Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 29 of 279
Found at i:9614406 original size:40 final size:41
Alignment explanation
Indices: 9614350--9614469 Score: 138
Period size: 40 Copynumber: 3.0 Consensus size: 41
9614340 TAGCCGGATA
* *
9614350 TAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTA-
1 TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
* * *
9614390 TAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG-AAT
1 TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
* * *
9614430 TAGCCACTAGCTCAAATG-CTCTCAGGACTTAGCCCGGTTA
1 TAGCAACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTA
9614470 ATATCTGAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.05
40 62 0.94
41 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
Found at i:9615903 original size:93 final size:93
Alignment explanation
Indices: 9615790--9615961 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9615780 CACCCATAAG
* *
9615790 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9615855 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
9615883 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9615948 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
9615962 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:9615958 original size:46 final size:46
Alignment explanation
Indices: 9615783--9615958 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9615773 TGTAACCCAC
* * *
9615783 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
9615829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
9615879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
9615922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
9615959 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:9620257 original size:16 final size:16
Alignment explanation
Indices: 9620236--9620274 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9620226 TCGGCAAATC
*
9620236 CCAAAATGACGAAAAG
1 CCAAAATGACAAAAAG
*
9620252 CCAAAATGTCAAAAAG
1 CCAAAATGACAAAAAG
9620268 CCAAAAT
1 CCAAAAT
9620275 TTTGGCTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (16 bp):
CCAAAATGACAAAAAG
Found at i:9620567 original size:28 final size:29
Alignment explanation
Indices: 9620485--9620574 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
9620475 AAAGCATGAC
**
9620485 TATGAATTTGATTTGGGCCTAATGGGCCA
1 TATGAATGAGATTTGGGCCTAATGGGCCA
* * *
9620514 TACGGATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGAGATTTGGGCCTAATGGGCCA
*
9620543 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGAGATTTGGGCCTAATGGGCCA
9620571 TATG
1 TATG
9620575 CATGTATGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.30
Consensus pattern (29 bp):
TATGAATGAGATTTGGGCCTAATGGGCCA
Found at i:9621720 original size:17 final size:18
Alignment explanation
Indices: 9621687--9621720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9621677 TCTATGGAAG
9621687 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
9621705 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
9621721 CTTCGATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:9624149 original size:27 final size:27
Alignment explanation
Indices: 9624118--9624311 Score: 262
Period size: 27 Copynumber: 7.2 Consensus size: 27
9624108 TAATTTACCC
9624118 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
9624145 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
9624172 AATCACCAAAATACCACTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* **
9624199 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAA
9624226 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
9624253 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
** *
9624280 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
9624307 AATTA
1 AATTA
9624312 TTGAAATACC
Statistics
Matches: 144, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:9624333 original size:54 final size:54
Alignment explanation
Indices: 9624118--9624393 Score: 241
Period size: 54 Copynumber: 5.1 Consensus size: 54
9624108 TAATTTACCC
* * * *
9624118 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTATAA
* * * * *
9624172 AATCACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTATAA
* * * *
9624226 AATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGA-TTTATAA
* * *** ** *
9624280 AATTACCAAAATACCCCTAATTTGTGAAATTATTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTATAA
*** * ** * * * *
9624334 AATTATTGAAATA-CTCTCAACTTGTAAAATTACCAAAGTACCCTTGATTTACAG
1 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTATAA
9624388 AATTAC
1 AATTAC
9624394 TATTTTACCC
Statistics
Matches: 180, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
53 3 0.02
54 175 0.97
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTATAA
Found at i:9624333 original size:81 final size:81
Alignment explanation
Indices: 9624118--9624376 Score: 279
Period size: 81 Copynumber: 3.2 Consensus size: 81
9624108 TAATTTACCC
* * * *
9624118 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTGTAAAATTATCAAAA
9624183 TACCACTAGTTTGTAA
66 TACCACTAGTTTGTAA
