Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 126 of 255
Found at i:40251283 original size:40 final size:40
Alignment explanation
Indices: 40250714--40251261 Score: 778
Period size: 40 Copynumber: 13.7 Consensus size: 40
40250704 AGGCCCGAAT
* * * * * *
40250714 ATACGTCACCAGCATGATTGCTCTTCGGAACCTAGCCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
* * * * *** *
40250754 ATATAACACCAGCACAAATGCTCTTCGGCGTTTAGTACGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
* *
40250794 ATATATTACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
* *
40250834 ATACATCACTAGCACGAATGCTCTTC-GAGACTTAGCCCGA
1 ATACATCACTAGCACGAATGCTCTTCGGA-ACTTAGTCCGG
* * * *
40250874 ATACATCACTAGCACAAATGTTCTTCGGGACTTAGCCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
* *
40250914 ATATATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
40250954 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
*
40250994 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGA
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
*
40251034 ATACATCACTAGCACGAATGCTCTTC-GAGACTTAGCCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGA-ACTTAGTCCGG
*
40251074 ATACATCACTAGCACGAATGCTCTTCGGGACTTAG-CTCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGG
* * *
40251114 ATATATCACTAGCACGAATGCTCTTCGGAGCTTAGTCGGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
40251154 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
40251194 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
1 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
40251234 ATACATCACTAGCACGAATGCTCTTCGG
1 ATACATCACTAGCACGAATGCTCTTCGG
40251262 GATTTAGCCC
Statistics
Matches: 455, Mismatches: 47, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.01
40 447 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGG
Found at i:40252539 original size:37 final size:37
Alignment explanation
Indices: 40252489--40252567 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40252479 TTATTACGAA
* * *
40252489 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
40252526 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
40252563 GTCTT
1 GTCTT
40252568 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:40252863 original size:49 final size:49
Alignment explanation
Indices: 40252697--40253197 Score: 812
Period size: 49 Copynumber: 10.3 Consensus size: 49
40252687 TTATCACATT
* * * * * * *
40252697 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
40252744 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
* * *
40252791 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACCTATG
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
* *
40252840 TATACACTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACGTGTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
40252889 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
40252938 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
40252987 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
* *
40253036 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
* *
40253085 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
* *
40253134 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
40253183 TATACACTTTCACAT
1 TATACACTTTCACAT
40253198 ATGGGTTTAA
Statistics
Matches: 432, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
47 83 0.19
49 349 0.81
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATA
Found at i:40262830 original size:30 final size:30
Alignment explanation
Indices: 40262796--40262855 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40262786 AAAAAATCAT
*
40262796 ACTTTGGAAAAATTACATTTTTGCCCCTAA
1 ACTTTAGAAAAATTACATTTTTGCCCCTAA
** * *
40262826 ACTTTATCATATTTACATTTTTGCCCCTAA
1 ACTTTAGAAAAATTACATTTTTGCCCCTAA
40262856 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.42
Consensus pattern (30 bp):
ACTTTAGAAAAATTACATTTTTGCCCCTAA
Found at i:40268069 original size:694 final size:694
Alignment explanation
Indices: 40266740--40268129 Score: 2611
Period size: 694 Copynumber: 2.0 Consensus size: 694
40266730 ATTTCAACTA
*
40266740 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCTTAGACCAACTTCAAAT
1 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
40266805 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
66 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
40266870 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
131 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
*
40266935 GCCATTTCTGTAACAGTGCGTTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
196 GCCATTTCTGTAACAGTGCATTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
40267000 GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAAT
261 GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAAT
40267065 TTCGTTAAAAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
326 TTCGTTAAAAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
*
40267130 AAAAGTTGAGTTCTACTTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTCCTTAAGATGTTA
391 AAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTCCTTAAGATGTTA
*
40267195 TTAGACGATTGATAGTTGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
456 TTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
40267260 CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
521 CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
*
40267325 TCATCTTCCATTTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTTT
586 TCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTTT
*
40267390 GGCACATCTTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
651 GGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
40267434 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
1 AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
* *
40267499 CGTAAAGATATAGATTTTGGTAGAACTCATTAGAAACATACTCTAGTTTTTTAATGACAATCAAA
66 CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
40267564 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
131 TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
*
40267629 GCCATTTCTGTAACAGT-CTATTTTTATGTCAAATTGAAAAAGTGGTTTTGGGATCATAAATTTG
196 GCCATTTCTGTAACAGTGC-ATTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTG
* * * **
40267693 AGTTTAAATTTTTTATTTTATTATTTTATTAGGGTTTGTAGCATGATAGAATTATTATATGAAAA
260 AGGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAA
* *
40267758 TTTCGTTAAGAAATTTTACCGTTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCG
325 TTTCGTTAAAAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCG
*
40267823 TAAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATGAGAGGTCCTTAAGATGTT
390 TAAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTCCTTAAGATGTT
40267888 ATTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATT
455 ATTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATT
40267953 ACTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTC
520 ACTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTC
40268018 ATCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTT
585 ATCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTT
40268083 TGGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
650 TGGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
40268128 AA
1 AA
40268130 CTAGATCGGT
Statistics
Matches: 678, Mismatches: 17, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
693 1 0.00
694 677 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (694 bp):
AAAAATAAATTTGGTTTCCAAATGGCTTAAAACCTAGCAATGTAGTCCCTAGACCAACTTCAAAT
CGTAAAGATAAAGATTTTGGTAGAACTCATTAGAAACATACTCTACTTTTTTAATGACAATCAAA
TTGATTAAATAAAATAAGATACAAATGGGTTTTTATCCTTTACTAAAATTGAGTACTTTTACTGA
GCCATTTCTGTAACAGTGCATTTTTATGTCAAATTGAAAAAGTAGTTTTGGGATCATAAATTTGA
GGTTAAATTTTTCATTTTATTATTTTAATAGGGTTTACAGCATGATAGAATTATTATATGAAAAT
TTCGTTAAAAAATTTTACCATTTAAATGCTTAATTCGGTAAAAAGGACTAAATCGCGTAATGCGT
AAAAGTTGAGTTCTAATTGTTAAAGGTGTTTAAATCATAATAAATAAGAGGTCCTTAAGATGTTA
TTAGACGATTGATAGTGGAACTTGACATAGATAACCTTATATTTGATGATTTAAATGTTTTATTA
CTAAGGTTAATATAGTAATTTATGTATTAAGTTAATAATAAATAAAACCAAAATCATTTTATTCA
TCATCTTCCATCTATATTGCCGAAATTGAGAAAGAAAAATAAGGGTTTGAAGCTTCCATGATTTT
GGCACATATTTGGCTTGATTAAGATCAATATAAGCAAATTTTGG
Found at i:40268508 original size:22 final size:23
Alignment explanation
Indices: 40268483--40268549 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
40268473 TAGCTGGTAT
40268483 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
40268505 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
40268528 GAGCATACTGCTTATCAGCTCA
1 GAGCTTACTG-TT-TCAGCTCA
40268550 GGAGGAGCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.23
23 20 0.51
24 2 0.05
25 8 0.21
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:40268523 original size:23 final size:23
Alignment explanation
Indices: 40268483--40268563 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
40268473 TAGCTGGTAT
*
40268483 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
40268505 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
* * **
40268528 GAGCATACTGCTTATCAGCTCAGGA
1 GAGCTTACCG-TT-TCAGCTCAATA
40268553 GGAGCTTACCG
1 -GAGCTTACCG
40268564 ATCATGGCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 9 0.19
23 20 0.42
24 2 0.04
25 9 0.19
26 8 0.17
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAATA
Found at i:40270483 original size:49 final size:47
Alignment explanation
Indices: 40270410--40270631 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 47
40270400 GGTAAGTTAT
*
40270410 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATC-TCGAGGC
* * * *
40270459 TGATGCCACGTCCCAGACATGGTCTTACAGTGAC-A-CATCTCGTA-GC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCG-AGGC
* * *
40270505 CGATG-AATGTCCCAGACATGTCTTGCACTGGCT-TACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAGGC
* * * * *
40270551 CAATG-CATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTCGAGGC
* *
40270597 CGATGCCATGTCCCAAATATAGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT
40270632 CAAACCAATG
Statistics
Matches: 141, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.07
45 13 0.09
46 58 0.41
47 18 0.13
48 13 0.09
49 29 0.21
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGC
Found at i:40276841 original size:47 final size:47
Alignment explanation
Indices: 40276787--40276979 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
40276777 TTAGGATTTT
** * *
40276787 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40276834 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
40276881 ATGTGATGAATGTGAGCATACATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40276928 ATGTGGTGAATATGAAC-TGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40276974 ATGTGA
1 ATGTGA
40276980 AATATATATA
Statistics
Matches: 130, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 29 0.22
47 101 0.78
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40276887 original size:22 final size:22
Alignment explanation
Indices: 40276816--40276887 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
40276806 GTATATATGA
40276816 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
40276838 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
40276863 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
