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 161 of 255
Found at i:52722035 original size:14 final size:15
Alignment explanation
Indices: 52722016--52722045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52722006 TTAAAAACTC
52722016 TTTA-TTTTTTATTT
1 TTTATTTTTTTATTT
52722030 TTTATTTTTTTATTT
1 TTTATTTTTTTATTT
52722045 T
1 T
52722046 CACTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTATTTTTTTATTT
Found at i:52722058 original size:7 final size:7
Alignment explanation
Indices: 52722016--52722045 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
52722006 TTAAAAACTC
52722016 TTTATTT
1 TTTATTT
52722023 TTTATTT
1 TTTATTT
52722030 TTTATTTT
1 TTTA-TTT
52722038 TTTATTT
1 TTTATTT
52722045 T
1 T
52722046 CACTTTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:52722546 original size:16 final size:16
Alignment explanation
Indices: 52722525--52722563 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
52722515 TATCTATCTT
*
52722525 TGTACATTGAGGGTAA
1 TGTACATTGAGGGCAA
52722541 TGTACATTGAGGGCAA
1 TGTACATTGAGGGCAA
52722557 TGTACAT
1 TGTACAT
52722564 CTTAAGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (16 bp):
TGTACATTGAGGGCAA
Found at i:52727124 original size:40 final size:39
Alignment explanation
Indices: 52727079--52727185 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 39
52727069 AAGTGACCAT
* * * *
52727079 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-CCCAAAGGCATTTGTACAAGATACTAA
* * *
52727119 TTCCGGGCTAAGCCCAAAGGCATTTGTACAAGTTACTAA
1 ATCCGGACTAAGCCCAAAGGCATTTGTACAAGATACTAA
** *
52727158 ATCCGGGTTAAGTCCCAAAGGCAATTGT
1 ATCCGGACTAAG-CCCAAAGGCATTTGT
52727186 CCGAGTTACT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 32 0.57
40 24 0.43
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (39 bp):
ATCCGGACTAAGCCCAAAGGCATTTGTACAAGATACTAA
Found at i:52727193 original size:40 final size:40
Alignment explanation
Indices: 52727040--52727231 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
52727030 TTGAATGATG
* * * * * *
52727040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTAC-GAGTTACTAAA
* * * * *
52727080 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTACGAGTTACTAAA
*
52727120 TCCGGGCTAAG-CCCAAAGGCATTTGTACAAGTTACTAAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTAAA
* * *
52727159 TCCGGGTTAAGTCCCAAAGGCAATTGTCCGAGTTACTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTA-AA
* * *
52727200 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGT
52727232 AGCTATATCC
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 32 0.26
40 82 0.66
41 10 0.08
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTAAA
Found at i:52734914 original size:79 final size:81
Alignment explanation
Indices: 52734778--52734962 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52734768 TTGAATGATG
* *
52734778 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
52734842 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
52734857 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
52734919 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
52734937 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52734963 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:52734976 original size:40 final size:40
Alignment explanation
Indices: 52734779--52734962 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
52734769 TGAATGATGT
* * * *
52734779 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52734819 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
52734859 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
52734897 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52734938 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52734963 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52734984 original size:79 final size:79
Alignment explanation
Indices: 52734831--52734995 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
52734821 GGACTAAGAT
* * **
52734831 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
52734896 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
52734910 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
52734973 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
52734989 CCGAAGG
1 CCGAAGG
52734996 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:52736772 original size:29 final size:29
Alignment explanation
Indices: 52736648--52736769 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
52736638 CACTTGGTCC
*
52736648 AATCTCATTTATATGGCCCATCAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
* * * *
52736677 ATTCACATTCATATGGCCTATCAAGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
* * *
52736706 ATTCATATTCT-TATGGCCCATTAGGCCCA
1 AATCACATT-TATATGGCCCATCAGGCCCA
* * *
52736735 AATCACCTTTATATGGCCCGTTAGGCCCA
1 AATCACATTTATATGGCCCATCAGGCCCA
52736764 AATCAC
1 AATCAC
52736770 CTTATGTTCA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.01
29 76 0.99
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATCAGGCCCA
Found at i:52739605 original size:29 final size:29
Alignment explanation
Indices: 52739568--52739624 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
52739558 GCATGAACAT
52739568 AAGGTGATTTGGGCCTAACGGGCCATATA
1 AAGGTGATTTGGGCCTAACGGGCCATATA
*
52739597 AAGGTGATTTGGGCCTAATGGGCCATAT
1 AAGGTGATTTGGGCCTAACGGGCCATAT
52739625 GAATATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
AAGGTGATTTGGGCCTAACGGGCCATATA
Found at i:52739646 original size:29 final size:29
Alignment explanation
Indices: 52739576--52739681 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 29
52739566 ATAAGGTGAT
* * ** * *
52739576 TTGGGCCTAACGGGCCATATAAAGGTGAT
1 TTGGGCCTGATGGGCCATATAAATATAAA
* * *
52739605 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATAAATATAAA
* * *
52739634 TTTGGCTTGATGGGCCATATAAATGTAAA
1 TTGGGCCTGATGGGCCATATAAATATAAA
52739663 TTGGGCCTGATGGGCCATA
1 TTGGGCCTGATGGGCCATA
52739682 CAAGTGAGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATAAATATAAA
Found at i:52740042 original size:29 final size:28
Alignment explanation
Indices: 52740000--52740076 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
52739990 TGCCCCTAAT
* *
52740000 TTGGGCCTCATGGGCCATATAAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGAG-A
*
52740029 TTGGGCCTGATGGGCCATATAAATGAGA
1 TTGGGCCTAATGGGCCATATAAATGAGA
52740057 TTGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TGGGCCATAT
52740077 GCATGTATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.41
29 25 0.57
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAATGAGA
Found at i:52740319 original size:366 final size:366
Alignment explanation
Indices: 52739643--52740364 Score: 1282
Period size: 366 Copynumber: 2.0 Consensus size: 366
52739633 ATTTGGCTTG
*
52739643 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAGTGAGATTGGGCCAAGTGGGCCA
1 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
*
52739708 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAACTTAATTAATATATT
66 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
** * * *
52739773 GCGACTGTGGACAAGTCATAGGGTTAAGGTGTGGCAATGGGTATATGCATGTCTAGGATTGGATC
131 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGTCTAGGATTGGATC
52739838 TAGGGAAAGCTTGGTACGTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
196 TAGGGAAAGCTTGGTACGTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
*
52739903 TGCATAGTATTCATTCATCTTAGCTCATGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
261 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
* **
52739968 TTAAAGAGAAAATTTACCGGCATGCCCCTAATTTGGGCCTC
326 TTAAAGAGAAAAATTACCGAAATGCCCCTAATTTGGGCCTC
* *
52740009 ATGGGCCATATAAATGTGAATTGGGCCTGATGGGCCATATAAATGAGATTGGGCCAAGTGGGCCA
1 ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
*
52740074 TATGCATGTATGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
66 TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
52740139 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGTCTAGGATTGGATC
131 GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGTCTAGGATTGGATC
* *
52740204 TAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
196 TAGGGAAAGCTTGGTACGTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
* *
52740269 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGTCCGAGGTAAGTGGAAACTGTA
261 TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
52740334 TTAAAGAGAAAAATTACCGAAATGCCCCTAA
326 TTAAAGAGAAAAATTACCGAAATGCCCCTAA
52740365 GGGCGAAAAT
Statistics
Matches: 338, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
366 338 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (366 bp):
ATGGGCCATATAAATGTAAATTGGGCCTGATGGGCCATACAAATGAGATTGGGCCAAGTGGGCCA
TATGCATGTAGGTAGGGGTTTTGGGCCTAGTATATGATAACTACATAAAAATTAATTAATATATT
GCGACCATGGACAAGTCATAGGGTTAAGGTATGGCAACGGGTATACGCATGTCTAGGATTGGATC
TAGGGAAAGCTTGGTACGTAAGCGGTCTTAATGACTCACCTCCTCTTCTCTGGAATCCTACCTGG
TGCATAGTATTCATTCATCTTAGCTCAAGGGATTTGTTAACGGGCCGAGGTAAGTGAAAACTGTA
TTAAAGAGAAAAATTACCGAAATGCCCCTAATTTGGGCCTC
Found at i:52745118 original size:27 final size:27
Alignment explanation
Indices: 52745088--52745152 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
52745078 ATTACCAAAG
* *
52745088 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTACAAAATTACAATTT
* *
52745115 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACAATTT
*
52745142 TACCCTTGATT
1 TACCCTCGATT
52745153 GTGAAATTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACAATTT
Found at i:52745526 original size:67 final size:67
Alignment explanation
