT--ATGCAATCTTAGATAT
*
44178399 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
44178415 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 36 0.53
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44178364 original size:40 final size:41
Alignment explanation
Indices: 44178320--44178403 Score: 134
Period size: 40 Copynumber: 2.0 Consensus size: 41
44178310 ATTTTTGAGG
44178320 ATATGCAATCTTAGATATGAT-ATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATAATGCAATCCAAGATATGAT
**
44178360 ATATGCAATCTTAGATATGATAAATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT-AATGCAATCCAAGATATGAT
44178402 AT
1 AT
44178404 GTAATCTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 21 0.52
42 19 0.47
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATAATGCAATCCAAGATATGAT
Found at i:44178404 original size:40 final size:38
Alignment explanation
Indices: 44178319--44178421 Score: 129
Period size: 40 Copynumber: 2.7 Consensus size: 38
44178309 AATTTTTGAG
44178319 GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
**
44178357 GATATATGCAATCTTAGATATGATAAATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGAT--ATGCAATCCAAGATAT
*
44178399 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
44178422 ATTTTGTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
36 3 0.05
38 4 0.07
39 1 0.02
40 35 0.60
42 15 0.26
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.34
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCAAGATAT
Found at i:44178421 original size:22 final size:23
Alignment explanation
Indices: 44178393--44178437 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44178383 ATGCAATCTT
44178393 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
44178415 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
44178438 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:44178447 original size:22 final size:23
Alignment explanation
Indices: 44178403--44178447 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44178393 AGATATGATA
*
44178403 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
44178426 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
44178448 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:44179084 original size:23 final size:23
Alignment explanation
Indices: 44179047--44179090 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
44179037 CATATATATA
44179047 TTTTTTAAAACGAATATTTTCCT
1 TTTTTTAAAACGAATATTTTCCT
* *
44179070 TTTTTTTAAATGAATATTTTC
1 TTTTTTAAAACGAATATTTTC
44179091 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTTTAAAACGAATATTTTCCT
Found at i:44179850 original size:98 final size:98
Alignment explanation
Indices: 44179729--44179925 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
44179719 TTAAGAATAA
*
44179729 TAAAGGAAATATTCCAAGCTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGCTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
44179794 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
44179827 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGCTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
44179892 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
44179925 T
1 T
44179926 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGCTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:44185629 original size:44 final size:44
Alignment explanation
Indices: 44185543--44185891 Score: 152
Period size: 44 Copynumber: 7.9 Consensus size: 44
44185533 CCAAGCCTTG
* * * * ** * *
44185543 TCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
*
44185587 TCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
* * * ** ** *
44185631 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAAATCTTA
* * * * * * ** * *
44185675 TCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
* *
44185719 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
* * * ** ** *
44185763 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAAATCTTA
* * * ** * * ** * *
44185807 TTTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
* *
44185851 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATC
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATC
44185892 ATATATTTCC
Statistics
Matches: 207, Mismatches: 86, Indels: 24
0.65 0.27 0.08
Matches are distributed among these distances:
42 8 0.04
43 11 0.05
44 173 0.84
45 11 0.05
46 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTA
Found at i:44185687 original size:132 final size:132
Alignment explanation
Indices: 44185517--44185920 Score: 682
Period size: 132 Copynumber: 3.1 Consensus size: 132
44185507 GCCGACAGCA
** * *
44185517 AAGCAGATCGAAGACACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