40276885 GAT
1 GAT
40276888 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:40277008 original size:50 final size:50
Alignment explanation
Indices: 40276949--40277132 Score: 286
Period size: 50 Copynumber: 3.7 Consensus size: 50
40276939 ATGAACTGCA
40276949 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
40276999 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
*
40277047 CATATGTGGTAAAGCCGAATGG-TAAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
* *
40277097 TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
40277133 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
47 1 0.01
48 42 0.34
49 4 0.03
50 74 0.60
51 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
Found at i:40277057 original size:98 final size:98
Alignment explanation
Indices: 40276950--40277135 Score: 345
Period size: 98 Copynumber: 1.9 Consensus size: 98
40276940 TGAACTGCAT
*
40276950 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
40277015 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 AAATGGCTAATGTGAAATATGTATGAGATATGC
40277048 ATATGTGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
40277113 AAATGGCTAGTGTGAAATATGTA
66 AAATGGCTAATGTGAAATATGTA
40277136 GGCGATGTGC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (98 bp):
ATATGTGGTAAAGCCGAATGGTAAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
AAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:40277150 original size:50 final size:50
Alignment explanation
Indices: 40276949--40277156 Score: 234
Period size: 50 Copynumber: 4.2 Consensus size: 50
40276939 ATGAACTGCA
*
40276949 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
40276999 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC-
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
*
40277048 -ATATGTGGTAAAGCCGAATGG-TAAATGTGAAATATATATATGAGATAT--G
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGCG
* * * * *
40277097 TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTAGGCGATGTGCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
40277147 TATATTGTGG
1 TATA-TGTGG
40277157 CCAAACGACC
Statistics
Matches: 138, Mismatches: 8, Indels: 23
0.82 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 52 0.38
49 6 0.04
50 72 0.52
51 7 0.05
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCG
Found at i:40277389 original size:37 final size:37
Alignment explanation
Indices: 40277281--40277389 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
40277271 GGAAATATAT
* *
40277281 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
40277318 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
* *
40277355 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
40277390 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTC
Found at i:40278713 original size:40 final size:40
Alignment explanation
Indices: 40278656--40278927 Score: 472
Period size: 40 Copynumber: 6.8 Consensus size: 40
40278646 GAGAATTGAG
*
40278656 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40278696 AGTGATGTATCCTGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40278736 AGTGATATATCTGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40278776 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40278816 AGTGATGTATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
40278856 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40278896 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
40278928 ATCATGCTGG
Statistics
Matches: 220, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:40281964 original size:47 final size:47
Alignment explanation
Indices: 40281910--40282056 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 47
40281900 TTAGGATTTT
** * *
40281910 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
40281957 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCAGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40282004 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40282051 ATGTGA
1 ATGTGA
40282057 AATATATATA
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40282082 original size:50 final size:50
Alignment explanation
Indices: 40282026--40282209 Score: 295
Period size: 50 Copynumber: 3.7 Consensus size: 50
40282016 TGAACATGCA
40282026 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
40282076 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
*
40282124 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
40282174 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
40282210 GTAGGCGATG
Statistics
Matches: 124, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
47 1 0.01
48 42 0.34
49 4 0.03
50 75 0.60
51 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
Found at i:40282141 original size:98 final size:98
Alignment explanation
Indices: 40282027--40282226 Score: 364
Period size: 98 Copynumber: 2.0 Consensus size: 98
40282017 GAACATGCAT
40282027 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
*
40282092 GAATGGCTAATGTGAAATATGTATGAGATATGC
66 GAATGGCTAATGTGAAATATGTAGGAGATATGC
40282125 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
* * *
40282190 GAATGGCTAGTGTGAAATATGTAGGCGATGTGC
66 GAATGGCTAATGTGAAATATGTAGGAGATATGC
40282223 ATAT
1 ATAT
40282227 ATTGTGGCCG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (98 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTAGGAGATATGC
Found at i:40282405 original size:37 final size:36
Alignment explanation
Indices: 40282355--40282464 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 36
40282345 TGGAAATATA
40282355 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATT-T
40282392 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
40282428 TCTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 T-TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
40282465 CGTTTGAGCT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 2 0.03
37 68 0.97
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (36 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:40288494 original size:216 final size:216
Alignment explanation
Indices: 40288113--40288543 Score: 729
Period size: 216 Copynumber: 2.0 Consensus size: 216
40288103 AAATTTCTGC
* * * * *
40288113 GATATGACCCGAGGAAGATGATGATCCCTTCCTGTTCTTTGAAATAGAGATGGCGGCTTTCTTTC
1 GATAGGACCCGAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTC
40288178 CTCGTGAAGACGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGG
66 CTCGTGAAGACGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGG
* * *
40288243 TAAGATGAAACAATTTTAAAAAGGCAAATGTAATAAATTAAAATTAATAATCTTAGTCATAACTA
131 TAAGATGAAACAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTA
*
40288308 CTAGCAAACTAAATAAAAAAT
196 CTAGAAAACTAAATAAAAAAT
* *
40288329 GATAGGACCCGAGGAAGATGATGATCCCTTCCTGTTCTTCGAAGTAGGGACGACGACTTTCTTTC
1 GATAGGACCCGAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTC
*
40288394 CTCGTGAAGACGACATAGTATACCTGTAAGCAAAACCATTAATTTTTCGTGATGAATGTTCAAGG
66 CTCGTGAAGACGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGG
40288459 TAAGATGAAAACAAATTT-AAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACT
131 TAAGATG-AAACAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACT
*
40288523 ACTAGAAAACTAAATCAAAAA
195 ACTAGAAAACTAAATAAAAAA
40288544 CGATTAATTT
Statistics
Matches: 201, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
216 192 0.96
217 9 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
GATAGGACCCGAGGAAGATGATGATCCCTTCCTGTTCTTCGAAATAGAGACGACGACTTTCTTTC
CTCGTGAAGACGACATAGTATACCTGTAAGCAAAACCATTAATTTGTCGTGATGAATGTTCAAGG
TAAGATGAAACAAATTTAAAAAGGAAAAAGTAATAAATTAAAATTAATAATCTTAGTCATAACTA
CTAGAAAACTAAATAAAAAAT
Found at i:40289147 original size:13 final size:13
Alignment explanation
Indices: 40289129--40289153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40289119 GTTGGTGCAG
40289129 ACGGCCGTGTCGC
1 ACGGCCGTGTCGC
40289142 ACGGCCGTGTCG
1 ACGGCCGTGTCG
40289154 TCTTTGTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
ACGGCCGTGTCGC
Found at i:40296576 original size:53 final size:54
Alignment explanation
Indices: 40296382--40296587 Score: 211
Period size: 55 Copynumber: 3.8 Consensus size: 54
40296372 AGGGTTTCAA
* * * * *
40296382 GATACCATGTATGACCATGCCAAGGCATGGAAATTGGTAAGGT-TACTAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAAGTTCTA-TAAGGCAAG
* *
40296437 GATACCATGTAAGACCATGTCAAAGACATGGCATTGATAAGCTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAG-TTCTATAAGGC-AAG
* * * * *
40296494 G-TCCCACGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAG
* * *
40296546 GATACCATGTAAGACCATGTCGAGATATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
40296588 TCAAAAGGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 2 0.02
55 43 0.35
56 30 0.24
57 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGCAAG
Found at i:40303529 original size:55 final size:54
Alignment explanation
Indices: 40303442--40303675 Score: 245
Period size: 55 Copynumber: 4.4 Consensus size: 54
40303432 ATTAGGGTTT
* * *
40303442 AAGGATACCATGTAAGACCAGGCCAAGGCATGGCAATTGGTAAGGTT-ACTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTCA-TAAGGA
* *
40303497 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT-C-ATAAGG-A
* * *
40303553 AAGG-TCCCATGTAAGACCATGCCAAGGA-ATGGC-ATTGATGAGTTCATAAGGA
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATTGGTAAGTTCATAAGGA
* *
40303605 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTT--TAA--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTCATAAGGA
*
40303654 AAGGATACCATGTAATACCATG
1 AAGGATACCATGTAAGACCATG
40303676 AAAAGTCATG
Statistics
Matches: 156, Mismatches: 14, Indels: 24
0.80 0.07 0.12
Matches are distributed among these distances:
49 22 0.14
51 3 0.02
52 7 0.04
53 39 0.25
54 10 0.06
55 68 0.44
56 7 0.04
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTCATAAGGA
Found at i:40303909 original size:16 final size:16
Alignment explanation
Indices: 40303888--40303918 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40303878 GTAAATTTGA
40303888 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40303904 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40303919 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40324066 original size:100 final size:99
Alignment explanation
Indices: 40323877--40324108 Score: 301
Period size: 100 Copynumber: 2.3 Consensus size: 99
40323867 TGTGCCAACG
* *
40323877 CATGTCCAAGACATGGTCTTACACTGGCT-TACA-CATCATAGTCAATGCCATGTCCCAGACGTG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATCATCATAGTCAATGCCATGTCCCAGACATG
*
40323940 GTCTTACACAGACTCTGGTATATCGAGGCCGATGC
65 GTCTTACACAGACTCTCGTATATCGAGGCCGATGC
* **
40323975 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGT-GTTGATGCCATGTCCCAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATC-ATC-ATAGTCAATGCCATGTCCCAGACAT
* *
40324039 GGTCTTACACTAG-CTCTCGTATCTCGAGGTCGATGC
64 GGTCTTACAC-AGACTCTCGTATATCGAGGCCGATGC
* * *
40324075 TATGTCCCAAACATGGTCTTACACTAGCTCTCAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT
40324109 ATCTCCCTAG
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
98 30 0.25
99 2 0.02
100 83 0.70
101 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (99 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATCATCATAGTCAATGCCATGTCCCAGACATGG