Indices: 52745443--52745596 Score: 272
Period size: 67 Copynumber: 2.3 Consensus size: 67
52745433 GGGGAAGCGT
*
52745443 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
52745508 TA
66 TA
* * *
52745510 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCAAAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
52745575 TA
66 TA
52745577 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
52745597 TTTTGTGGTG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 83 1.00
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATGGTGACTTCGTCAAAA
TA
Found at i:52745734 original size:31 final size:31
Alignment explanation
Indices: 52745699--52745777 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
52745689 TTGCATTCAC
* *
52745699 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
52745730 ATTCTGATTCTAATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
52745761 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
52745778 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:52745738 original size:6 final size:6
Alignment explanation
Indices: 52745699--52745786 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
52745689 TTGCATTCAC
* * * *
52745699 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
52745748 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
52745787 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:52749366 original size:52 final size:52
Alignment explanation
Indices: 52749296--52749574 Score: 434
Period size: 52 Copynumber: 5.4 Consensus size: 52
52749286 TATCTAGGAT
* *
52749296 ATGGCATTGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
52749348 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
*
52749400 ATGGCAATATGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
* * *
52749452 ATGGCAATGTGCTAAGTGAAATAGGACCATTGCATTTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
* * * * * *
52749504 ATGGCAATGTGCTTAGTGAAACAAGCCCATGGCATCTAAATGAAACAAGTCA
1 ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
52749556 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
52749575 GAAATTTCTC
Statistics
Matches: 209, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
51 2 0.01
52 207 0.99
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAGGACCATGGCATCTAAGTGAAATAAGTCA
Found at i:52749658 original size:51 final size:51
Alignment explanation
Indices: 52749598--52749745 Score: 192
Period size: 51 Copynumber: 2.9 Consensus size: 51
52749588 TGAACCTTAG
*
52749598 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * * *
52749649 GAATAAAATAGATTTGAAAACAAGTGTGGTACTATGTGAATGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
52749700 GAATAAAATAGCTCTAG-CTACAAG-GATGGAACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
52749746 CGTGTATCTG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 82 0.99
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:52755109 original size:27 final size:27
Alignment explanation
Indices: 52755068--52755122 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
52755058 CAAATGCATT
52755068 TACTACTTGGCGTAACCAGGTAGACTA
1 TACTACTTGGCGTAACCAGGTAGACTA
* *
52755095 TACTACTTGGTGTAACCAGTTAGACTA
1 TACTACTTGGCGTAACCAGGTAGACTA
52755122 T
1 T
52755123 CCTGGATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (27 bp):
TACTACTTGGCGTAACCAGGTAGACTA
Found at i:52769329 original size:110 final size:110
Alignment explanation
Indices: 52769127--52769346 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
52769117 CGTACTAGTC
52769127 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
1 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
*
52769192 AGCTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
66 AGCTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
52769237 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
1 GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
52769302 AGACTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTC
66 AG-CTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTC
52769347 AGGCCAATTA
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 67 0.62
111 41 0.38
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (110 bp):
GCTTTAAAAATCATATCTTGAGTTTCACAACTCGGAATCCAGTTCCGTAAATTTTCCCTGAAACT
AGCTCATATACCCATCTACATATTTTTTTCTAGAATTTTTGGTCG
Found at i:52770583 original size:79 final size:78
Alignment explanation
Indices: 52770481--52770703 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
52770471 GCTCCTCGTT
* *
52770481 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52770546 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
52770561 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52770624 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
52770639 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
52770702 GA
63 GA
52770704 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:52770598 original size:39 final size:40
Alignment explanation
Indices: 52770481--52770703 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
52770471 GCTCCTCGTT
* *
52770481 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52770521 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52770561 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52770600 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52770639 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52770680 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52770704 CAGCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52777783 original size:40 final size:40
Alignment explanation
Indices: 52777739--52778000 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
52777729 GCTCCTCGTT
* *
52777739 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52777779 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52777819 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52777858 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52777897 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52777936 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52777977 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52778001 CAGCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52781184 original size:50 final size:50
Alignment explanation
Indices: 52781130--52781269 Score: 120
Period size: 50 Copynumber: 2.8 Consensus size: 50
52781120 GCTCACATCG
* * *
52781130 TGTAAAACCGTAGATGGTGGGCTATGGCATCATATGGAAAGATCATATCA
1 TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
* * * * * * * *
52781180 TGTAAGACCCTAGCTAGTGGGCTATGGCGTTATATAGAAACCCCATATCG
1 TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
* * * * *
52781230 TATAAAACCTTA-ATTGATGGGTTATGGTATCATATGGAAA
1 TGTAAAACCCTAGA-TGGTGGGCTATGGCATCATATGGAAA
52781270 TAATTAAATG
Statistics
Matches: 67, Mismatches: 22, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
TGTAAAACCCTAGATGGTGGGCTATGGCATCATATGGAAACACCATATCA
Found at i:52782456 original size:11 final size:11
Alignment explanation
Indices: 52782440--52782467 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
52782430 TTGGATAAGT
52782440 ATAAGTTTGTA
1 ATAAGTTTGTA
52782451 ATAAGTTTGTA
1 ATAAGTTTGTA
52782462 ATAAGT
1 ATAAGT
52782468 ATAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (11 bp):
ATAAGTTTGTA
Found at i:52789631 original size:10 final size:10
Alignment explanation
Indices: 52789616--52789646 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
52789606 TCAACTAACA
52789616 CATCTCTAGC
1 CATCTCTAGC
52789626 CATCTCTAGC
1 CATCTCTAGC
*
52789636 CATCTTTAGC
1 CATCTCTAGC
52789646 C
1 C
52789647 TCAACTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.32
Consensus pattern (10 bp):
CATCTCTAGC
Found at i:52789654 original size:20 final size:21
Alignment explanation
Indices: 52789603--52789654 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
52789593 TTAAAAATTT
*
52789603 GCCTCAACTAACACATCTCTA
1 GCCTCAACTAGCACATCTCTA
* *
52789624 GCCATC-TCTAGC-CATCTTTA
1 GCC-TCAACTAGCACATCTCTA
52789644 GCCTCAACTAG
1 GCCTCAACTAG
52789655 ATATTTATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 2 0.08
20 14 0.56
21 7 0.28
22 2 0.08
ACGTcount: A:0.27, C:0.37, G:0.10, T:0.27
Consensus pattern (21 bp):
GCCTCAACTAGCACATCTCTA
Found at i:52792015 original size:40 final size:40
Alignment explanation
Indices: 52791955--52792031 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
52791945 TTAACAATTA
*
52791955 TAATAATTCAAATATGGTTTAAAGTAACTAAGAATCTATT
1 TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCTATT
* *
52791995 TAATAATTCAAATATTGTTTATAGCAACTAAGAATCT
1 TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCT
52792032 GTAAAGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (40 bp):
TAATAATTCAAATATGGTTTAAAGCAACTAAGAATCTATT
Found at i:52792840 original size:18 final size:18
Alignment explanation
Indices: 52792804--52792850 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
52792794 AGGTTTTTCT
52792804 ATTAAATT-ATTTATATA
1 ATTAAATTAATTTATATA
*
52792821 ATATAAGTTAATTT-TATA
1 AT-TAAATTAATTTATATA
52792839 ATTAAATTAATT
1 ATTAAATTAATT
52792851 ATTAAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.42
18 11 0.42
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAAATTAATTTATATA
Found at i:52793214 original size:13 final size:12
Alignment explanation
Indices: 52793176--52793219 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
52793166 GAAATTTTAT
52793176 TTAATTGGAAAA
1 TTAATTGGAAAA
52793188 TTAATT-GATTAAA
1 TTAATTGGA--AAA
52793201 TTTAATTGGAAAA
1 -TTAATTGGAAAA
52793214 TTAATT
1 TTAATT