* ** *
9624199 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTATCAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTC-GGTTTGTAAAATTATCAAA
*
9624263 ATACCCCTAGTTTGTAA
65 ATACCACTAGTTTGTAA
** * * * *** **
9624280 AATTACCAAAATACCCCTAATTTGTGAAATTATTGAAATACCCTCGACCTGTAAAATTATTGAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTGTAAAATTATCAAAA
* **
9624345 TA-CTCTCAACTTGTAA
66 TACCACT-AGTTTGTAA
*
9624361 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
9624377 TTGATTTACA
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 3 0.02
81 144 0.97
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGGTTTGTAAAATTATCAAAA
TACCACTAGTTTGTAA
Found at i:9624429 original size:27 final size:27
Alignment explanation
Indices: 9624138--9624429 Score: 144
Period size: 27 Copynumber: 10.8 Consensus size: 27
9624128 ATACCCCTGG
***
9624138 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTGTAAAATTACTAAAATACCCTCAA
* * * *
9624165 TTTATAAAATCACCAAAATACCACT-AG
1 TTTGTAAAATTACTAAAATACC-CTCAA
* ***
9624192 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACTAAAATACCCTCAA
** * **
9624219 TTTACAAAATTACCAAAATACCC-CTGG
1 TTTGTAAAATTACTAAAATACCCTC-AA
*
9624246 TTTGTAAAATTA-TCAAAATACCC-CTAG
1 TTTGTAAAATTACT-AAAATACCCTC-AA
*
9624273 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTGTAAAATTACTAAAATACCCTC-AA
* * * *
9624300 TTTGTGAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTACTAAAATACCCTCAA
** * * *
9624327 CCTGTAAAATTATTGAAATACTCTCAA
1 TTTGTAAAATTACTAAAATACCCTCAA
* * * **
9624354 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTGTAAAATTACTAAAATACCCTCAA
** * ***
9624381 TTTACAGAATTACTATTTTACCCTCAA
1 TTTGTAAAATTACTAAAATACCCTCAA
**
9624408 TTTACAAAATTACTAAAATACC
1 TTTGTAAAATTACTAAAATACC
9624430 ATTGTAGGGT
Statistics
Matches: 211, Mismatches: 48, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
26 2 0.01
27 206 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAATACCCTCAA
Found at i:9624453 original size:27 final size:27
Alignment explanation
Indices: 9624423--9624743 Score: 403
Period size: 27 Copynumber: 12.0 Consensus size: 27
9624413 AAAATTACTA
** *
9624423 AAATACCATTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
9624450 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
9624477 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
9624504 AAATACCCCTGTAAGGTAGAATTAATG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
9624531 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
9624558 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
9624585 GAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
9624612 GAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
9624639 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
9624666 CAATACCCCTGTAGGG-AGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
9624692 AAATATCCCTGTAGGGTGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
9624719 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
9624744 ATTTTGCCCC
Statistics
Matches: 258, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 37 0.14
27 221 0.86
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:9625222 original size:22 final size:22
Alignment explanation
Indices: 9625171--9625234 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
9625161 TAAAGCCTTT
* *
9625171 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
9625193 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
* *
9625215 TGATTATGGTTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
9625235 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:9626354 original size:39 final size:39
Alignment explanation
Indices: 9626300--9626394 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
9626290 AAACCAAGTA
* * * *
9626300 CCTTCGGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
9626339 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
9626379 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
9626395 CGATTATCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 15 0.31
40 34 0.69
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:9630441 original size:122 final size:120
Alignment explanation
Indices: 9630225--9630449 Score: 344
Period size: 122 Copynumber: 1.9 Consensus size: 120
9630215 CCAAAATAAC
* * *
9630225 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCAAATCTTGATTTAACACGGAATG
1 CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCAAAACTAGATTTAACACGAAATG
* *
9630290 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGATATTAGCATAGTAATAT
66 TATGATAACTAACCTAACAATACAAATTAAATGATAGATATTAGCATAGTAATAT
* * *
9630345 CATGAGAAT-AAACATAGTAATGTCATGGGTATGGGGTTTTTCTAAGAACTAGATTTAATATGAA
1 CATGAGAATGAAA-ATAGTAATGTCATGGGTATGGGG-TTTTCCAA-AACTAGATTTAACACGAA
9630409 ATGTATGATAACTAACCTAACAATACAAATTAAATGATAGA
63 ATGTATGATAACTAACCTAACAATACAAATTAAATGATAGA
9630450 ATAATGAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 3 0.03
120 32 0.34
121 7 0.07
122 52 0.55
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (120 bp):