TCTTACACAGACTCTCGTATATCGAGGCCGATGC
Found at i:40324113 original size:50 final size:50
Alignment explanation
Indices: 40323877--40324110 Score: 255
Period size: 50 Copynumber: 4.7 Consensus size: 50
40323867 TGTGCCAACG
* * * *
40323877 CATGTCCAAGACATGGTCTTACACTGGCT-TACACATCAT--A-GTCAATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATAT-ATCGAGGTCGATGC
* ** *
40323925 CATGTCCCAGACGTGGTCTTACAC-AGACTCTGGTATATCGAGGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGTCGATGC
* * *
40323975 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG-GTCGATGC
* *
40324025 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCTCGAGGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGTCGATGC
* *
40324075 TATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
40324111 CTCCCTAGCA
Statistics
Matches: 155, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
47 3 0.02
48 26 0.17
49 3 0.02
50 121 0.78
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGTCGATGC
Found at i:40326784 original size:15 final size:15
Alignment explanation
Indices: 40326749--40326793 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
40326739 CAAAGATAAC
*
40326749 AAGAAAACCAAG-TA
1 AAGAAATCCAAGATA
40326763 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
40326778 GAGAAATCCCAAGATA
1 AAGAAAT-CCAAGATA
40326794 CGATACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 11 0.41
15 8 0.30
16 8 0.30
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:40329689 original size:47 final size:46
Alignment explanation
Indices: 40329571--40329696 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
40329561 TGATGGTTGA
* *
40329571 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GGATGCGAAT
*
40329619 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAA-T
40329662 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
40329697 CCTATGGGCG
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 30 0.43
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAAT
Found at i:40337154 original size:46 final size:46
Alignment explanation
Indices: 40337104--40337279 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
40337094 TGGTTGAGCA
40337104 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40337150 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40337195 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40337243 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40337280 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40337260 original size:93 final size:93
Alignment explanation
Indices: 40337101--40337272 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
40337091 GGATGGTTGA
*
40337101 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
40337166 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
40337194 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
40337258 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
40337273 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 1 0.01
93 75 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40339953 original size:39 final size:39
Alignment explanation
Indices: 40339910--40340025 Score: 160
Period size: 39 Copynumber: 3.0 Consensus size: 39
40339900 CCGGACATAT
* * * *
40339910 TTCCAGCACGTAGCCTGCAGACCTTAGGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGTCCAGATATAA
* *
40339949 TTCCAGCACATAGCCTGCGGAGCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCAGACCTTAAGTCCAGATATAA
* *
40339988 TTCCAGCACATAGCCTGTAGACCTTAAGTTCAGATATA
1 TTCCAGCACATAGCCTGCAGACCTTAAGTCCAGATATA
40340026 CTTCATCACT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCTTAAGTCCAGATATAA
Found at i:40344785 original size:40 final size:40
Alignment explanation
Indices: 40344740--40345089 Score: 592
Period size: 40 Copynumber: 8.8 Consensus size: 40
40344730 CAAGCTCAAT
* * * *
40344740 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
40344780 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
40344820 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
40344860 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
40344900 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
40344940 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGTACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
40344980 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
40345020 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
40345060 TGCCTTCGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
40345090 TTGCTCATGC
Statistics
Matches: 297, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 297 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:40351457 original size:39 final size:39
Alignment explanation
Indices: 40351426--40351529 Score: 172
Period size: 39 Copynumber: 2.7 Consensus size: 39
40351416 CCAACACGTC
*
40351426 GCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACATA
1 GCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATA
* *
40351465 GCCTGCGGACCTTAAGTCTGGATATAATTCTAGCACATA
1 GCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATA
*
40351504 GCCTGCAGACCTTAAGTCCGGATATA
1 GCCTGCGGACCTTAAGTCCGGATATA
40351530 CTTCATCACT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
GCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATA
Found at i:40355783 original size:50 final size:50
Alignment explanation
Indices: 40355663--40355901 Score: 250
Period size: 50 Copynumber: 4.8 Consensus size: 50
40355653 AGGTGTCGAC
* * * * * * * *
40355663 GCCATGTCCCAGACATGGTCTTACATTGGCTCACACA--TCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
** * * * *
40355711 GCCATGTCCTTGACATGGTCTTACAGTGGCTCTCATCTATCG-GTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCAAT
** *
40355761 GCCATGTCCCAGACATTTTCTTACACTAGCTCTAATATCTCGAGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
* * * *
40355811 GCCATGTTCCAGTCATGGTCTTACACTAGCTCTCATATCTCGAGGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
*
40355861 GCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATCTC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
40355902 CCTAGCATAA
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
48 31 0.20
50 126 0.80
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
Found at i:40359202 original size:30 final size:30
Alignment explanation
Indices: 40359168--40359228 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40359158 TCCTTAACTC
40359168 AAACTTTGGGAAAATTACAATTTTGCCCCT
1 AAACTTTGGGAAAATTACAATTTTGCCCCT
* * * * *
40359198 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTGGGAAAATTACAATTTTGCCCCT
40359228 A
1 A
40359229 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:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (30 bp):
AAACTTTGGGAAAATTACAATTTTGCCCCT
Found at i:40361631 original size:20 final size:19
Alignment explanation
Indices: 40361608--40361645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
40361598 CATTTTCCAA
40361608 ATCATAAAACATTATAACAC
1 ATCATAAAACA-TATAACAC
*
40361628 ATCATAAACCATATAACA
1 ATCATAAAACATATAACA
40361646 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
ATCATAAAACATATAACAC
Found at i:40361636 original size:19 final size:20
Alignment explanation
Indices: 40361608--40361645 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40361598 CATTTTCCAA
40361608 ATCATAAAA-CATTATAACAC
1 ATCATAAAACCA-TATAACAC
40361628 ATCAT-AAACCATATAACA
1 ATCATAAAACCATATAACA
40361646 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
ATCATAAAACCATATAACAC
Found at i:40362404 original size:43 final size:41
Alignment explanation
Indices: 40362355--40362449 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 41
40362345 TCCCGGATAT
* **
40362355 GGTCTTACATGTTATCACATTTCGATGCCTCTGTCCCAGACAG
1 GGTCTTACAT-TT-TCACACTTCGATGCCAATGTCCCAGACAG
* * *
40362398 GGTCTTAAACATTTTCTCACTTCGATGCCAATGTCCTAGACAT
1 GGTCTT--ACATTTTCACACTTCGATGCCAATGTCCCAGACAG
40362441 GGTCTTACA
1 GGTCTTACA
40362450 CGAATCACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
41 3 0.07
43 35 0.80
44 2 0.05
45 4 0.09
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (41 bp):
GGTCTTACATTTTCACACTTCGATGCCAATGTCCCAGACAG
Found at i:40363548 original size:14 final size:14
Alignment explanation
Indices: 40363529--40363555 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40363519 TTAAACAACC
40363529 AATCAAAAAAATTA
1 AATCAAAAAAATTA
40363543 AATCAAAAAAATT
1 AATCAAAAAAATT
40363556 TCACACATAT
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AATCAAAAAAATTA
Found at i:40368917 original size:28 final size:28
Alignment explanation
Indices: 40368885--40368954 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
40368875 AATGAGATTG
40368885 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
40368913 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
40368941 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40368955 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:40386652 original size:27 final size:27
Alignment explanation
Indices: 40386583--40386696 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
40386573 TGGATAAGTT
* *
40386583 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCTTGTAGG
*
40386610 ATAG-AATACCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCTTGTAGG
* *
40386636 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCTTGTAGG
* * * *
40386663 GTAGGATTACCGAGATACCCTTGTGGG
1 GTAGAAATACCGAAATACCCTTGTAGG
40386690 GTA-AAAT
1 GTAGAAAT
40386697 TACCATTTTC
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 25 0.35
27 47 0.65
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (27 bp):
GTAGAAATACCGAAATACCCTTGTAGG
Found at i:40388224 original size:19 final size:19
Alignment explanation
Indices: 40388200--40388238 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40388190 ACATAAACTC
40388200 TAATTCAATTCAGTAGACT
1 TAATTCAATTCAGTAGACT
**
40388219 TAATTCAATTTTGTAGACT
1 TAATTCAATTCAGTAGACT
40388238 T
1 T
40388239 TCAAATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (19 bp):
TAATTCAATTCAGTAGACT
Found at i:40396284 original size:39 final size:40
Alignment explanation
Indices: 40396168--40396348 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
40396158 GCTACTCGTT
*
40396168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
40396208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40396248 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
40396287 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
40396328 CAAA-GCCTTCTGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
40396349 TGGACATCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40396312 original size:79 final size:80
Alignment explanation
Indices: 40396135--40396318 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
40396125 GAATCACGTA
* * ** * *
40396135 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATATAG-TGACTCGCACCAATGCCTTCGGGACATAGCCCGGATATA
40396198 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
40396214 CCTTCGGGACTTAACCCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGGACTTAACCCGGATATAGTGACTCGCACCAATGCCTTCGGGACATAGCCCGGATA-TA
40396277 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
**
40396293 CCTTC-GGATCTTAGTCCGGATATAGT