52793220 TAATAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.07
12 12 0.43
13 6 0.21
14 6 0.21
15 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (12 bp):
TTAATTGGAAAA
Found at i:52793226 original size:26 final size:26
Alignment explanation
Indices: 52793174--52793227 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
52793164 TTGAAATTTT
*
52793174 ATTTAATTGGAAAATTAATTGATTAA
1 ATTTAATTGGAAAATTAATTGAATAA
*
52793200 ATTTAATTGGAAAATTAATTTAATAA
1 ATTTAATTGGAAAATTAATTGAATAA
52793226 AT
1 AT
52793228 AGTATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTTAATTGGAAAATTAATTGAATAA
Found at i:52795483 original size:164 final size:164
Alignment explanation
Indices: 52795254--52795583 Score: 518
Period size: 164 Copynumber: 2.0 Consensus size: 164
52795244 GTTATAAATT
* *
52795254 ATATACAAACAAAATGAGTAAAAATTTGGTTTGAGTTGAACCGTTAAGTCTTGGGTGCTTCTGAC
1 ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
* * * * *
52795319 TTGATCTATTAAATCTATATGAGACCTGCACATGGAAACAAACAAACCATACACTGAGCATTAAA
66 TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
** *
52795384 TACTGGGAGATACATTAATAAAAAAATTATCCTTA
131 TACTGAAAAATACATTAAT-AAAAAATTATCCTTA
52795419 ATATA-AAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
1 ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
* * *
52795483 TCGATCTACTAAATTTATATAAGACCTACACATGGAAACAAATAAACCATAAACTGAGCATTGAA
66 TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
*
52795548 TACTGAAAAATATATTAATAAAAAATTATCCTTA
131 TACTGAAAAATACATTAATAAAAAATTATCCTTA
52795582 AT
1 AT
52795584 GACAATGATA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
163 17 0.11
164 129 0.85
165 5 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (164 bp):
ATATACAAACAAAATGAGTAAAAATTTGGTCTGAGTTGAACCGTTAAGTCTTGGATGCTTCTGAC
TCGATCTACTAAATCTATATAAGACCTACACATGGAAACAAACAAACCATAAACTGAGCATTAAA
TACTGAAAAATACATTAATAAAAAATTATCCTTA
Found at i:52796696 original size:19 final size:20
Alignment explanation
Indices: 52796661--52796708 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
52796651 AGAAATAATT
* *
52796661 TTAAAATTTAAACATAAATA
1 TTAAAATGTAAACATAAAAA
52796681 TTAAAATGTAAA-ATAAAAA
1 TTAAAATGTAAACATAAAAA
*
52796700 TAAAAATGT
1 TTAAAATGT
52796709 TACCAAGACG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
TTAAAATGTAAACATAAAAA
Found at i:52799087 original size:12 final size:13
Alignment explanation
Indices: 52799070--52799098 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
52799060 AAAGTGAAAA
52799070 TTTTTTG-AAATT
1 TTTTTTGAAAATT
52799082 TTTTTTGAAAATT
1 TTTTTTGAAAATT
52799095 TTTT
1 TTTT
52799099 GTATAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTTGAAAATT
Found at i:52799106 original size:13 final size:11
Alignment explanation
Indices: 52799064--52799099 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
52799054 TTGGAGAAAG
52799064 TGAAAATTTTT
1 TGAAAATTTTT
*
52799075 TGAAATTTTTTT
1 TGAAA-ATTTTT
52799087 TGAAAATTTTT
1 TGAAAATTTTT
52799098 TG
1 TG
52799100 TATAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (11 bp):
TGAAAATTTTT
Found at i:52807217 original size:47 final size:47
Alignment explanation
Indices: 52807158--52807848 Score: 1141
Period size: 47 Copynumber: 14.6 Consensus size: 47
52807148 TATTTGAATA
* * *
52807158 AATGAGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807205 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52807254 AATGTGAAAGTGTATATATGTGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATG
* *
52807303 AATGTGAAAATGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52807350 AATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52807397 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807444 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52807493 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807540 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52807587 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807634 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807681 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
52807728 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
52807775 AATGTGAAAGTGTATATATGTGA-CAGGTCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGG-CCTAATGGCCGATGTGATG
* *
52807822 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52807849 TCCCGAAGGG
Statistics
Matches: 609, Mismatches: 27, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
46 3 0.00
47 469 0.77
48 2 0.00
49 135 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:52808068 original size:37 final size:37
Alignment explanation
Indices: 52807967--52808068 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
52807957 CCGAGCTCTA
* *
52807967 AAGACCCGATGACTACGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
52808004 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
52808041 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
52808069 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:52812864 original size:19 final size:20
Alignment explanation
Indices: 52812840--52812877 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52812830 GGTACCACCA
52812840 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52812859 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52812878 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52813218 original size:93 final size:93
Alignment explanation
Indices: 52813107--52813277 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52813097 GCCCCTAAGT
* * *
52813107 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52813172 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52813200 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52813265 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52813278 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52813274 original size:46 final size:46
Alignment explanation
Indices: 52813106--52813274 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
52813096 CGCCCCTAAG
* * * * *
52813106 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
* * *
52813152 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAA
* *
52813199 CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
52813245 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
52813275 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 56 0.55
47 29 0.29
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAA
Found at i:52819964 original size:19 final size:20
Alignment explanation
Indices: 52819940--52819977 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52819930 GGTACCACCA
52819940 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52819959 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52819978 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52820366 original size:93 final size:93
Alignment explanation
Indices: 52820207--52820377 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
52820197 GCCCCTAAGT
* * * * *
52820207 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
52820272 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
52820300 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
52820365 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52820378 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52820367 original size:46 final size:46
Alignment explanation
Indices: 52820202--52820374 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
52820192 AACCCGCCCC
* * * * * *
52820202 TAAGTGAACTC-AGACTCAACTCAATGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGA-ACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
52820248 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
52820296 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
52820341 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
52820375 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:52820393 original size:46 final size:45
Alignment explanation
Indices: 52820252--52820393 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
52820242 TATCCATAAA
52820252 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
52820299 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
52820345 TGAACTCGAACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
52820391 TGA
1 TGA
52820394 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:52826044 original size:32 final size:32
Alignment explanation
Indices: 52826003--52826066 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
52825993 TTGACGCGAT
*
52826003 AGTTTATGAATTTTATACCACTTTGAAAGATC
1 AGTTTATGAATTCTATACCACTTTGAAAGATC
*
52826035 AGTTTATGAATTCTATGCCACTTTGAAAGATC
1 AGTTTATGAATTCTATACCACTTTGAAAGATC
52826067 GGGAAAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (32 bp):
AGTTTATGAATTCTATACCACTTTGAAAGATC
Found at i:52830361 original size:28 final size:27
Alignment explanation
Indices: 52830292--52830435 Score: 158
Period size: 28 Copynumber: 5.4 Consensus size: 27
52830282 GATATGACAT
* *
52830292 TGTGCTAAGTAAAATAA-TACCATGACA
1 TGTGCTAAGTGAAATAAGT-CCATGGCA
52830319 T-T--TAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
52830344 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
52830371 --T-CTAAGTGTAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
52830396 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
52830423 TGGTGTTAAGTGA
1 T-GTGCTAAGTGA
52830436 GAAATTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
24 37 0.37
25 5 0.05
26 2 0.02
27 5 0.05
28 51 0.51
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:52830420 original size:52 final size:52