1 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
* *
44185582 TCTTATCTCCCTAGGCAGTAGTGGAGCAGATTGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
44185647 GG
131 GG
*
44185649 AAGCAGATTTAAGCCACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
1 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
*
44185714 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTG
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
44185779 GG
131 GG
* * *
44185781 AAGCAGATTTAAGCCACCAAGCCTTGTTTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGA
1 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
* * *
44185846 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAAATCATATATTTCCAAGATAGTG
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
44185911 GG
131 GG
44185913 AAGCAGAT
1 AAGCAGAT
44185921 CAAAGTCGAC
Statistics
Matches: 256, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 256 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (132 bp):
AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTG
GG
Found at i:44186074 original size:44 final size:45
Alignment explanation
Indices: 44186015--44186142 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
44186005 GATCGCATCT
44186015 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGGA-AGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-GATAGCA
*
44186059 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCA
* *
44186104 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
44186143 CACTAATTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 37 0.49
46 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:44186077 original size:84 final size:87
Alignment explanation
Indices: 44185936--44186132 Score: 210
Period size: 84 Copynumber: 2.3 Consensus size: 87
44185926 TCGACAATCC
* * * *
44185936 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATATTATCCCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATATTATCCCTCTGAAGTTGCAGAG
* *
44186001 A-GTAGA-TCG-CAT-CTAGTCT
66 AGGCAGACT-GACATGCAAGTCT
*
44186020 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCA-AG-TCTTAT-CCTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCACAGATATTATCCCT-CTGAAGTTGCA
* *
44186082 GTGAGGCAGACTGAAGATGGCAAGTCT
63 GAGAGGCAGACTG-ACAT-GCAAGTCT
44186109 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
44186133 TAGATTGAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
83 3 0.03
84 48 0.51
85 7 0.07
86 5 0.05
87 2 0.02
89 30 0.32
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATATTATCCCTCTGAAGTTGCAGAG
AGGCAGACTGACATGCAAGTCT
Found at i:44186120 original size:45 final size:44
Alignment explanation
Indices: 44186015--44186132 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 44
44186005 GATCGCATCT
44186015 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCA
*
44186059 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAA-GATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGGA-AGCA
44186104 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
44186133 TAGATTGAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
43 3 0.04
44 32 0.48
45 29 0.43
46 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCA
Found at i:44186428 original size:19 final size:21
Alignment explanation
Indices: 44186347--44186422 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
44186337 ATTTTTGAGG
44186347 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
**
44186366 ATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGAT
44186387 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
44186408 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
44186423 AGATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.33
21 34 0.67
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:44186444 original size:23 final size:24
Alignment explanation
Indices: 44186377--44186445 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 24
44186367 TATGCAATCC
44186377 AAGATATGATATATGCAATCTT--
1 AAGATATGATATATGCAATCTTAG
44186399 -AGATATGATATATGCAATCTTAG
1 AAGATATGATATATGCAATCTTAG
* *
44186422 AAGATATGAT-TTTGTAATCTTAG
1 AAGATATGATATATGCAATCTTAG
44186445 A
1 A
44186446 GATTTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 21 0.50
23 12 0.29
24 9 0.21
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (24 bp):
AAGATATGATATATGCAATCTTAG
Found at i:44187054 original size:23 final size:24
Alignment explanation
Indices: 44187018--44187064 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
44187008 ACATATATAG
44187018 TTTTTTTTAAAAATGAATATTTTCC
1 TTTTTTTT-AAAATGAATATTTTCC
44187043 TTTTTTTT-AAATGAATATTTTC
1 TTTTTTTTAAAATGAATATTTTC