1 CCTTCGGGA-CTTAACCCGGATATAGT
40396319 CACTTAGCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.04
79 59 0.66
80 27 0.30
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTGACTCGCACCAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:40396336 original size:79 final size:79
Alignment explanation
Indices: 40396168--40396348 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 79
40396158 GCTACTCGTT
* *
40396168 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
40396233 ATTTAGTGACTCGCAC
64 ATATAGTCACTAGCAC
* **
40396249 CAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
40396312 ATATAGTCACTTAGCA-
64 ATATAGTCAC-TAGCAC
*
40396328 CAAAGCCTTCTGGACTTAGCC
1 CAAAGCCTTC-GGGCTTAGCC
40396349 TGGACATCAT
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 4 0.05
79 57 0.66
80 22 0.26
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTAGCAC
Found at i:40401768 original size:40 final size:40
Alignment explanation
Indices: 40401676--40401770 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
40401666 TGACTATGTT
*
40401676 TGGCACTAAGTGAGCGGTTCGAAATAGCTTTGGCTATAAA
1 TGGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTATAAA
* *
40401716 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTTGGCTATATGA
1 TGGCACTAAGTGTGCG-GTTCGAAATAGCTTTGGCTATA-AA
40401757 -GGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
40401771 AATACCAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTATAAA
Found at i:40406576 original size:15 final size:15
Alignment explanation
Indices: 40406548--40406581 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
40406538 TGGACCCACT
40406548 ACATAATAAAAATTA
1 ACATAATAAAAATTA
* *
40406563 ACATATTAATAATTA
1 ACATAATAAAAATTA
40406578 ACAT
1 ACAT
40406582 GAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
ACATAATAAAAATTA
Found at i:40412805 original size:13 final size:13
Alignment explanation
Indices: 40412787--40412814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40412777 ACATATTATA
40412787 AATATTTTGTGTT
1 AATATTTTGTGTT
40412800 AATATTTTGTGTT
1 AATATTTTGTGTT
40412813 AA
1 AA
40412815 AAATAATAAA
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:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:40412836 original size:23 final size:23
Alignment explanation
Indices: 40412810--40412853 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
40412800 AATATTTTGT
40412810 GTTAAAAATAATA-AAATAAAAGG
1 GTTAAAAATAA-AGAAATAAAAGG
**
40412833 GTTAGTAATAAAGAAATAAAA
1 GTTAAAAATAAAGAAATAAAA
40412854 ATTGGGGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.23
Consensus pattern (23 bp):
GTTAAAAATAAAGAAATAAAAGG
Found at i:40414280 original size:40 final size:40
Alignment explanation
Indices: 40414232--40414397 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
40414222 GGACTAAGAT
40414232 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
40414272 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
40414312 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
40414352 TCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
*
40414391 CTGAAGG
1 CCGAAGG
40414398 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.11
40 101 0.87
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:40416439 original size:43 final size:43
Alignment explanation
Indices: 40416270--40416440 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
40416260 ATAGGATTTA
* *
40416270 GATATGTGATTTCATGTAAGACCACATCTGGGACATTGGCATC
1 GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCATC
* * * * ** * *
40416313 GAT-TTGAGATTTACGTATAAAACCATGTCTGGGACATCGACATC
1 GATATT-TGA-TTACATGTAAGACCACATCTGGGACATTGGCATC
* * * *
40416357 G-TATTTGATTTCATGTAAGACC-CTATCTAGGATAGTGGCATC
1 GATATTTGATTACATGTAAGACCAC-ATCTGGGACATTGGCATC
* *
40416399 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCAT
40416441 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 24 0.26
43 40 0.43
44 30 0.32
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCATC
Found at i:40424694 original size:29 final size:28
Alignment explanation
Indices: 40424668--40424723 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
40424658 ATATTTATGT
40424668 GGCCCATTAGGCCCAAATCACCATTATAC
1 GGCCCATTAGGCCCAAATCACC-TTATAC
*
40424697 GGCCCGTTAGGCCCAAATCACCTTATA
1 GGCCCATTAGGCCCAAATCACCTTATA
40424724 TTCATGCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (28 bp):
GGCCCATTAGGCCCAAATCACCTTATAC
Found at i:40427346 original size:93 final size:93
Alignment explanation
Indices: 40427231--40427402 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
40427221 CGCCCATAAG
* * * *
40427231 CGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
40427296 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
40427324 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
40427389 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40427403 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40427399 original size:46 final size:46
Alignment explanation
Indices: 40427224--40427399 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
40427214 TGTAACCCGC
* * * *
40427224 CCATAAGCGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
40427270 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
40427320 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
40427363 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40427400 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:40434452 original size:93 final size:93
Alignment explanation
Indices: 40434337--40434508 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
40434327 CGCCCATAAG
* * * *
40434337 CGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
40434402 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
40434430 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
40434495 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40434509 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40434505 original size:46 final size:46
Alignment explanation
Indices: 40434330--40434505 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
40434320 TGTAACCCGC
* * * *
40434330 CCATAAGCGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
40434376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
40434426 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
40434469 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40434506 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:40441520 original size:26 final size:28
Alignment explanation
Indices: 40441478--40441533 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
40441468 TTTATTTATC
40441478 TTCTTTAAGTACTTTTT-ATTTTA-TTT
1 TTCTTTAAGTACTTTTTAATTTTAGTTT
*
40441504 TTCTTTAA-TATTATTTTAATTTTAGTTT
1 TTCTTTAAGTACT-TTTTAATTTTAGTTT
40441532 TT
1 TT
40441534 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 12 0.46
27 6 0.23
28 5 0.19
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (28 bp):
TTCTTTAAGTACTTTTTAATTTTAGTTT
Found at i:40445467 original size:22 final size:21
Alignment explanation
Indices: 40445407--40445468 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
40445397 CACTAGAAAT
40445407 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
**
40445428 AGGGGCACATTCCCGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
40445449 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
40445469 ACCAATTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.19, C:0.27, G:0.40, T:0.13
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGA
Found at i:40446770 original size:99 final size:96
Alignment explanation
Indices: 40446591--40446772 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 96
40446581 GGGGTTGAAT
* * *
40446591 GCCAACACCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCAACACCACGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
40446656 ACATGGACTTACACTGACTTTCGTCATCGAG
66 ACATGGACTTACACTGACTTTCGTCATCGAG
* * *
40446687 GCCAACGCCACGTCCCAGACATGGTCTTACACTAGCTGTGACATATCT-ATGCCGATGCCATGTC
1 GCCAACACCACGTCCCAAACATGGTCTTACACTAGC--T--CATATCTCAAGCCGATGCCATGTC
* *
40446751 CCAGACTTGGTCTTACACTGAC
62 CCAGACATGGACTTACACTGAC
40446773 ACATCTCGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
96 32 0.43
98 1 0.01
99 34 0.46
100 7 0.09
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (96 bp):
GCCAACACCACGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
ACATGGACTTACACTGACTTTCGTCATCGAG
Found at i:40446842 original size:46 final size:46
Alignment explanation
Indices: 40446786--40446912 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 46
40446776 TCTCGTAGCC
* * *
40446786 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCAAGGGT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAGAGT
* *
40446832 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATATT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGAGT
*
40446878 GATGCCATGTCCCAAACATGGTCTTACACTAGCTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
40446913 ATGATAACCC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 43 0.60
47 14 0.19
48 15 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGAGT
Found at i:40453131 original size:22 final size:22
Alignment explanation
Indices: 40453106--40453184 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
40453096 ACACAGTGGC
40453106 ACACGCCCGTGTGGAAGGGGCA
1 ACACGCCCGTGTGGAAGGGGCA
40453128 ACACGCCCGTGTTGG-AGGGGCA
1 ACACGCCCGTG-TGGAAGGGGCA
*
40453150 ACACGCCTGTGTGGAAGGGGCA
1 ACACGCCCGTGTGGAAGGGGCA
40453172 ACACGCCCGTGTG
1 ACACGCCCGTGTG
40453185 ACCAATTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 3 0.06
22 47 0.89
23 3 0.06
ACGTcount: A:0.20, C:0.28, G:0.39, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGGAAGGGGCA
Found at i:40466286 original size:13 final size:13
Alignment explanation
Indices: 40466268--40466296 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40466258 TTTAGTTTAA
40466268 TTAGTTAATTAGT
1 TTAGTTAATTAGT
40466281 TTAGTTAATTAGT
1 TTAGTTAATTAGT
40466294 TTA
1 TTA
40466297 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:40472854 original size:13 final size:13
Alignment explanation
Indices: 40472836--40472864 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40472826 TTTATTTTAA
40472836 TTAGTTAATTAGT
1 TTAGTTAATTAGT
40472849 TTAGTTAATTAGT
1 TTAGTTAATTAGT
40472862 TTA
1 TTA
40472865 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:40475721 original size:9 final size:9
Alignment explanation
Indices: 40475652--40475856 Score: 75
Period size: 9 Copynumber: 22.3 Consensus size: 9
40475642 AAGAAATATT
40475652 AAAATATATA
1 AAAAT-TATA
*
40475662 AAAGTTCA-A
1 AAAATT-ATA
40475671 AAAATTAT-
1 AAAATTATA
*
40475679 TAAATTATTA
1 AAAATTA-TA
40475689 TAAAATTATA
1 -AAAATTATA
* *
40475699 GAAAACTACAA
1 -AAAATTA-TA
40475710 AAAATTATA
1 AAAATTATA
*
40475719 AAAATCATA
1 AAAATTATA
* *
40475728 TAAATTGTA
1 AAAATTATA
*
40475737 AAAAGTATA
1 AAAATTATA
**
40475746 TGAATTATGA
1 AAAATTAT-A
*
40475756 AGAA-TA-A
1 AAAATTATA
*
40475763 AAAA-TGTA
1 AAAATTATA
40475771 AAAATTATAA
1 AAAATTAT-A
* *
40475781 AAAAATATTT
1 AAAATTA-TA
40475791 AAAA-TA-A
1 AAAATTATA
40475798 AAAA-TATTA
1 AAAATTA-TA
*
40475807 AATATTAATA
1 AAAATT-ATA
* *
40475817 AAATTTACA
1 AAAATTATA
40475826 AAATATTATA