Alignment explanation
Indices: 52830292--52830423 Score: 203
Period size: 52 Copynumber: 2.5 Consensus size: 52
52830282 GATATGACAT
* * *
52830292 TGTGCTAAGTAAAATAA-TACCATGACATTTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGT-CCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
52830344 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGTAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAA
52830396 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAT
52830424 GGTGTTAAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:52830514 original size:51 final size:51
Alignment explanation
Indices: 52830459--52830707 Score: 396
Period size: 51 Copynumber: 4.9 Consensus size: 51
52830449 TGAACCTTAG
* *
52830459 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAAGCCACTTTGT
1 GAATAAAATAGCTTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
52830510 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
52830561 GAATAAAATAGCTTTGGACACAAGTGCGGTACTATGTAAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
52830612 GAATAAAATAG-TTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
52830662 GAATAAAATAGC-TTTGGCTACAAAG-GTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTTGAC-AC-AAGTGTGGTACTATGTGAAGGCCAC
52830708 CGTGTATCCG
Statistics
Matches: 186, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
50 52 0.28
51 131 0.70
52 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:52830677 original size:101 final size:102
Alignment explanation
Indices: 52830459--52830707 Score: 398
Period size: 101 Copynumber: 2.5 Consensus size: 102
52830449 TGAACCTTAG
* *
52830459 GAATAAAATAGCTTTTGACAAAAGTGTGGTACTATGTGAAA-GCCACTTTGTGAATAAAATAGCT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGT-AAAGGCCACTTTGTGAATAAAATAGCT
52830523 TTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
65 TTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
52830561 GAATAAAATAGCTTTGGACACAAGTGCGGTACTATGTAAAGGCCACTTTGTGAATAAAATAG-TT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGCTT
*
52830625 TTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
66 TGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
52830662 GAATAAAATAGCTTTGG-CTACAAAG-GTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-AC-AAGTGTGGTACTATGTAAAGGCCAC
52830708 CGTGTATCCG
Statistics
Matches: 138, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
100 1 0.01
101 79 0.57
102 58 0.42
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (102 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAATAAAATAGCTT
TGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:52834910 original size:24 final size:24
Alignment explanation
Indices: 52834869--52834926 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
52834859 AAGCTCCTCC
* *
52834869 TGAGTTGATAAACAGTAAGCTTTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
*
52834894 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
52834918 TGAGCTGAA
1 TGAGCTGAA
52834927 TAGTAAGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:52834935 original size:22 final size:22
Alignment explanation
Indices: 52834882--52834937 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
52834872 GTTGATAAAC
*
52834882 AGTAAGCTTTATTGAGCTGAAA
1 AGTAAGCTCTATTGAGCTGAAA
*
52834904 ACGGTAAGCTCTATTGAGCTGAAT
1 A--GTAAGCTCTATTGAGCTGAAA
52834928 AGTAAGCTCT
1 AGTAAGCTCT
52834938 TTCGAGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.33
24 20 0.67
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAA
Found at i:52836694 original size:15 final size:17
Alignment explanation
Indices: 52836660--52836696 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
52836650 TCAAATCATA
52836660 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
*
52836677 ATAATT-ACCATA-ATT
1 ATAATTAACCAAATATT
52836692 ATAAT
1 ATAAT
52836697 AATATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:52836768 original size:38 final size:38
Alignment explanation
Indices: 52836670--52836774 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 38
52836660 ATAATTAACC
*
52836670 AAAT-ATTATAATTACCATAATTATAATAATATTTGAA
1 AAATAATTATAATTACAATAATTATAATAATATTTGAA
* *
52836707 AAATAATTAAAATTATAGA-AATTATAATAATATTTG-A
1 AAATAATTATAATTACA-ATAATTATAATAATATTTGAA
*** *
52836744 TCCTAAATTATTATTACAATAATTATAATAA
1 AAAT-AATTATAATTACAATAATTATAATAA
52836775 AGATTTCGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
37 7 0.13
38 47 0.85
39 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (38 bp):
AAATAATTATAATTACAATAATTATAATAATATTTGAA
Found at i:52836834 original size:27 final size:27
Alignment explanation
Indices: 52836769--52836823 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
52836759 ACAATAATTA
52836769 TAATAAAGATTTCGGTAAATTATTTTT
1 TAATAAAGATTTCGGTAAATTATTTTT
52836796 TAATAAAGATTTCGGTAAATTATTTTT
1 TAATAAAGATTTCGGTAAATTATTTTT
52836823 T
1 T
52836824 TAGTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (27 bp):
TAATAAAGATTTCGGTAAATTATTTTT
Found at i:52840457 original size:33 final size:33
Alignment explanation
Indices: 52840415--52840487 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
52840405 CTTGATCTAT
* * *
52840415 ATATATTATCAAATTTAGTACATTCAGTATTCA
1 ATATATTATCAAATTCAATACATTCAGCATTCA
52840448 ATATATTATCAAATTCAATACATTCAGCATTCA
1 ATATATTATCAAATTCAATACATTCAGCATTCA
*
52840481 ATCTATT
1 ATATATT
52840488 CAATTTAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (33 bp):
ATATATTATCAAATTCAATACATTCAGCATTCA
Found at i:52841131 original size:20 final size:19
Alignment explanation
Indices: 52841106--52841149 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
52841096 GTTTTATGTC
* *
52841106 CATAATTGTCCACTTACCAA
1 CATAATGGTCCAATTA-CAA
*
52841126 CATAATGGTCTAATTACAA
1 CATAATGGTCCAATTACAA
52841145 CATAA
1 CATAA
52841150 GAACCTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (19 bp):
CATAATGGTCCAATTACAA
Found at i:52848316 original size:28 final size:28
Alignment explanation
Indices: 52848258--52848325 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
52848248 GTTCTTAGAA
* * * * *
52848258 ACTCTTTCCTGAAGAATAGTCCTTGCGG
1 ACTCTTGCTTGAAGAATAGTCCCTACAG
*
52848286 ACTCTTGCTTGAAGTATAGTCCCTACAG
1 ACTCTTGCTTGAAGAATAGTCCCTACAG
*
52848314 ACTTTTGCTTGA
1 ACTCTTGCTTGA
52848326 GAGATGGTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (28 bp):
ACTCTTGCTTGAAGAATAGTCCCTACAG
Found at i:52848344 original size:28 final size:28
Alignment explanation
Indices: 52848273--52848403 Score: 113
Period size: 28 Copynumber: 4.7 Consensus size: 28
52848263 TTCCTGAAGA
*
52848273 ATAGTCCT-TGCGGACTCTTGCTTG-AAG
1 ATAGT-CTATGCGGACTCTTACTTGAAAG
** * * * * *
52848300 TATAGTCCCTACAGACTTTTGCTTGAGAG
1 -ATAGTCTATGCGGACTCTTACTTGAAAG
*
52848329 ATGGTCTATGCGGACTCTTACTTGAAAG
1 ATAGTCTATGCGGACTCTTACTTGAAAG
*
52848357 ATAGTCTATGGGGACTCTTACTTGAAAG
1 ATAGTCTATGCGGACTCTTACTTGAAAG
* * *
52848385 ATAGCCCATGGGGACTCTT
1 ATAGTCTATGCGGACTCTT
52848404 GCTTAAATAT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.01
28 81 0.96
29 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (28 bp):
ATAGTCTATGCGGACTCTTACTTGAAAG
Found at i:52852075 original size:43 final size:43
Alignment explanation
Indices: 52851950--52852181 Score: 331
Period size: 43 Copynumber: 5.4 Consensus size: 43
52851940 ATATATATGG
* * *
52851950 TCTTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGATCATG-
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
* * * * * * *
52851992 TCTTCAGTGGCATTTTTGGGAAAAGCACCGTTAAATGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
* * *
52852035 GCTTTAACGGCGTTTTTGGGGAAAGTGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
52852078 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
52852121 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
*
52852164 CCTTTAGCGGCGTTTTTG
1 TCTTTAGCGGCGTTTTTG
52852182 AGAAAAAAAC
Statistics
Matches: 167, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
42 34 0.20
43 133 0.80
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGA
Found at i:52853126 original size:46 final size:45
Alignment explanation
Indices: 52853076--52853248 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52853066 TGGTTGACCA
52853076 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * *
52853122 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* * * *
52853167 CATCCGAACTCGTTGAGTTGAGTCCGAGTGCATTTATGGATGCGAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* *
52853214 ACCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
52853249 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.08
46 55 0.52
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:52853233 original size:93 final size:93
Alignment explanation
Indices: 52853074--52853243 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
52853064 GATGGTTGAC
* ** *
52853074 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCAAATCACCCAACTCGTTGAGTT
52853139 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* *
52853167 CATCCGAACTCGTTGAGTTGAGTCCGAGTGCATTTATGGATGCGAA-CACCCAAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCAAATCACCCAA-CTCGTTGAGT
52853231 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
52853244 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCAAATCACCCAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:52870459 original size:27 final size:27
Alignment explanation
Indices: 52870429--52870606 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
52870419 ATATCGAGCC
* * *