CATGAGAATGAAAATAGTAATGTCATGGGTATGGGGTTTTCCAAAACTAGATTTAACACGAAATG
TATGATAACTAACCTAACAATACAAATTAAATGATAGATATTAGCATAGTAATAT
Found at i:9635616 original size:42 final size:42
Alignment explanation
Indices: 9635548--9635638 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
9635538 CCCAACCTAT
* *
9635548 ATGCAACCTAATCAGACTATCCTATGAATGCACCAGGAATAC
1 ATGCAACCTAAACAGAATATCCTATGAATGCACCAGGAATAC
* * *
9635590 ATGCAACCTAAACAGAATATCTTATGAATGCAGCAGGTATAC
1 ATGCAACCTAAACAGAATATCCTATGAATGCACCAGGAATAC
9635632 ATGCAAC
1 ATGCAAC
9635639 ATCCATAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (42 bp):
ATGCAACCTAAACAGAATATCCTATGAATGCACCAGGAATAC
Found at i:9636070 original size:28 final size:28
Alignment explanation
Indices: 9636026--9636100 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
9636016 TGGCCCCTTT
* * *
9636026 AGGCTCAATCTCATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
9636054 -GGCCCCAATCACATTCATATGGCCCATC
1 AGG-CCCAATCACATTCATATGGCCCATC
*
9636082 AGGCCGAATCACATTCATA
1 AGGCCCAATCACATTCATA
9636101 GTCATGCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 37 0.90
29 2 0.05
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:9642676 original size:46 final size:46
Alignment explanation
Indices: 9642623--9642839 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 46
9642613 ATTTTGGGTT
*
9642623 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATCAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATCAGAGCC
* * * * *
9642669 AGTGTAAGACCATGTCTGGGACATGGTATC-GGCA-TTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATGA-TC-AGAGCC
* * * *
9642717 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGAT-CAGAGCC
* ** *
9642763 AGTGTAAGACATGTCTGGGACATGCATCGGATACAAGAT--GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATCAGAGCC
*
9642807 AGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
9642840 ATTCTACCCC
Statistics
Matches: 138, Mismatches: 21, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 57 0.41
47 34 0.25
48 20 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATCAGAGCC
Found at i:9643892 original size:30 final size:30
Alignment explanation
Indices: 9643858--9643918 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9643848 TTCCCGAGCC
9643858 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
9643888 TAGGGGCAAAATTGTAAGTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
9643918 T
1 T
9643919 GAGTTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:9656192 original size:45 final size:46
Alignment explanation
Indices: 9656040--9656251 Score: 177
Period size: 45 Copynumber: 4.6 Consensus size: 46
9656030 GTTATTGTGG
* * * *
9656040 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTA-TC-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGGATC-GGCAC-TAAGACGAGA
* * * *
9656086 ACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGG-ATCGGCACTAAGACGAGA
* *
9656134 GCTAGTGTAAGACATGTCTGGAACATGGATCGGC-CTAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGATCGGCACTAAGACG-AGA
* *
9656179 GCTAGTGTAAGACATGTCTGGGACATGCATCGG--CTATGA-GATGA
1 GCTAGTGTAAGACATGTCTGGGACATGGATCGGCACTAAGACGA-GA
* * *
9656223 GCCAATGTAAGACCATGTTTGGGACATGG
1 GCTAGTGTAAGA-CATGTCTGGGACATGG
9656252 CATCAGCATT
Statistics
Matches: 138, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 16 0.12
45 51 0.37
46 19 0.14
47 34 0.25
48 16 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGATCGGCACTAAGACGAGA
Found at i:9657446 original size:21 final size:22
Alignment explanation
Indices: 9657407--9657447 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9657397 TTGAAATGGT
*
9657407 CACATGGGTGTGTTGCCCCTCC
1 CACATGGGCGTGTTGCCCCTCC
9657429 CACATGGGCGTG-TGCCCCT
1 CACATGGGCGTGTTGCCCCT
9657448 GTATTTAGTA
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:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (22 bp):
CACATGGGCGTGTTGCCCCTCC
Found at i:9665712 original size:45 final size:45
Alignment explanation
Indices: 9665600--9665821 Score: 304
Period size: 45 Copynumber: 5.0 Consensus size: 45
9665590 CGATATCATT
* * * * *
9665600 TCACCGGTATTATAGCCTGCTAGTCTCGAATGCCCGAATA-TATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAAC
* *
9665644 ACACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAAC
* * *
9665689 TCACCGGCATTATAACCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAAC
** *
9665734 TCACCGGCATTATAGCCTGCTAGGCTCAAACACCTGAATAGTATA-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA-AC
9665779 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
9665822 CTGTACGATA
Statistics
Matches: 156, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
44 34 0.22
45 122 0.78
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAAC
Found at i:9665807 original size:135 final size:131
Alignment explanation
Indices: 9665556--9665821 Score: 365
Period size: 135 Copynumber: 2.0 Consensus size: 131
9665546 ACCTGAATTC
* * * * *
9665556 ACTCACTGGCATTTCACCTGCTAGGCTCGAAGCCCGATATCATTTCACCGGTATTATAGCCTGCT
1 ACTCACCGGCATTTAACCTGCTAGGCTCAAAGCCCGATATCATCTCACCGGCATTATAGCCTGCT
* * **