1 AAA-ATTATA
**
40475836 AAAAGCATA
1 AAAATTATA
40475845 AAAATTATA
1 AAAATTATA
40475854 AAA
1 AAA
40475857 CAAACTAAAA
Statistics
Matches: 143, Mismatches: 36, Indels: 33
0.67 0.17 0.16
Matches are distributed among these distances:
7 11 0.08
8 12 0.08
9 63 0.44
10 48 0.34
11 9 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:40475730 original size:39 final size:38
Alignment explanation
Indices: 40475651--40475731 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
40475641 AAAGAAATAT
* * * * *
40475651 TAAAATATATAAAAGTTCAAAAAATTATTAAATTATTA
1 TAAAATATAGAAAACTACAAAAAATTATAAAATCATTA
40475689 TAAAATTATAGAAAACTACAAAAAATTATAAAAATCA-TA
1 TAAAA-TATAGAAAACTACAAAAAATTAT-AAAATCATTA
40475728 TAAA
1 TAAA
40475732 TTGTAAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 5 0.14
39 26 0.72
40 5 0.14
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (38 bp):
TAAAATATAGAAAACTACAAAAAATTATAAAATCATTA
Found at i:40475882 original size:21 final size:19
Alignment explanation
Indices: 40475825--40475882 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
40475815 TAAAATTTAC
**
40475825 AAAATATTATAAAAAGCA-T
1 AAAA-ATTATAAAAAAAACT
*
40475844 AAAAATTATAAAACAAACT
1 AAAAATTATAAAAAAAACT
40475863 AAAAATATATGAAAAAAAAC
1 AAAAAT-TAT-AAAAAAAAC
40475883 ATTTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.31
19 11 0.34
20 3 0.09
21 8 0.25
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATTATAAAAAAAACT
Found at i:40476100 original size:11 final size:11
Alignment explanation
Indices: 40476079--40476124 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
40476069 ATTTTAAATA
40476079 TTTTTAT-TTT
1 TTTTTATATTT
*
40476089 TTTTTGTA-TT
1 TTTTTATATTT
* *
40476099 TTTATATAATT
1 TTTTTATATTT
40476110 TTTTTATATTT
1 TTTTTATATTT
40476121 TTTT
1 TTTT
40476125 CACTTTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 14 0.48
11 15 0.52
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATATTT
Found at i:40476175 original size:17 final size:16
Alignment explanation
Indices: 40476149--40476183 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
40476139 TTATAATAAC
*
40476149 TTTAATAATTTTCTATA
1 TTTAAAAATTTTC-ATA
40476166 TTTAAAAATTTTCATA
1 TTTAAAAATTTTCATA
40476182 TT
1 TT
40476184 CTTTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAAATTTTCATA
Found at i:40476260 original size:20 final size:20
Alignment explanation
Indices: 40476237--40476274 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40476227 TATTTTCATA
40476237 ATTTAT-ATATATTTTTATTC
1 ATTTATAATA-ATTTTTATTC
40476257 ATTTATAATAATTTTTAT
1 ATTTATAATAATTTTTAT
40476275 AGTTTTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTATAATAATTTTTATTC
Found at i:40476280 original size:29 final size:28
Alignment explanation
Indices: 40476234--40476301 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
40476224 TCCTATTTTC
* * *
40476234 ATAATTTATATATATTTTTATTCATTTATA
1 ATAATTT-T-TATATTTTGAGTAATTTATA
40476264 ATAATTTTTATAGTTTTGAGTAATTTATA
1 ATAATTTTTATA-TTTTGAGTAATTTATA
40476293 ATAATTTTT
1 ATAATTTTT
40476302 TATAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 7 0.21
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
ATAATTTTTATATTTTGAGTAATTTATA
Found at i:40479756 original size:24 final size:24
Alignment explanation
Indices: 40479724--40479788 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
40479714 GAAAAATAAT
* *
40479724 AAAAGGAATAAATTTGTGTACAAA
1 AAAATGAATAAATTTGTCTACAAA
* * *
40479748 AAAATGAATGAACTTGTCTACATA
1 AAAATGAATAAATTTGTCTACAAA
40479772 AAAATGAATAAATTTGT
1 AAAATGAATAAATTTGT
40479789 TAACGAGGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (24 bp):
AAAATGAATAAATTTGTCTACAAA
Found at i:40482790 original size:68 final size:64
Alignment explanation
Indices: 40482666--40482816 Score: 146
Period size: 68 Copynumber: 2.3 Consensus size: 64
40482656 ATACAGATAG
* * * *
40482666 TATGTAGCTAGGTCACATGTATGGTACTGAGTGCACATCATGTGTACAAGAAAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTGAGTGCACACCATGTGTACAAGAAAGCTAC--GACA-
40482731 TA
63 TA
* * **
40482733 TGATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAA-AAGAGCTACGGG
1 T-ATGTAGCTAGGTCGCATGGATGATACTGA-GTGCACACCATGT-GTACAAGAA-AGCTACGAC
40482795 ATA
62 ATA
40482798 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
40482817 CATGGTTCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
64 18 0.25
65 3 0.04
66 2 0.03
67 4 0.06
68 44 0.61
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTGAGTGCACACCATGTGTACAAGAAAGCTACGACATA
Found at i:40482815 original size:64 final size:64
Alignment explanation
Indices: 40482735--40482918 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
40482725 AGACATTATG
* * * *
40482735 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
40482799 ATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
40482864 AA
63 AA
* * * *
40482866 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTATACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAGACAAGAGAGC
40482919 CGAACTATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
63 20 0.21
64 24 0.25
66 20 0.21
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:40486009 original size:24 final size:25
Alignment explanation
Indices: 40485982--40486058 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
40485972 GCCTAGCCTC
*
40485982 TTTTAAT-AACTGGGGCAAAGCCTT
1 TTTTAATAAACTGGGGCAAAGCCCT
* *
40486006 TTTTGATAAACTGAGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * *
40486031 TTTCAGTAAACTGGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
40486056 TTT
1 TTT
40486059 ATCTCTTCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 6 0.14
25 38 0.86
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:40486913 original size:27 final size:27
Alignment explanation
Indices: 40486854--40486915 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
40486844 CATATTCGTT
*
40486854 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACGATC
* *
40486881 ACTTTACCCTACAGGGGCT-TTACGATC
1 ATTTTACCATACAGGGG-TATTACGATC
*
40486908 TTTTTACC
1 ATTTTACC
40486916 TATTAAGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGATC
Found at i:40487046 original size:29 final size:28
Alignment explanation
Indices: 40486969--40487076 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 28
40486959 GTAAATCTAC
*
40486969 AAACCAAGGGTATTTCAGTAA-TTTTGT
1 AAACCAAGGGTATTTCTGTAATTTTTGT
* * *
40486996 AAACCAATGGCATTTCTATAATTTTTAG-
1 AAACCAAGGGTATTTCTGTAATTTTT-GT
*
40487024 AAAGTCAAGGGTATTTCTGTAA-TTTTGT
1 AAA-CCAAGGGTATTTCTGTAATTTTTGT
*
40487052 AAATC-AGAGGTATTT-TGGTAATTTT
1 AAACCAAG-GGTATTTCT-GTAATTTT
40487077 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
26 3 0.05
27 31 0.47
28 17 0.26
29 15 0.23
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTGTAATTTTTGT
Found at i:40487074 original size:56 final size:54
Alignment explanation
Indices: 40486966--40487130 Score: 147
Period size: 54 Copynumber: 3.0 Consensus size: 54
40486956 TTGGTAAATC
* * *
40486966 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA-ATGGCATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGA-GGTATTT-TGGTAATTTT
* *
40487021 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGAGGTATTTTGGTAATTTT
** * *** *
40487076 TACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTGGTAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAAC-AGAGGTATTTTGGTAATTTT
40487131 AAAAACTAGG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 1 0.01
54 36 0.40
55 17 0.19
56 36 0.40
57 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACAGAGGTATTTTGGTAATTTT
Found at i:40487082 original size:27 final size:28
Alignment explanation
Indices: 40487033--40487156 Score: 125
Period size: 27 Copynumber: 4.6 Consensus size: 28
40487023 GAAAGTCAAG
**
40487033 GGTATTTCT-GTAATTTTGTAAATC-AGA
1 GGTATTT-TGGTAATTTTACAAATCTAGA
40487060 GGTATTTTGGTAATTTTACAAAT-T-GA
1 GGTATTTTGGTAATTTTACAAATCTAGA
* * *
40487086 GGGTATTTCGGTAATTTCACAAA-CTAGT
1 -GGTATTTTGGTAATTTTACAAATCTAGA
* *
40487114 GGTATTTTGGTAATTTTA-AAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCTAGA
40487141 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
40487157 GTAACAAGTA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
26 6 0.07
27 76 0.92
28 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (28 bp):
GGTATTTTGGTAATTTTACAAATCTAGA
Found at i:40487255 original size:54 final size:54
Alignment explanation
Indices: 40487170--40487272 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
40487160 ACAAGTATTA
40487170 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
* *
40487224 GTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
40487273 CTTTAGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
Found at i:40487282 original size:54 final size:54
Alignment explanation
Indices: 40487166--40487283 Score: 173
Period size: 54 Copynumber: 2.2 Consensus size: 54
40487156 TGTAACAAGT
40487166 ATTAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
1 ATTAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
*** * * *
40487220 AACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAC
1 ATTAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
*
40487274 TTTAGTAATT
1 ATTAGTAATT
40487284 TTACAAATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (54 bp):
ATTAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAA
Found at i:40487283 original size:27 final size:27
Alignment explanation
Indices: 40487168--40487272 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
40487158 TAACAAGTAT
*
40487168 TAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
40487195 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
** * *
40487222 CGGTAATTCTGTAAATTGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
40487249 TGGTAATTCTATAAATCGAGGGTA
1 TAGTAATTCTATAAATCGAGGGTA
40487273 CTTTAGTAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:40487291 original size:27 final size:27
Alignment explanation
Indices: 40487251--40487311 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
40487241 GGGTAAAATG
* * **
40487251 GTAATTCTATAAATCGAGGGTACTTTA
1 GTAATTTTACAAATCGAGGACACTTTA
* *
40487278 GTAATTTTACAAATTGAGGACATTTTA
1 GTAATTTTACAAATCGAGGACACTTTA
40487305 GTAATTT
1 GTAATTT
40487312 GGTAAACTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGACACTTTA
Found at i:40487292 original size:54 final size:54
Alignment explanation
Indices: 40487169--40487296 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
40487159 AACAAGTATT
** *
40487169 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTACAAATTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
* ** * ****
40487223 GGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTCTACAAATTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
*
40487277 AGTAATTTTACAAATTGAGG
1 AGTAATTCTACAAATTGAGG
40487297 ACATTTTAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (54 bp):
AGTAATTCTACAAATTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:40502559 original size:42 final size:42
Alignment explanation
Indices: 40502500--40502583 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
40502490 ATTCCTAATT
* * *
40502500 GGGAAAATAGTTCCCTTATTTTAATAAATTGCTAAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