52870429 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52870456 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
52870483 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
52870511 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
52870538 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
52870565 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
52870592 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52870607 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52870542 original size:82 final size:81
Alignment explanation
Indices: 52870450--52870605 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
52870440 TGCTATAAAA
*
52870450 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
52870514 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
52870532 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
52870597 ACTTAGTGC
66 ACTTAGTGC
52870606 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.25
82 51 0.75
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52873118 original size:26 final size:26
Alignment explanation
Indices: 52873089--52873196 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
52873079 TGGTAAAAAT
*
52873089 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
52873115 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
52873141 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52873167 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52873193 TGAT
1 TGAT
52873197 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52876450 original size:53 final size:53
Alignment explanation
Indices: 52876368--52876574 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 53
52876358 TTTTCCTTTT
* * * * * *
52876368 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGCATCGTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
*
52876421 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTA-CCTTTGCCTTATA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TA
* * * * *
52876476 TTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * *
52876529 TAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 T-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
52876575 CTATCTTACC
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.34
54 41 0.31
55 43 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:52876505 original size:55 final size:54
Alignment explanation
Indices: 52876380--52876568 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 54
52876370 AACTTACCAT
* * * * *
52876380 TGCCATGTCTTGACATGGTCTTACGTGGCATCGTTGCC-T-TATGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATATGAACTCATCAA
* *
52876433 TGCCATGCCTTGGCATGGTCTTACATGGTACCTTTGCCTTATATTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATATGAACTCATCAA
* * * *
52876488 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-GAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATATGAACTCATCAA
*
52876542 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
52876569 ATATCCCTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 31 0.26
54 35 0.30
55 47 0.40
56 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATATGAACTCATCAA
Found at i:52876676 original size:47 final size:47
Alignment explanation
Indices: 52876555--52876676 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
52876545 CATGCCTTGG
* *
52876555 CATGGTCTTACATGATATCCCTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
52876602 CATGGTCTTATATGGTATCATTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
52876649 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
52876677 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:52902591 original size:40 final size:40
Alignment explanation
Indices: 52902494--52902702 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
52902484 TCCTCGTTCA
* * * * *
52902494 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52902532 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52902572 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52902612 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52902652 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52902692 AAGGCCTTCGG
1 AATGCCTTCGG
52902703 ATCTTATCCG
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
38 30 0.19
40 128 0.81
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52902762 original size:40 final size:40
Alignment explanation
Indices: 52902687--52902762 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
52902677 TTAGTATCTC
* * *
52902687 GCACAAAGGCCTTCGGATCTTATCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTACCCGGACACATTCACTTA
52902727 GCACAAA-GCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCGGATCTTA-CCCGGACA-CATTCA
52902763 ATTAATCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 4 0.13
39 15 0.48
40 12 0.39
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAAGGCCTTCGGATCTTACCCGGACACATTCACTTA
Found at i:52910498 original size:79 final size:79
Alignment explanation
Indices: 52910413--52910674 Score: 314
Period size: 79 Copynumber: 3.3 Consensus size: 79
52910403 TCCTCGTTCA
* * * *
52910413 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGAGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCG-GACATAACCCGGAT
52910477 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
52910492 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACATAACCCGGATT
*
52910557 TAATAACTCGCACG
66 TAACAACTCGCACG
* * * *
52910571 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATCTTAATCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGA-CATAACCCGGAT
* * *
52910636 ATATTC-ACTTAGCAC-
65 TTA-ACAAC-TCGCACG
* *
52910651 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52910675 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
79 109 0.68
80 47 0.29
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:52910511 original size:40 final size:40
Alignment explanation
Indices: 52910413--52910674 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
52910403 TCCTCGTTCA
* * * * *
52910413 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52910452 AATGCCTTCGAGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52910492 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52910532 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52910571 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52910611 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52910651 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52910675 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 75 0.38
40 113 0.58
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52910658 original size:119 final size:118
Alignment explanation
Indices: 52910411--52910674 Score: 307
Period size: 119 Copynumber: 2.2 Consensus size: 118
52910401 GCTCCTCGTT
* * *
52910411 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGAGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGAGACATAACCCGGA
* * * *
52910476 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * * *
52910530 CGAATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGAGACATAACCCGG
** * * * *
52910594 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
52910650 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
52910675 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
118 27 0.22
119 73 0.61
120 20 0.17
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGAGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:52912325 original size:40 final size:42
Alignment explanation
Indices: 52912281--52912360 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
52912271 AAGATTTTTA
*
52912281 GACACGGGCTA-GGACAC-GA-GTGTGTCATGGCCGTGTGAGG
1 GACACGGGCAATGGACACGGATGTGTGTCA-GGCCGTGTGAGG
*
52912321 GACACGGGCAATGGGCACGGATGTGTGTCAGGCCGTGTGA
1 GACACGGGCAATGGACACGGATGTGTGTCAGGCCGTGTGA
52912361 AAACCCCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 5 0.14
42 12 0.34
43 8 0.23
ACGTcount: A:0.20, C:0.20, G:0.42, T:0.17
Consensus pattern (42 bp):
GACACGGGCAATGGACACGGATGTGTGTCAGGCCGTGTGAGG
Found at i:52914375 original size:55 final size:53
Alignment explanation
Indices: 52914188--52914379 Score: 189
Period size: 53 Copynumber: 3.7 Consensus size: 53
52914178 ACACGGGTAC
* * * * *
52914188 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
52914237 CTTACCATTGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
52914290 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
*
52914345 CTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG
52914380 ATTTCCTTAC
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 37 0.31
50 1 0.01
52 2 0.02
53 44 0.37
54 3 0.03
55 33 0.28
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:52921853 original size:53 final size:54
Alignment explanation
Indices: 52921724--52921975 Score: 257
Period size: 55 Copynumber: 4.7 Consensus size: 54
52921714 ACACGGGTAC
* * * * *
52921724 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* *
52921773 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * * * * *
52921826 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTGTAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAAA
* * * * *
52921881 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
*
52921934 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
52921976 CCTAAACCCT
Statistics
Matches: 167, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 35 0.21
53 49 0.29
54 14 0.08
55 69 0.41
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
Found at i:52921915 original size:108 final size:110