44187065 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTTTTTAAAATGAATATTTTCC
Found at i:44187831 original size:98 final size:98
Alignment explanation
Indices: 44187698--44187894 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
44187688 TTAAGAATAA
* * * *
44187698 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
44187763 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
44187796 TAAAGGAAATATTCCTAGTTTGAGATTCTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
*
44187861 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
44187894 T
1 T
44187895 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:44196341 original size:21 final size:21
Alignment explanation
Indices: 44196312--44196353 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44196302 ACCTAGATAT
* * *
44196312 TAATTTAATTTAGTTTTTTTA
1 TAATCTAATTTAATTATTTTA
44196333 TAATCTAATTTAATTATTTTA
1 TAATCTAATTTAATTATTTTA
44196354 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TAATCTAATTTAATTATTTTA
Found at i:44199998 original size:88 final size:88
Alignment explanation
Indices: 44199880--44200963 Score: 1341
Period size: 88 Copynumber: 12.3 Consensus size: 88
44199870 TTCATTGCTA
* * * * * * * *
44199880 ATACAAGAAGGCAAGACCTGGTATCTTCAACCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44199945 GTCTTCGATCTGCTTTACTGTC-
66 GTCTTCGATCTGCTTCACTGTCG
* *
44199967 AGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTACTACAACCGAGAGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* *
44200032 TGTTTTCGATCTGCTTCACTCTCG
65 TGTCTTCGATCTGCTTCACTGTCG
* * * *
44200056 ATGCAGGAAGGCAAAATCTGCTATCTTCAACCTGCTCCACTACAACCGTGGGGGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200121 GTCTTCAATCTGCTTCACTGTCG
66 GTCTTCGATCTGCTTCACTGTCG
** * * *
44200144 ATGTATGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTACAACCGAGGGAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
* * *
44200209 GTCTTCGATCTACTTCGCCGTCG
66 GTCTTCGATCTGCTTCACTGTCG
* * *
44200232 ATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCAAGGGAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200297 GTCTTCGATCTGCTTC-GTCGTCG
66 GTCTTCGATCTGCTTCACT-GTCG
* * * * * * * * * * *
44200320 ATGCAAGAAGGCAAGATCTGCTGTCCTCAACCTGCTTCGCTGCAACCTAAGGAGGTAAGGCTGGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200385 GTCTTCGATCTGATTCACTGTC-
66 GTCTTCGATCTGCTTCACTGTCG
* *
44200407 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACTGAGGGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* ** *
44200472 TGTCTTCGATCTGCTTCGCCATCA
65 TGTCTTCGATCTGCTTCACTGTCG
* * * * * * *
44200496 ATGCAGGAAGGCAAGATTTGCTGTCTTCAATCTACTCCACTACAACCAAGGAAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200561 GTCTTCAATCTGCTTCACTGTCG
66 GTCTTCGATCTGCTTCACTGTCG
* * ** ** * * *
44200584 ATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGTTCCGTTGTAACCCAGGGAGGTAAGGCTGGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200649 GTCTTCGATCTACTTCACTGTC-
66 GTCTTCGATCTGCTTCACTGTCG
*
44200671 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
1 A-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTG
* * *
44200736 TGTTTTTGATCTGCTTCACTCTCG
65 TGTCTTCGATCTGCTTCACTGTCG
* * * *
44200760 ATACGGGAAGGCAAGATCTGCTATCTTCAACCTACTCTACTACAACCGAGGGAGGAAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
* * *
44200825 GTTTTCAATCTACTTCACTG-CG
66 GTCTTCGATCTGCTTCACTGTCG
** *
44200847 ATGGAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
1 ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
*
44200912 GTCTTCGATCTGCTTCACTCTCG
66 GTCTTCGATCTGCTTCACTGTCG
* * *
44200935 ATGCAGTAAGGCAAGATCTGTTATCTTCA
1 ATACAGGAAGGCAAGATCTGCTATCTTCA
44200964 CTGATTTGTT
Statistics
Matches: 850, Mismatches: 138, Indels: 17
0.85 0.14 0.02
Matches are distributed among these distances:
87 79 0.09
88 767 0.90
89 4 0.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
ATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGT
GTCTTCGATCTGCTTCACTGTCG
Found at i:44200126 original size:43 final size:43
Alignment explanation
Indices: 44200079--44200214 Score: 114
Period size: 43 Copynumber: 3.1 Consensus size: 43
44200069 AAATCTGCTA
*
44200079 TCTTCAACCTGCTCCACTACAACCGTGGGGGGCAAGGCTTGTG
1 TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
* * * * * * * * *
44200122 TCTTCAATCTGCTTCACTGTCGA-TGTATGAAGGCAA-GATCTGATA
1 TCTTCAACCTGCTCCACT-ACAACCGT-GGGAGGCAAGGCT-TG-TG
* *
44200167 TCTTCAACCTCCTCCACTACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
44200210 TCTTC
1 TCTTC
44200215 GATCTACTTC
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 26 0.39
44 21 0.32
45 19 0.29
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTCAACCTGCTCCACTACAACCGTGGGAGGCAAGGCTTGTG
Done.