40502542 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
40502584 ACATAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (42 bp):
GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:40502639 original size:19 final size:18
Alignment explanation
Indices: 40502612--40502655 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
40502602 AATATGAATA
*
40502612 AAATCTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
40502630 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
40502649 AAATTTA
1 AAATTTA
40502656 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:40508311 original size:40 final size:39
Alignment explanation
Indices: 40508251--40508461 Score: 205
Period size: 40 Copynumber: 5.3 Consensus size: 39
40508241 TATTCGAATG
*
40508251 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
40508291 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
40508331 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCC-GGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
40508371 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * * **
40508411 ATATCCAGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCC-GGCTAAGATCCGAAGGCATTTATGCTAGTGACT
40508450 ATATCCGGCTAA
1 ATATCCGGCTAA
40508462 ATTCTGAAGA
Statistics
Matches: 145, Mismatches: 19, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
38 6 0.04
39 18 0.12
40 116 0.80
41 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:40508384 original size:80 final size:80
Alignment explanation
Indices: 40508251--40508434 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
40508241 TATTCGAATG
* * * *
40508251 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
40508315 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
40508331 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
40508396 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
40508411 ATATCCAGGCTAAGACCCGAAGGC
1 ATATCCAGGCTAAGACCCGAAGGC
40508435 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCAGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:40508739 original size:22 final size:22
Alignment explanation
Indices: 40508697--40508740 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
40508687 AAAATGTGCA
* *
40508697 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
40508719 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
40508741 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:40510046 original size:19 final size:18
Alignment explanation
Indices: 40510024--40510073 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
40510014 TACTAGAATA
40510024 TAAATAACATTTATCTACC
1 TAAATAA-ATTTATCTACC
40510043 TAAATAAGATTTATCTACC
1 TAAATAA-ATTTATCTACC
40510062 TAAATAAATTTA
1 TAAATAAATTTA
40510074 AAATATATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 5 0.17
19 25 0.83
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAATAAATTTATCTACC
Found at i:40510525 original size:48 final size:47
Alignment explanation
Indices: 40510408--40510529 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
40510398 GATACGTACG
** *
40510408 TATACCATGGCCCGTAGCCAAATCAAGGAAACTTATCCTGAAGTACC
1 TATACCATGGCCCGTAGCCAAATCAAGGAAACTTATCCCAAAATACC
* * * * * *
40510455 TATACAATGACCCATAACCAAATCAAGGTAAC-TATTCTCCAAAATACT
1 TATACCATGGCCCGTAGCCAAATCAAGGAAACTTA-TC-CCAAAATACC
*
40510503 TATACCATGGCCTGTAGCCAAATCAAG
1 TATACCATGGCCCGTAGCCAAATCAAG
40510530 CTATAACTTA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
46 2 0.03
47 29 0.49
48 28 0.47
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (47 bp):
TATACCATGGCCCGTAGCCAAATCAAGGAAACTTATCCCAAAATACC
Found at i:40511356 original size:22 final size:24
Alignment explanation
Indices: 40511310--40511358 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
40511300 GCTGAACCTT
* *
40511310 AGGAGGGGATTGTGGAGAGATTTG
1 AGGAGAGGATTGTGGAGAGAGTTG
40511334 AGGAGAGGATT-TGG-GAGAGTTG
1 AGGAGAGGATTGTGGAGAGAGTTG
40511356 AGG
1 AGG
40511359 TGAGAGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 3 0.13
24 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.51, T:0.22
Consensus pattern (24 bp):
AGGAGAGGATTGTGGAGAGAGTTG
Found at i:40519052 original size:15 final size:16
Alignment explanation
Indices: 40519016--40519052 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
40519006 TTACATTTGT
*
40519016 CTTTTTAGTCCTCTTC
1 CTTTTTAGTCATCTTC
40519032 CTTTTTAGTCATCTTC
1 CTTTTTAGTCATCTTC
40519048 CTTTT
1 CTTTT
40519053 CCTTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.27, G:0.05, T:0.59
Consensus pattern (16 bp):
CTTTTTAGTCATCTTC
Found at i:40519080 original size:23 final size:23
Alignment explanation
Indices: 40519029--40519082 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
40519019 TTTAGTCCTC
*
40519029 TTCC-TTTTTAGTCATCTTCCTT
1 TTCCTTTTTTAGTCATCTTCCCT
40519051 TTCCTTTTTTAGTGCAGT-TTCCCT
1 TTCCTTTTTTAGT-CA-TCTTCCCT
40519075 TT-CTTTTT
1 TTCCTTTTT
40519083 GAGGAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.14
23 14 0.50
24 9 0.32
25 1 0.04
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.61
Consensus pattern (23 bp):
TTCCTTTTTTAGTCATCTTCCCT
Found at i:40525594 original size:54 final size:54
Alignment explanation
Indices: 40525500--40525614 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
40525490 GGTCATTAAG
* *
40525500 ACCCTCGATTTGTAAAATTACTGAAATACCCCTAGGTTGTAAAATTACTGAAAT
1 ACCCTTGATTTGTAAAATTACCGAAATACCCCTAGGTTGTAAAATTACTGAAAT
* * * * *
40525554 ATCCTTGATTTGTGAAATTACCGAAATACCCTTAGTTTGTAAAATTATTGAAAT
1 ACCCTTGATTTGTAAAATTACCGAAATACCCCTAGGTTGTAAAATTACTGAAAT
40525608 ACCCTTG
1 ACCCTTG
40525615 TAGCATAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (54 bp):
ACCCTTGATTTGTAAAATTACCGAAATACCCCTAGGTTGTAAAATTACTGAAAT
Found at i:40525612 original size:27 final size:27
Alignment explanation
Indices: 40525508--40525613 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
40525498 AGACCCTCGA
*
40525508 TTTGTAAAATTACTGAAATACCCCTAG
1 TTTGTAAAATTACTGAAATACCCTTAG
* *
40525535 GTTGTAAAATTACTGAAATATCCTT-G
1 TTTGTAAAATTACTGAAATACCCTTAG
* *
40525561 ATTTGTGAAATTACCGAAATACCCTTAG
1 -TTTGTAAAATTACTGAAATACCCTTAG
*
40525589 TTTGTAAAATTATTGAAATACCCTT
1 TTTGTAAAATTACTGAAATACCCTT
40525614 GTAGCATAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 65 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCTTAG
Found at i:40525623 original size:27 final size:27
Alignment explanation
Indices: 40525593--40525682 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
40525583 CCTTAGTTTG
* * *
40525593 TAAAATTATTGAAATACCCTTGTAGCA
1 TAAAATGACTGAAATACCCCTGTAGCA
* **
40525620 TAAAATGACTGTAATACCCCTGTAGGG
1 TAAAATGACTGAAATACCCCTGTAGCA
* **
40525647 TAAAATGAC-GATAATACCCCTATAGGG
1 TAAAATGACTGA-AATACCCCTGTAGCA
40525674 TAAAATGAC
1 TAAAATGAC
40525683 GATTACGCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCTGTAGCA
Found at i:40525636 original size:54 final size:53
Alignment explanation
Indices: 40525511--40525640 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 53
40525501 CCCTCGATTT
* *
40525511 GTAAAATTACTGAAATACCCCTAGGTTGTAAAATTACTGAAATATCCTTGATTT
1 GTAAAATTACTGAAATACCCCTAGGTTGTAAAATTACTGAAATACCCTTGA-TA
* * * * *
40525565 GTGAAATTACCGAAATACCCTTAGTTTGTAAAATTATTGAAATACCCTTG-TA
1 GTAAAATTACTGAAATACCCCTAGGTTGTAAAATTACTGAAATACCCTTGATA
* *
40525617 GCATAAAATGACTGTAATACCCCT
1 G--TAAAATTACTGAAATACCCCT
40525641 GTAGGGTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
52 2 0.03
54 60 0.97
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (53 bp):
GTAAAATTACTGAAATACCCCTAGGTTGTAAAATTACTGAAATACCCTTGATA
Found at i:40525683 original size:27 final size:27
Alignment explanation
Indices: 40525620--40525685 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
40525610 CCTTGTAGCA
*
40525620 TAAAATGACTG-TAATACCCCTGTAGGG
1 TAAAATGAC-GATAATACCCCTATAGGG
40525647 TAAAATGACGATAATACCCCTATAGGG
1 TAAAATGACGATAATACCCCTATAGGG
40525674 TAAAATGACGAT
1 TAAAATGACGAT
40525686 TACGCCCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (27 bp):
TAAAATGACGATAATACCCCTATAGGG
Found at i:40525899 original size:26 final size:27
Alignment explanation
Indices: 40525818--40525900 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
40525808 ATGGTGGAAG
* *
40525818 TACTG-TACTGGTGACTATGTCACATT
1 TACTGATACTGGTGGCTATGCCACATT
* * *
40525844 CACT-ATTATTGGTGGCTATGCCACAAT
1 TACTGA-TACTGGTGGCTATGCCACATT
40525871 TACTGATACTGGTGGCT-TGCCACATT
1 TACTGATACTGGTGGCTATGCCACATT
40525897 TACT
1 TACT
40525901 ATTTCTGGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 15 0.33
27 30 0.65
28 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
TACTGATACTGGTGGCTATGCCACATT
Found at i:40525908 original size:26 final size:27
Alignment explanation
Indices: 40525825--40525923 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
40525815 AAGTACTGTA
* * *
40525825 CTGGTGACTATGTCACATTCACTATTAT
1 CTGGTGGCTATGCCACATTTACTATT-T
* *
40525853 -TGGTGGCTATGCCACAATTACTGA-TA
1 CTGGTGGCTATGCCACATTTACT-ATTT
40525879 CTGGTGGCT-TGCCACATTTACTATTT
1 CTGGTGGCTATGCCACATTTACTATTT
** *
40525905 CTGGCAGCTATGCTACATT
1 CTGGTGGCTATGCCACATT
40525924 ATTATCACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
25 1 0.02
26 20 0.35
27 35 0.61
28 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATTTACTATTT
Found at i:40526127 original size:33 final size:33
Alignment explanation
Indices: 40526090--40526186 Score: 97
Period size: 33 Copynumber: 2.9 Consensus size: 33
40526080 GGCCCACACC
* * *
40526090 GTTACTGTATAGGGTTAAAGCTCAGACTGTTCT
1 GTTACTGTATAGGGCTAAAGCCCAGACTATTCT
* *
40526123 GTTACTATATAGGGCTAAGGCCCAGACTATTCT
1 GTTACTGTATAGGGCTAAAGCCCAGACTATTCT
* * * *
40526156 GATACTGGT-TAGAGCTCAGGCCCAGACTATT
1 GTTACT-GTATAGGGCTAAAGCCCAGACTATT
40526187 ATTGCATGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (33 bp):
GTTACTGTATAGGGCTAAAGCCCAGACTATTCT
Found at i:40527553 original size:40 final size:40
Alignment explanation
Indices: 40527499--40527772 Score: 262
Period size: 40 Copynumber: 6.8 Consensus size: 40
40527489 AGATAATTAT
* * * *
40527499 CCCTGATTGAACATACGTACCCCTGTTTGTACTTTAGTAC
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * * * *
40527539 CCCTAATTACACATACATGCCCTTGTTTGTACTTCGATAG
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * * *
40527579 CTCTGATTGCACATACTTGCCCCTATTTTTTACTTTGGTAC
1 CCCTAATTGCACATACGTGCCCCT-GTTTGTACTTTGGTAC
*
40527620 CCCTAATTGCACATACTTGCCCCTGTTTGTACTTTGGTAC
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* *
40527660 CCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * * * * *
40527700 TCTTGATTGGACATATGTGCCCCTATTTGTACTTCGGTAC
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * *
40527740 CTCTGAA-TGCACTTACGTGCCCTTGTTTATACT
1 CCCT-AATTGCACATACGTGCCCCTGTTTGTACT
40527773 CTAGTAACCC
Statistics
Matches: 190, Mismatches: 42, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
40 156 0.82
41 34 0.18
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (40 bp):
CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
Found at i:40527662 original size:20 final size:20
Alignment explanation
Indices: 40527639--40527740 Score: 60
Period size: 20 Copynumber: 5.1 Consensus size: 20
40527629 CACATACTTG
*