Alignment explanation
Indices: 52921771--52921971 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
52921761 ATCCTTTTGA
* * *
52921771 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
52921834 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTGTAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTGTAGT
* * *
52921879 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
52921944 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
52921972 TATCCCTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTGTAGT
Found at i:52934784 original size:21 final size:21
Alignment explanation
Indices: 52934737--52934789 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
52934727 TCCTAGGGTG
*
52934737 TAAATTGAATTCAATTGAATAT
1 TAAA-TGAATTAAATTGAATAT
*
52934759 GAAATGAATTAAATTG-ATGAT
1 TAAATGAATTAAATTGAAT-AT
*
52934780 TAAATTAATT
1 TAAATGAATT
52934790 TATATAGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (21 bp):
TAAATGAATTAAATTGAATAT
Found at i:52940728 original size:40 final size:40
Alignment explanation
Indices: 52940677--52940868 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
52940667 GAATATAGCC
* *
52940677 ACTCGCTCAAATGCCTTCGGGACTTAACCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
52940717 GTTCGCACAAATGCCTTCGGGACTTAACCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
52940757 ACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52940797 ACTCGCACAAATGCCTTCTGGACTTAGCCCAGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
52940837 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52940869 TTATCATCCG
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:52940803 original size:80 final size:80
Alignment explanation
Indices: 52940651--52940868 Score: 273
Period size: 80 Copynumber: 2.7 Consensus size: 80
52940641 AAACCAAGTA
* * * *
52940651 CCTTCGGG-CTTCAA-CCGAATATAGCCACTCGCTCAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTT-AACCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
**
52940714 GTAGTTCGCACAAATG
65 GTAACTCGCACAAATG
* *
52940730 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGA-ATTA
1 CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
52940794 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
52940810 CCTTCTGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52940869 TTATCATCCG
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 12 0.10
80 109 0.90
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:52947601 original size:47 final size:47
Alignment explanation
Indices: 52947491--52947664 Score: 200
Period size: 47 Copynumber: 3.7 Consensus size: 47
52947481 GGTCAGACAT
* *
52947491 CGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTACC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACGTCTCG-AGC
52947537 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGA-GC
* * *
52947583 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCCCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TTACGTCTCGA-GC
*
52947630 CGATGCCATGTCCCAGACATGGTTTTACACTAGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT
52947665 CACACAAGTG
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.10
45 16 0.14
46 18 0.16
47 55 0.49
48 13 0.12
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGAGC
Found at i:52960561 original size:30 final size:30
Alignment explanation
Indices: 52960527--52960586 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
52960517 ATTTTCAGAC
* * *
52960527 CTAGGGGTAAAATGGTTATTTTGCAAAAGT
1 CTAGGGGCAAAACGGTCATTTTGCAAAAGT
*
52960557 CTAGGGGCAAAACGGTCATTTTGCCAAAGT
1 CTAGGGGCAAAACGGTCATTTTGCAAAAGT
52960587 ATAGATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (30 bp):
CTAGGGGCAAAACGGTCATTTTGCAAAAGT
Found at i:52960961 original size:46 final size:46
Alignment explanation
Indices: 52960908--52961120 Score: 211
Period size: 46 Copynumber: 4.6 Consensus size: 46
52960898 GGACTATTAT
* *
52960908 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAAC-ATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACGA-GACGA
* * * **
52960954 GAGCTAGTGTAAGACATGTTTAGGACATGGCATCGGCAGTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCAACGAGACGA
** *
52961001 GAGCTAGTGTAAGACATGTAC-GGGACATGCATCAGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGT-CTGGGACATGCATCAGCAACGAGACG-A
* * * **
52961048 -AGCCAGTGTAAGACATGTCTAGGACATGCATCAGCTACGAG-TTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACGAGACGA
52961092 -AGCTAGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
52961121 GCTCGATATC
Statistics
Matches: 142, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 73 0.51
47 39 0.27
48 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACGAGACGA
Found at i:52961071 original size:93 final size:92
Alignment explanation
Indices: 52960908--52961120 Score: 231
Period size: 93 Copynumber: 2.3 Consensus size: 92
52960898 GGACTATTAT
* * *
52960908 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACATTACGAGAGCTAGTGTAAGACATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACATGACGAGAGCCAGTGTAAGACATGT
*
52960973 TTAGGACATGGCATCGGCAGTGAGACGA
66 CTAGGACAT-GCATCGGCAGTGAGACGA
** *
52961001 GAGCTAGTGTAAGACATGTAC-GGGACATGCATCAGCCTCGA-GATGTA-AGCCAGTGTAAGACA
1 GAGCTAGTGTAAGACATGT-CTGGGACATGCATCAGCAAC-ATGACG-AGAGCCAGTGTAAGACA
* * **
52961063 TGTCTAGGACATGCATCAGCTA-CGAG-TTA
63 TGTCTAGGACATGCATCGGC-AGTGAGACGA
52961092 -AGCTAGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
52961121 GCTCGATATC
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
90 14 0.14
91 14 0.14
92 10 0.10
93 62 0.60
94 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACATGACGAGAGCCAGTGTAAGACATGT
CTAGGACATGCATCGGCAGTGAGACGA
Found at i:52962301 original size:21 final size:22
Alignment explanation
Indices: 52962262--52962302 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52962252 TCGAATTGGT
*
52962262 CACACGGGCGTGTTGCCCCTCG
1 CACACGGGCATGTTGCCCCTCG
52962284 CACACGGGCATG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
52962303 GTGTCTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCG
Found at i:52968614 original size:46 final size:44
Alignment explanation
Indices: 52968563--52968683 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 44
52968553 GATGAGAGCT
52968563 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAG-T-TAAGCC
* *
52968609 AGTGTAAGACATGTCTGGGACATGCATCCGCTACGAGTTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGTTAAGCC
52968653 AGTGTAAGACCATGT-TCGGGACATGGCATCA
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCA
52968684 ACATCTTATC
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 15 0.22
45 15 0.22
46 38 0.56
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGTTAAGCC
Found at i:52969825 original size:22 final size:21
Alignment explanation
Indices: 52969800--52969840 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
52969790 TCGAATTGGT
52969800 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTT-CCCCTCC
52969822 CACACGGGCGTGTTCCCCT
1 CACACGGGCGTGTTCCCCT
52969841 GTGTCTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.10, C:0.44, G:0.27, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTTCCCCTCC
Found at i:52973820 original size:18 final size:18
Alignment explanation
Indices: 52973797--52973832 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
52973787 ACTATGACTC
*
52973797 GAGAAAATAGTTTAACCA
1 GAGAAAATAGCTTAACCA
52973815 GAGAAAATAGCTTAACCA
1 GAGAAAATAGCTTAACCA
52973833 AAATATGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
GAGAAAATAGCTTAACCA
Found at i:52980000 original size:18 final size:18
Alignment explanation
Indices: 52979974--52980008 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52979964 ATAAATACAA
* *
52979974 TATCGATAACTTTATTTG
1 TATCAATAAATTTATTTG
52979992 TATCAATAAATTTATTT
1 TATCAATAAATTTATTT
52980009 TGGTATCGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (18 bp):
TATCAATAAATTTATTTG
Found at i:52985242 original size:43 final size:42
Alignment explanation
Indices: 52985178--52985298 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
52985168 ATATGTGTTC
* *
52985178 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCTTTGAT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAT
* * * * *
52985220 TATGTGTAAGACCATGTTTGGGACATCGGTATCG-TATTTGAT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAT
* *
52985262 TCGTGTAAGACCCTGTCTGGGGCAG-TGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATAT
52985299 GAGATAGCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 24 0.39
42 12 0.19
43 26 0.42
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAT
Found at i:52985990 original size:30 final size:30
Alignment explanation
Indices: 52985954--52986014 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
52985944 ATAAGTTTAA
52985954 ATTTGAACCTATGGCATGTATAGGCTAGTT
1 ATTTGAACCTATGGCATGTATAGGCTAGTT
52985984 ATTTGAACCTATGGCATGTATAGGCTAGTT
1 ATTTGAACCTATGGCATGTATAGGCTAGTT
52986014 A
1 A
52986015 ATATGTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (30 bp):
ATTTGAACCTATGGCATGTATAGGCTAGTT
Found at i:52988042 original size:19 final size:19
Alignment explanation
Indices: 52988018--52988057 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
52988008 TAACCACAAC
52988018 GGTTGGAAATCAATTGAAG
1 GGTTGGAAATCAATTGAAG
*
52988037 GGTTGGGAATCAATTGAAG
1 GGTTGGAAATCAATTGAAG
52988056 GG
1 GG
52988058 CATAAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.25
Consensus pattern (19 bp):
GGTTGGAAATCAATTGAAG
Found at i:52990082 original size:15 final size:15
Alignment explanation
Indices: 52990062--52990103 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
52990052 TCAATGACAA
*
52990062 ATAATATAATATAAT
1 ATAATATTATATAAT
*
52990077 ATAATATTATATTAT
1 ATAATATTATATAAT
*
52990092 ATTATATTATAT
1 ATAATATTATAT
52990104 GAGGGTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATATTATATAAT
Found at i:52990758 original size:56 final size:56
Alignment explanation
Indices: 52990656--52990770 Score: 155
Period size: 56 Copynumber: 2.1 Consensus size: 56
52990646 TATATTAGTC
*
52990656 GTCACTTAATTATTAATATTTTTTTTAGTCACCTAATTATAAAAAGTTGT-AAAATA
1 GTCACTTAATTATTAATATTTTTTTTAGTCAACTAATTATAAAAAGTT-TCAAAATA
* *
52990712 GTCACTTAATTATTAGTAATTTTTTTTAGTCAACTAGA-TAT-GAAAGTTTCAAAATA
1 GTCACTTAATTATTAAT-ATTTTTTTTAGTCAACTA-ATTATAAAAAGTTTCAAAATA
52990768 GTC
1 GTC
52990771 CCTCAACTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
55 1 0.02
56 31 0.58
57 20 0.38
58 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (56 bp):
GTCACTTAATTATTAATATTTTTTTTAGTCAACTAATTATAAAAAGTTTCAAAATA
Found at i:52991835 original size:12 final size:12
Alignment explanation
Indices: 52991806--52991835 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52991796 ACTTGAATTC
52991806 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
52991818 CTTTTTCTTTTT
1 TTTTTTCTTTTT
52991830 TTTTTT
1 TTTTTT
52991836 TAACTTGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:52992682 original size:19 final size:19
Alignment explanation
Indices: 52992658--52992696 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
52992648 AAAATTTAAC
52992658 AATTAATAATTTACGTTTA
1 AATTAATAATTTACGTTTA
52992677 AATTAATAATTTACGTTTA
1 AATTAATAATTTACGTTTA
52992696 A
1 A
52992697 TTTATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
AATTAATAATTTACGTTTA
Found at i:53004065 original size:20 final size:20
Alignment explanation
Indices: 53004042--53004106 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
53004032 ATCGAGGGTT
53004042 ACCTAAGTACAAATAGGGGC
1 ACCTAAGTACAAATAGGGGC
** ** * *
53004062 ACCTCTGTGTAATTCAGGGGT
1 ACCTAAGTACAAAT-AGGGGC
*
53004083 ACCAAAGTACAAATAGGGGC
1 ACCTAAGTACAAATAGGGGC
53004103 ACCT
1 ACCT
53004107 CTGTGCAATT
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (20 bp):
ACCTAAGTACAAATAGGGGC
Found at i:53004080 original size:21 final size:21
Alignment explanation
Indices: 53004056--53004122 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
53004046 AAGTACAAAT
*
53004056 AGGGGCACCTCTGTGTAATTC
1 AGGGGCACCTCTGTGCAATTC
* *** * *
53004077 AGGGGTACCAAAGTACAAAT-
1 AGGGGCACCTCTGTGCAATTC
53004097 AGGGGCACCTCTGTGCAATTC
1 AGGGGCACCTCTGTGCAATTC
53004118 AGGGG
1 AGGGG
53004123 TACCAAAGTA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (21 bp):
AGGGGCACCTCTGTGCAATTC
Found at i:53004103 original size:41 final size:41
Alignment explanation
Indices: 53004036--53004240 Score: 223
Period size: 41 Copynumber: 5.0 Consensus size: 41
53004026 AAGTATATCG
* * *
53004036 AGGGTTACCTAAGTACAAATAGGGGCACCTCTGTGTAATTC
1 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
53004077 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
1 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
* * * * *
53004118 AGGGGTACCAAAGTAGAAATAGGGGAACATCTATGCAATTT
1 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
* * * * * * *
53004159 AGGGGTACCGAAGTAGAAACAGGGGCGCGTATGTACAATTC
1 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
* ** * *
53004200 AGAGGTACTGAAGTACAAA-AGGGTCACGTCTGTGCAATTC
1 AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
53004240 A
1 A
53004241 TTATTATTCT
Statistics
Matches: 140, Mismatches: 24, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
40 18 0.13
41 122 0.87
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
AGGGGTACCAAAGTACAAATAGGGGCACCTCTGTGCAATTC
Found at i:53011368 original size:41 final size:41
Alignment explanation
Indices: 53011250--53011369 Score: 136
Period size: 41 Copynumber: 3.0 Consensus size: 41
53011240 GTACATCTAG
*
53011250 GGGTACCGAAGTAC-AA-AGGGGAACATCTGTGCAATTCAA
1 GGGTACCGAAGTACAAACAGGGGCACATCTGTGCAATTCAA
* * * *
53011289 GGGTACCGAAGTACAAATAGGGGCACATATGTGTAATTCAG
1 GGGTACCGAAGTACAAACAGGGGCACATCTGTGCAATTCAA
** * * *
53011330 GGGTATTGAAGTACAAACATGGTCACGTCTGTGCAATTCA
1 GGGTACCGAAGTACAAACAGGGGCACATCTGTGCAATTCA
53011370 TCATTATTCT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.21
40 2 0.03
41 51 0.76
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (41 bp):
GGGTACCGAAGTACAAACAGGGGCACATCTGTGCAATTCAA
Found at i:53012369 original size:13 final size:13
Alignment explanation
Indices: 53012351--53012377 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53012341 GAAGTAATCG
53012351 CACACGGGCGTGT
1 CACACGGGCGTGT
53012364 CACACGGGCGTGT
1 CACACGGGCGTGT
53012377 C
1 C
53012378 CCTGGTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:53027965 original size:22 final size:20
Alignment explanation
Indices: 53027940--53028025 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 20
53027930 AGAAATATTT
53027940 ATTTTATTATTTTATGTTTTTA
1 ATTTT-TTATTTTAT-TTTTTA
*
53027962 A-TTTTTATTCAAACTATTTTTT-
1 ATTTTTTATT----TTATTTTTTA
*
53027984 ATTTTTTATTTTTTAATTTTTA
1 ATTTTTTA--TTTTATTTTTTA
*
53028006 ATTTTTAATTTTATTTTTTA
1 ATTTTTTATTTTATTTTTTA
53028026 GCAGATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
20 16 0.31
21 10 0.20
22 9 0.18
23 11 0.22
24 3 0.06
25 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (20 bp):
ATTTTTTATTTTATTTTTTA
Found at i:53027986 original size:7 final size:7
Alignment explanation
Indices: 53027976--53028025 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
53027966 TTATTCAAAC
53027976 TATTTTT
1 TATTTTT
53027983 TATTTTT
1 TATTTTT
53027990 TATTTTT
1 TATTTTT
*
53027997 TAATTTT
1 TATTTTT
*
53028004 TAATTTT
1 TATTTTT
*
53028011 TA-ATTT
1 TATTTTT
53028017 TATTTTT
1 TATTTTT
53028024 TA
1 TA
53028026 GCAGATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:53038617 original size:48 final size:48
Alignment explanation
Indices: 53038546--53038732 Score: 232
Period size: 48 Copynumber: 3.9 Consensus size: 48
53038536 CATTAGGGAA
* * *
53038546 TTCATTGATTTGGCTTCGGGCCATTATATTGGTACTTCGGGTGTAAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGC
** *
53038594 TTCATTGATTTGGCTTTAGGCCATGATATTGGAACTTCGGGTGTGAG-
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGC
* * ** *
53038641 TTACATTGATTTAGCTTCGGACCATGATATCAGCACTTCGGGTGCGAGC
1 TT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGC
* * *
53038690 TTCTTTGATTTGGCTTCGGGACATGATATTGGCACTTAGGGTG
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTG
53038733 CGAGACTCCC
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.02
48 113 0.97
49 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (48 bp):
TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGC
Found at i:53042862 original size:17 final size:17
Alignment explanation
Indices: 53042840--53042876 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
53042830 ATGCACTAAC
**
53042840 ATGAAAATGTGATGACA
1 ATGAAAATGAAATGACA
53042857 ATGAAAATGAAATGACA
1 ATGAAAATGAAATGACA
53042874 ATG
1 ATG
53042877 TATACTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (17 bp):
ATGAAAATGAAATGACA
Found at i:53065754 original size:27 final size:27
Alignment explanation
Indices: 53065723--53065900 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
53065713 TAAATCGTAC
53065723 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53065750 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
53065776 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53065803 CGACACTAAGTGTGCGAGTTTGACTATGT
1 AG-CACTAAGTGTGCGA-TTTGACTATGT
* *
53065832 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53065859 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53065886 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53065901 GACTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 22 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53065837 original size:82 final size:81
Alignment explanation
Indices: 53065725--53065879 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
53065715 AATCGTACAG
* *
53065725 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
53065789 GCGAATTGACCATGCGA
65 GCGAATTGACCATGCGA
** *
53065806 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
53065871 GCGAGTTGA
65 GCGAATTGA
53065880 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGA
Found at i:53071024 original size:48 final size:49
Alignment explanation
Indices: 53070959--53071278 Score: 214
Period size: 48 Copynumber: 6.7 Consensus size: 49
53070949 ACATCGGCGT
53070959 CGATGCCATGTCCCAAACATGGTCTTACACT-GATACATATAACAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGATACATATAACAATGC
** * **
53071007 CGATGCCATGTTGCAAACATGGTCTTACACTGGCT-C-TCAT-ATTATGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGATACAT-ATAACAAT-GC
* ** * * *
53071055 CGATGACATGTCCCAGGCATGGTCTTACACTGGCT-CACATAACAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGATACATATAACAATGC
* * * * ** * *
53071103 CGACGCCATGTTCCAAACATAGTCTTACAC-AGACTCACATAT--TGAGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGA-T-ACATATAACAATGC
* * * **
53071151 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCCATA-AACCGGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGG-ATACATATAA-CAATGC
* * * *
53071201 TGATGCCATGTCCCAAACATGGTCTTACACT-GACACATAT--CGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGATACATATAACAATGC
** * *
53071247 TAATGCCATGTCCCAGACATGGTATTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