40527639 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTAGGTA
* * * * *
40527659 CCCCTGATTGCACATACGTG
1 CCCCTGTTTGTACTTAGGTA
*
40527679 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTAGGTA
* * * * * * *
40527699 CTCTTGATTGGACATATGTG
1 CCCCTGTTTGTACTTAGGTA
* *
40527719 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTAGGTA
40527739 CC
1 CC
40527741 TCTGAATGCA
Statistics
Matches: 53, Mismatches: 29, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTAGGTA
Found at i:40527723 original size:121 final size:120
Alignment explanation
Indices: 40527499--40527783 Score: 342
Period size: 121 Copynumber: 2.4 Consensus size: 120
40527489 AGATAATTAT
* * * *
40527499 CCCTGATTGAACATACGTACCCCTGTTTGTACTTTAGTACCCCTAATTACACATACATGCCCTTG
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTAGTACCCCTAATTACACATACATGCCCCTG
* *
40527564 TTTGTACTTCGATAGCTCTGATTGCACATACTTGCCCCTATTTTTTACTTTGGTAC
66 TTTGTACTTCGATAGCTCTGATTGCACATACTTGCCCCTA-TTTGTACTTCGGTAC
* * * * *
40527620 CCCTAATTGCACATACTTGCCCCTGTTTGTACTTTGGTACCCCTGATTGCACATACGTGCCCCTG
1 CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTAGTACCCCTAATTACACATACATGCCCCTG
* *
40527685 TTTGTACTTCGGTA-CTCTTGATTGGACATA-TGTGCCCCTATTTGTACTTCGGTAC
66 TTTGTACTTCGATAGCTC-TGATTGCACATACT-TGCCCCTATTTGTACTTCGGTAC
* * * * * *
40527740 CTCTGAA-TGCACTTACGTGCCCTTGTTTATACTCTAGTAACCCT
1 CCCT-AATTGCACATACGTGCCCCTGTTTGTACTTTAGTACCCCT
40527784 GAATCAATCA
Statistics
Matches: 140, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
120 50 0.36
121 90 0.64
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (120 bp):
CCCTAATTGCACATACGTGCCCCTGTTTGTACTTTAGTACCCCTAATTACACATACATGCCCCTG
TTTGTACTTCGATAGCTCTGATTGCACATACTTGCCCCTATTTGTACTTCGGTAC
Found at i:40527739 original size:80 final size:79
Alignment explanation
Indices: 40527499--40527772 Score: 296
Period size: 80 Copynumber: 3.4 Consensus size: 79
40527489 AGATAATTAT
* * * * * *
40527499 CCCTGATTGAACATACGTACCCCTGTTTGTACTTTAGTACCCCTAATTACACATACATGCCCTTG
1 CCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAATTGCACATA-TTGCCCCTG
* *
40527564 TTTGTACTTCGATAG
65 TTTGTACTTCGGTAC
* * * *
40527579 CTCTGATTGCACATACTTGCCCCTATTTTTTACTTTGGTACCCCTAATTGCACATACTTGCCCCT
1 CCCTGATTGCACATACGTGCCCCT-GTTTGTACTTTGGTACCCCTAATTGCACATA-TTGCCCCT
*
40527644 GTTTGTACTTTGGTAC
64 GTTTGTACTTCGGTAC
* * * * * *
40527660 CCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACTCTTGATTGGACATATGTGCCCCTA
1 CCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAATTGCACATAT-TGCCCCTG
40527725 TTTGTACTTCGGTAC
65 TTTGTACTTCGGTAC
* * * * *
40527740 CTCTGAATGCACTTACGTGCCCTTGTTTATACT
1 CCCTGATTGCACATACGTGCCCCTGTTTGTACT
40527773 CTAGTAACCC
Statistics
Matches: 163, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
79 1 0.01
80 93 0.57
81 69 0.42
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.38
Consensus pattern (79 bp):
CCCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAATTGCACATATTGCCCCTGT
TTGTACTTCGGTAC
Found at i:40534447 original size:48 final size:48
Alignment explanation
Indices: 40534351--40534944 Score: 871
Period size: 48 Copynumber: 12.4 Consensus size: 48
40534341 TGTAGTGAAT
*
40534351 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
*
40534401 ATGTGAAATATGTATGACATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
40534449 ATGTGAAATAAGTATGAGATATGTATATGTGGTAAAGTCGAATGCCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * * * *
40534497 CTATGAAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40534545 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40534593 ATGTGAAATATGCATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
40534643 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
40534691 ATGTGAAATATGTAT--G--A-G-ATA--TGGCAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * * *
40534731 CTGTGAAATATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40534779 ATGTGAAATATGCATGAGAAATGTTTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
40534829 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
40534877 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40534925 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
40534945 GTGTGTATAT
Statistics
Matches: 495, Mismatches: 37, Indels: 26
0.89 0.07 0.05
Matches are distributed among these distances:
40 31 0.06
42 4 0.01
43 1 0.00
44 2 0.00
45 1 0.00
46 4 0.01
48 341 0.69
50 111 0.22
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:40534670 original size:98 final size:96
Alignment explanation
Indices: 40534351--40534944 Score: 871
Period size: 98 Copynumber: 6.2 Consensus size: 96
40534341 TGTAGTGAAT
*
40534351 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
*
40534416 GACATATGTATATGTGGTAAAGCCGAATGGCTA
64 GAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * * * * * *
40534449 ATGTGAAATAAGTATGAGATATGTATATGTGGTAAAGTCGAATGCCTACTATGAAAAATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
40534514 GATATGTATATGTGGCAAAGCCGAATGGCTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
40534545 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
40534610 GAAATGTATATATGTGGTAAAGCCGAATGGCTA
66 GATATG--TATATGTGGTAAAGCCGAATGGCTA
40534643 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT--
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
40534706 G--A-G-ATA--TGGCAAAGCCGAATGGCTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTA
* * * * *
40534731 CTGTGAAATATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTAATGTGAAATATGCATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
40534796 GAAATGTTTATATGTGGTAAAGCCGAATGGCTA
66 GATATG--TATATGTGGTAAAGCCGAATGGCTA
40534829 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
40534894 GATATGTATATGTGGTAAAGCCGAATGGCTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40534925 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
40534945 GTGTGTATAT
Statistics
Matches: 444, Mismatches: 40, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
88 76 0.17
90 4 0.01
92 1 0.00
93 2 0.00
94 1 0.00
96 172 0.39
98 188 0.42
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (96 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:40534790 original size:186 final size:185
Alignment explanation
Indices: 40534352--40534899 Score: 855
Period size: 186 Copynumber: 2.9 Consensus size: 185
40534342 GTAGTGAATA
* * *
40534352 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 TGTGAAATATATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATG
* * *
40534417 ACATATG-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAGTATGAGATATGTATATGTGG
64 AGAAATGTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
* * ** * *
40534481 TAAAGTCGAATGCCTACTATGAAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
129 TAAAGCCGAATGGCTA--ATG-TGAA-ATAT--G-TATG-AGATATGGCAAAGCCGAATGGCTAC
40534546 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
40534611 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATGT-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
40534676 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGGCAAAGCCGAATGGCTAC
130 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGGCAAAGCCGAATGGCTAC
* *
40534732 TGTGAAATATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTAATGTGAAATATGCATGAG
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
40534797 AAATGTTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATG-TTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
40534862 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
130 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
40534900 TATATGTGGT
Statistics
Matches: 337, Mismatches: 14, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
186 187 0.55
187 5 0.01
188 1 0.00
190 4 0.01
191 2 0.01
192 48 0.14
194 90 0.27
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (185 bp):
TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
AAATGTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGGCAAAGCCGAATGGCTAC
Found at i:40536822 original size:40 final size:40
Alignment explanation
Indices: 40536446--40536813 Score: 532
Period size: 40 Copynumber: 9.2 Consensus size: 40
40536436 GTTATATAGT
40536446 CGGGCTAAG-TCCTGAAGAGCATTCGTGCT-G--ATGTTATAGC
1 CGGGCTAAGTTCC-GAAGAGCATTCGTGCTAGTAATG-TAT--C
* *
40536486 CGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT--TATATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCT-A-GTAATGTATC
*
40536526 CGAGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
* * *
40536566 CGGGCTAAGTTCCGGAGAGAATTCGTGCTAGTAATCTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
*
40536606 CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTAATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
*
40536646 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
40536686 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
*
40536726 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAATAATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
* *
40536766 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
*
40536806 CAGGCTAA
1 CGGGCTAA
40536814 ACCTCGAAGG
Statistics
Matches: 300, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.00
40 290 0.97
41 2 0.01
42 3 0.01
43 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATC
Found at i:40536882 original size:28 final size:28
Alignment explanation
Indices: 40536841--40536921 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
40536831 GCTAGAGTTA
* *
40536841 TGAGGCACTGTGTGTGCAAGTTCTTCAAC
1 TGAGGCACTATGTGTGCGAGTTCTT-AAC
** *
40536870 TGA-GCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAG-TTCTTAAC
40536898 TGAGGCACTATGTGTGCGAGTTCT
1 TGAGGCACTATGTGTGCGAGTTCT
40536922 CTAATCGAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (28 bp):
TGAGGCACTATGTGTGCGAGTTCTTAAC
Found at i:40536926 original size:29 final size:28
Alignment explanation
Indices: 40536841--40536944 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
40536831 GCTAGAGTTA
* * *
40536841 TGAGGCACTGTGTGTGCAAGTTCTTCAAC
1 TGAGGCACTATGTGTGCGAGTTCTT-AAT
**
40536870 TGA-GCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAG-TTCTTAAT
40536898 TGAGGCACTATGTGTGCGAGTTCTCTAAT
1 TGAGGCACTATGTGTGCGAGTTCT-TAAT
*
40536927 CGAGTG--CTATGTGTGCGA
1 TGAG-GCACTATGTGTGCGA
40536945 AATCAGTCAG
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 33 0.52
29 29 0.46
30 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (28 bp):
TGAGGCACTATGTGTGCGAGTTCTTAAT
Found at i:40540262 original size:48 final size:48
Alignment explanation
Indices: 40540166--40540814 Score: 1030
Period size: 48 Copynumber: 13.4 Consensus size: 48
40540156 TGTAGTGAAT
*
40540166 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
40540216 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
40540264 ATGTGAAATAAGTATGAGATATGTATATGTGGTAAAGTCGAATGCCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * * *
40540312 CTGTGAAA-ATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40540359 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40540407 ATGTGAAATATGCATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
40540457 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
40540505 ATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