53071279 ACTCTCATAT
Statistics
Matches: 210, Mismatches: 47, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
46 32 0.15
47 5 0.02
48 130 0.62
49 8 0.04
50 35 0.17
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGATACATATAACAATGC
Found at i:53071101 original size:96 final size:96
Alignment explanation
Indices: 53070904--53071287 Score: 350
Period size: 96 Copynumber: 4.0 Consensus size: 96
53070894 AAAAGGGTAA
* * ** * * *
53070904 AATGTCGATGCCATGTCCCGGACATGATTTTACACTGGCTCTCATA-CATCGGCGTCGATGCCAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTAT-GGC--CGATGCCAT
* * *
53070968 GTCCCAAACATGGTCTTACACT-GATACATATAAC
63 GTCCCAGACATGGTCTTACACTGGCT-CACATAAC
* *
53071002 AATGCCGATGCCATGTTGCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGACATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGCCATGTC
*
53071067 CCAGGCATGGTCTTACACTGGCTCACATAAC
66 CCAGACATGGTCTTACACTGGCTCACATAAC
* * * * * * *
53071098 AATGTCGACGCCATGTTCCAAACATAGTCTTACACAGACTCACATATTGA-GGTCGATGCCATGT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATT-ATGGCCGATGCCATGT
53071162 CCCAGACATGGTCTTACACTGGCTTC-CATAAACC
65 CCCAGACATGGTCTTACACTGGC-TCACAT-AA-C
** * * * * * **
53071196 GGTGCTGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCGA-GGCTAATGCCATGT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAT-TATGGCCGATGCCATGT
* * *
53071258 CCCAGACATGGTATTACACTGACTCTCATA
65 CCCAGACATGGTCTTACACTGGCTCACATA
53071288 TCACCATGGT
Statistics
Matches: 239, Mismatches: 39, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
95 3 0.01
96 156 0.65
97 7 0.03
98 71 0.30
99 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTATGGCCGATGCCATGTC
CCAGACATGGTCTTACACTGGCTCACATAAC
Found at i:53081117 original size:53 final size:54
Alignment explanation
Indices: 53080935--53081137 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
53080925 ATTAGGGTTT
* * * *
53080935 AAGGATACCAAGTAAGACCATGCCAA-AGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCAATGGTAAGTTCAATAAGGC
* * * * * * * * *
53080989 AAGAAAATCATGTAAGACCATGTCAAGACATGACATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCAATAAGGC
* * * *
53081044 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGC
* * *
53081097 AAGGATACCACGTAAAACCATGTCAAGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA
53081138 TGTTTAAAAA
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 41 0.35
54 34 0.29
55 41 0.35
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGC
Found at i:53085475 original size:40 final size:40
Alignment explanation
Indices: 53085431--53085516 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
53085421 TGTATTTGCC
*
53085431 TTCAGGAGTGCCAAAGTACAAACAGGGGCACGAATGTGCA
1 TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
* * * *
53085471 TTCAGGGGTATCGAAGTACAAACAGGGGCATGAATGTGCA
1 TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
53085511 TTCAGG
1 TTCAGG
53085517 GAATAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (40 bp):
TTCAGGAGTACCAAAGTACAAACAGGGGCACGAATGTGCA
Found at i:53085478 original size:20 final size:20
Alignment explanation
Indices: 53085453--53085517 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
53085443 AAAGTACAAA
53085453 CAGGGGCACGAATGTGCATT
1 CAGGGGCACGAATGTGCATT
* * **
53085473 CAGGGGTATCGAA-GTACAAA
1 CAGGGGCA-CGAATGTGCATT
*
53085493 CAGGGGCATGAATGTGCATT
1 CAGGGGCACGAATGTGCATT
53085513 CAGGG
1 CAGGG
53085518 AATAAATATA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.79
21 4 0.12
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGAATGTGCATT
Found at i:53094881 original size:64 final size:64
Alignment explanation
Indices: 53094801--53094984 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
53094791 AGACATTATG
* * *
53094801 ATGTAGCTAGGCCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53094865 ATGTAGCTAGGTCGCATGCGTGTTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTG-ATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53094930 AA
63 AA
* * * *
53094932 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53094985 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 6 0.06
66 17 0.18
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53097947 original size:39 final size:39
Alignment explanation
Indices: 53097880--53098105 Score: 301
Period size: 39 Copynumber: 5.5 Consensus size: 39
53097870 ACAAAGCATG
* * *
53097880 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
53097920 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
53097960 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
53097999 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCACGAATGCCTT
1 CGGGACTTAGCCCGGATAT-A-A-CA-C-C--A-GCACGAATGCCTT
53098046 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
53098085 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
53098106 TTCTCCATTA
Statistics
Matches: 171, Mismatches: 6, Indels: 19
0.87 0.03 0.10
Matches are distributed among these distances:
39 105 0.61
40 23 0.13
42 3 0.02
43 2 0.01
44 3 0.02
45 1 0.01
46 2 0.01
47 32 0.19
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:53098046 original size:47 final size:47
Alignment explanation
Indices: 53097947--53098081 Score: 196
Period size: 47 Copynumber: 3.0 Consensus size: 47
53097937 TATAACACCA
*
53097947 GCACGAATGCCTTCGGGACTTAGCCCGG--AT-AT---AGCAC-CA-
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
53097986 GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
*
53098033 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
53098080 GC
1 GC
53098082 CTTCAGGACT
Statistics
Matches: 86, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
39 28 0.33
41 2 0.02
42 2 0.02
45 5 0.06
46 1 0.01
47 48 0.56
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (47 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAAT
Found at i:53098092 original size:86 final size:86
Alignment explanation
Indices: 53097947--53098106 Score: 302
Period size: 86 Copynumber: 1.9 Consensus size: 86
53097937 TATAACACCA
* *
53097947 GCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTTAGCCC
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
53098012 GGATATAATACCAGCACGAAT
66 GGATATAATACCAGCACGAAT
53098033 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
53098098 GGATATAAT
66 GGATATAAT
53098107 TCTCCATTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (86 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCC
GGATATAATACCAGCACGAAT
Found at i:53104409 original size:39 final size:39
Alignment explanation
Indices: 53104319--53104622 Score: 430
Period size: 39 Copynumber: 7.5 Consensus size: 39
53104309 ACAAAGCATG
* * * *
53104319 CGGGACTTTAAGCCCGGATATAATACCAACAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
53104359 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
53104399 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
53104438 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
53104477 TGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
53104516 CGGGACTTAGCCTGGATATAATACCAGCACGAATGCACGAATGCCTT
1 CGGGACTTAGCCCGGATAT-A-A-CA-C-C--A-GCACGAATGCCTT
*
53104563 CGGGACTTAGCCCGGATATAACAACAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
53104602 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
53104623 TTCTCCATTA
Statistics
Matches: 246, Mismatches: 9, Indels: 19
0.90 0.03 0.07
Matches are distributed among these distances:
39 181 0.74
40 23 0.09
41 1 0.00
42 3 0.01
43 1 0.00
44 3 0.01
45 1 0.00
46 2 0.01
47 31 0.13
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:53104609 original size:86 final size:86
Alignment explanation
Indices: 53104464--53104623 Score: 293
Period size: 86 Copynumber: 1.9 Consensus size: 86
53104454 TATAACACCA
* * *
53104464 GCACGAATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCT
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACAACAGCACGAATGCCTTCGGGACTTAGCCC
53104529 GGATATAATACCAGCACGAAT
66 GGATATAATACCAGCACGAAT
53104550 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACAACAGCACGAATGCCTTCGGGACTTAGCCC
1 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACAACAGCACGAATGCCTTCGGGACTTAGCCC
53104615 GGATATAAT
66 GGATATAAT
53104624 TCTCCATTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (86 bp):
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACAACAGCACGAATGCCTTCGGGACTTAGCCC
GGATATAATACCAGCACGAAT
Found at i:53107709 original size:40 final size:40
Alignment explanation
Indices: 53107655--53107847 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
53107645 GATATAGCTT
*
53107655 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
53107695 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTAGAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
53107735 CTCGCACAAATGCCTTCAGGACTTAGCCTGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
53107775 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
53107814 CTCGCACAAATGCCTTCGGG-CTTAGCCCGATTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
53107848 CAATTCGAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 50 0.35
40 91 0.65
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:53110434 original size:18 final size:18
Alignment explanation
Indices: 53110411--53110446 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53110401 TATATGAATA
53110411 TATGGATAAATGTGGCTT
1 TATGGATAAATGTGGCTT
53110429 TATGGATAAATGTGGCTT
1 TATGGATAAATGTGGCTT
53110447 GAAATTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
TATGGATAAATGTGGCTT
Done.