40540553 CTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATCGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
40540601 ATGTGAAATATGCATGACAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
40540651 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
40540699 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40540747 ATGTGAAATATGTATGAGATATGTCTATGTGGTAAAGTCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
40540795 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
40540815 GTGTGTATAT
Statistics
Matches: 557, Mismatches: 37, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 41 0.07
48 404 0.73
50 112 0.20
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:40540585 original size:194 final size:194
Alignment explanation
Indices: 40540167--40540806 Score: 1079
Period size: 194 Copynumber: 3.3 Consensus size: 194
40540157 GTAGTGAATA
* * *
40540167 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 TGTGAAATATATATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATG
* *
40540232 AGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAGTATGAGATATGTATATGTG
64 AGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTG
* * * * *
40540295 GTAAAGTCGAATGCCTACTGTGAAA-ATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTA
129 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTA
40540359 C
194 C
40540360 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
40540425 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
40540490 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
131 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
* *
40540554 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGCATGAC
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
40540619 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
40540684 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
131 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
* * * *
40540748 TGTGAAATATGTATGAGATATGTCTATGTGGTAAAGTCGAATGGCTAGTGTGAAATATG
1 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
40540807 TAGGAGATGT
Statistics
Matches: 425, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
191 46 0.11
193 97 0.23
194 282 0.66
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (194 bp):
TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
AAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGCAAAGCCGAATGGCTAC
Found at i:40540824 original size:146 final size:144
Alignment explanation
Indices: 40540166--40540814 Score: 1030
Period size: 146 Copynumber: 4.5 Consensus size: 144
40540156 TGTAGTGAAT
*
40540166 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
*
40540231 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAAGTATGAGATATGTATATGTGG
64 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
* *
40540296 TAAAGTCGAATGCCTA
129 TAAAGCCGAATGGCTA
* * * * * *
40540312 CTGTGAAA-ATATATGAGATATGTATATGTGGCAAAGCTGAATGGCTACTGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
* *
40540376 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGAAATGTATATATGTGG
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATATGTGG
40540441 TAAAGCCGAATGGCTA
129 TAAAGCCGAATGGCTA
40540457 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
* * *
40540522 GATATGTATATGTGGCAAAGCCGAATGGCTACTGTGAAATATATATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
*
40540587 AAGCCGAATCGCTA
131 AAGCCGAATGGCTA
* * *
40540601 ATGTGAAATATGCATGACAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
40540666 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
64 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
40540731 TAAAGCCGAATGGCTA
129 TAAAGCCGAATGGCTA
* * * *
40540747 ATGTGAAATATGTATGAGATATGTCTATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAGGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
40540812 GAT
66 GAT
40540815 GTGTGTATAT
Statistics
Matches: 460, Mismatches: 38, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
143 89 0.19
144 85 0.18
145 42 0.09
146 244 0.53
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (144 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTA
Found at i:40543125 original size:48 final size:48
Alignment explanation
Indices: 40542973--40543146 Score: 179
Period size: 48 Copynumber: 3.6 Consensus size: 48
40542963 TATGTGTGCT
* * * *
40542973 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGA-CATGAGAGCC
* * * * * * * * * *
40543021 AATGTAAGACCATGTCTAGGATATAGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCC
*
40543069 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCC
* *
40543117 AGTCTAAAACCATGTCTGGGACATGACATC
1 AGTGTAAAACCATGTCTGGGACATGGCATC
40543147 AACAATTTAC
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
48 100 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (48 bp):
AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCC
Found at i:40545386 original size:69 final size:70
Alignment explanation
Indices: 40545254--40545386 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
40545244 TAGTTTATTA
* * * *
40545254 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
40545319 CTTAG
66 CTTAG
40545324 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
40545387 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:40546183 original size:39 final size:39
Alignment explanation
Indices: 40546131--40546537 Score: 404
Period size: 39 Copynumber: 10.3 Consensus size: 39
40546121 ATTTGATGTA
* *
40546131 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
40546170 TATCTGGGCTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
40546209 TATCCGGACTTAAGTTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * * *
40546248 TATCCAGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGGCTT-AAGATCCGCAGGCT-TCGTGCTGGAATTG
* *
40546288 TATCCGGGCTTAAAGATCCGCAGGCTTTGTGCTAGAATTG
1 TATCCGGGCTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
40546328 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTAGAATTG
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * *
40546367 TATCCGGGCTTAAAGACCCACAGGCTTCTTACTGGAATTG
1 TATCCGGGCTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * *
40546407 TATCTGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTT-AAGATCCGCAGGCTTCGTGCTGGAATTG
* * * * * *
40546447 TATCCAGACTTAAGATCCGTAGGCTTCGTGCTGGTACTA
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
* * * * * *
40546486 TATTCAGACTTAAGGTCCGCAGGCTTCGTACTGGTAA-TA
1 TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGG-AATTG
*
40546525 TATCCGAGCTTAA
1 TATCCGGGCTTAA
40546538 AGTCCCGTAG
Statistics
Matches: 314, Mismatches: 49, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
39 181 0.58
40 132 0.42
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
TATCCGGGCTTAAGATCCGCAGGCTTCGTGCTGGAATTG
Found at i:40546286 original size:40 final size:40
Alignment explanation
Indices: 40546147--40546478 Score: 350
Period size: 40 Copynumber: 8.4 Consensus size: 40
40546137 GACTTAAGGT
* * **
40546147 CCGCAGGCTTCGTGCTGGAATTGTATCTGGGCTT-AAGGT
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * * **
40546186 CCGCAAGCTTCGTGCTGGAATTGTATCCGGACTT-AAGTT
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * *
40546225 CCGCAAGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGAC
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * *
40546265 CCGCAGGCTAT-ATGCTAGAATTATATCCGGGCTTAAAGAT
1 CCGCAGGCT-TCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * **
40546305 CCGCAGGCTTTGTGCTAGAATTGTATCCGGACTT-AAGGT
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
40546344 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * * * *
40546384 CCACAGGCTTCTTACTGGAATTGTATCTGGGCTTAAAGAC
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
* * * * *
40546424 CCACAGGCTTCGTGCTGGAATTGTATCCAGACTT-AAGAT
1 CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
*
40546463 CCGTAGGCTTCGTGCT
1 CCGCAGGCTTCGTGCT
40546479 GGTACTATAT
Statistics
Matches: 254, Mismatches: 35, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
39 122 0.48
40 131 0.52
41 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGAC
Found at i:40546338 original size:119 final size:119
Alignment explanation
Indices: 40546150--40546480 Score: 459
Period size: 119 Copynumber: 2.8 Consensus size: 119
40546140 TTAAGGTCCG
* * *
40546150 CAGGCTTCGTGCTGGAATTGTATCTGGGCTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTATCC
1 CAGGCTTCATGCTGGAATTGTATCTGGGCTTAAAGATCCGCAGGCTTCGTGCTGGAATTGTATCC
* * *
40546214 GGACTTAAGTTCCGCAAGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACCCG
66 GGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACCCA
* * * * *
40546268 CAGGCTAT-ATGCTAGAATTATATCCGGGCTTAAAGATCCGCAGGCTTTGTGCTAGAATTGTATC
1 CAGGCT-TCATGCTGGAATTGTATCTGGGCTTAAAGATCCGCAGGCTTCGTGCTGGAATTGTATC
* * *
40546332 CGGACTTAAGGTCCGCAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGACCCA
65 CGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACCCA
* * * *
40546387 CAGGCTTCTTACTGGAATTGTATCTGGGCTTAAAGACCCACAGGCTTCGTGCTGGAATTGTATCC
1 CAGGCTTCATGCTGGAATTGTATCTGGGCTTAAAGATCCGCAGGCTTCGTGCTGGAATTGTATCC
* *
40546452 AGACTTAAGATCCGTAGGCTTCGTGCTGG
66 GGACTTAAGATCCGCAGGCTTCGTGCTGG
40546481 TACTATATTC
Statistics
Matches: 184, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
118 26 0.14
119 158 0.86
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (119 bp):
CAGGCTTCATGCTGGAATTGTATCTGGGCTTAAAGATCCGCAGGCTTCGTGCTGGAATTGTATCC
GGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACCCA
Found at i:40546550 original size:158 final size:157
Alignment explanation
Indices: 40546129--40546551 Score: 494
Period size: 158 Copynumber: 2.7 Consensus size: 157
40546119 ATATTTGATG
* * *
40546129 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTA-TCTGGGCTTAAGGTCCGCAAG
1 TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATTC-GGACTTAAGGTCCGCAGG
* * *
40546193 CTTCGTGCTGGAATTGTATCCGGACTT-AAGTTCCGCAAGCTTCGTGCTGGAATTGTATCCAGGC
65 CTTCGTGCTGGAATTGTATCCGG-CTTAAAGTCCCGCAGGCTTCGTACTGGAATTGTATCCAGGC
*
40546257 TTAAAGACCCGCAGGCTATATGCTAGAAT
129 TTAAAGACCCACAGGCTATATGCTAGAAT
* * * *
40546286 TATATCCGGGCTTAAAGATCCGCAGGCTTTGTGCTAGAATTGTATCCGGACTTAAGGTCCGCAGG
1 TATATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAATTGTATTCGGACTTAAGGTCCGCAGG
* * * * **
40546351 CTTCGTGCTAGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCTTACTGGAATTGTATCTGGGC
65 CTTCGTGCTGGAATTGTATCC-GGCTTAAAGTCCCGCAGGCTTCGTACTGGAATTGTATCCAGGC
* *
40546416 TTAAAGACCCACAGGCT-TCGTGCTGGAAT
129 TTAAAGACCCACAGGCTAT-ATGCTAGAAT
* * * * * * *
40546445 TGTATCCAGACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATTCAGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATTCGGACTTAAGGTCCGCAGGC
* * *
40546510 TTCGTACTGGTAA-TATATCCGAGCTTAAAGTCCCGTAGGCTT
66 TTCGTGCTGG-AATTGTATCCG-GCTTAAAGTCCCGCAGGCTT
40546552 TGTGTTGGTG
Statistics
Matches: 223, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
157 13 0.06
158 142 0.64
159 68 0.30
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (157 bp):
TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAATTGTATTCGGACTTAAGGTCCGCAGGC
TTCGTGCTGGAATTGTATCCGGCTTAAAGTCCCGCAGGCTTCGTACTGGAATTGTATCCAGGCTT
AAAGACCCACAGGCTATATGCTAGAAT
Done.