9665621 AGTCTCGAATGCCCGAATATATCACACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
66 AGGCTCAAACACCCGAATATATCACACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
9665686 A
131 A
9665687 ACTCACCGGCATTATAACCTGCTAGGCTCAAAAGCCCGAATAGT-ATCTCACCGGCATTATAGCC
1 ACTCACCGGCATT-TAACCTGCTAGGCTC-AAAGCCCG-ATA-TCATCTCACCGGCATTATAGCC
* *
9665751 TGCTAGGCTCAAACACCTGAATAGTAT-ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG
62 TGCTAGGCTCAAACACCCGAATA-TATCA-CACCGGCATTATAGCCTACTAGGCTCAAAGGCCCG
9665815 AATAGTA
125 AATAGTA
9665822 CTGTACGATA
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
131 12 0.10
132 14 0.12
133 7 0.06
134 40 0.34
135 45 0.38
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (131 bp):
ACTCACCGGCATTTAACCTGCTAGGCTCAAAGCCCGATATCATCTCACCGGCATTATAGCCTGCT
AGGCTCAAACACCCGAATATATCACACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
A
Found at i:9666697 original size:25 final size:25
Alignment explanation
Indices: 9666661--9666787 Score: 166
Period size: 25 Copynumber: 5.1 Consensus size: 25
9666651 TAATAAGGGC
*
9666661 TTTAACCTGAAATATTAAGAGCAAA
1 TTTAACCGGAAATATTAAGAGCAAA
**
9666686 TTTAACTAGAAATATTAAGAGCAAA
1 TTTAACCGGAAATATTAAGAGCAAA
*
9666711 TTTAACC-GAAATTATTAAGAACAAA
1 TTTAACCGGAAA-TATTAAGAGCAAA
* *
9666736 TTTGACCGGAATTATTAAGAGCAAA
1 TTTAACCGGAAATATTAAGAGCAAA
* *
9666761 TTTAACCGGAATTATTAAGAACAAA
1 TTTAACCGGAAATATTAAGAGCAAA
9666786 TT
1 TT
9666788 AACAAGCTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
24 4 0.04
25 84 0.92
26 3 0.03
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (25 bp):
TTTAACCGGAAATATTAAGAGCAAA
Found at i:9677529 original size:28 final size:27
Alignment explanation
Indices: 9677466--9677535 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
9677456 ATATTAAGTC
*
9677466 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
9677493 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
9677521 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
9677536 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:9677558 original size:29 final size:28
Alignment explanation
Indices: 9677465--9677560 Score: 104
Period size: 27 Copynumber: 3.4 Consensus size: 28
9677455 TATATTAAGT
* *
9677465 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
9677492 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * * *
9677520 TCGTACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
9677549 CCGCACACTTAG
1 CCGCACACTTAG
9677561 CGCCAATCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 22 0.37
28 22 0.37
29 15 0.25
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:9681330 original size:53 final size:53
Alignment explanation
Indices: 9681150--9681354 Score: 234
Period size: 55 Copynumber: 3.8 Consensus size: 53
9681140 AGGGTTTAAG
*
9681150 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC-AA
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAA
* * * * *
9681204 GAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAA
1 G-ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * * *
9681260 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* *
9681313 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
9681355 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 47 0.38
54 9 0.07
55 64 0.51
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:9681353 original size:108 final size:110
Alignment explanation
Indices: 9681154--9681354 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
9681144 TTTAAGGATA
*
9681154 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
9681219 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* *
9681264 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAA-AGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGA-AAACCATGTAA
*
9681325 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
9681355 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 4 0.05
108 46 0.55
109 7 0.08
110 27 0.32
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:9681496 original size:23 final size:24
Alignment explanation
Indices: 9681470--9681514 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9681460 AAGGTAAGAT
*
9681470 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
9681493 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
9681515 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:9690770 original size:44 final size:49
Alignment explanation
Indices: 9690613--9690828 Score: 145
Period size: 46 Copynumber: 4.6 Consensus size: 49
9690603 TATGTGTGCT
* * *
9690613 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATAGC---ATGAGAGCC
1 AGTGTAAGACCATATCTGGGACATGGCGTCAGCC-TTGCTATATGA-AGCC
* * * * * * *
9690659 AGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACCATATCTGGGACATGGCGTCAGCCTTGCTATAT-GAAGCC
* * *
9690707 AGTGTAAGACACGT-T-TGGGACATGGCGTCAG-CTTG-T-TATG-TGTC
1 AGTGTAAGAC-CATATCTGGGACATGGCGTCAGCCTTGCTATATGAAGCC
* *
9690751 AGTGTAAGACC-TATCTGGGACATGGCATCGGCCTTGCTATATGAAAGCC
1 AGTGTAAGACCATATCTGGGACATGGCGTCAGCCTTGCTATATG-AAGCC
*
9690800 AGTGTAAGACCATGTCTGGGACATGGCGT
1 AGTGTAAGACCATATCTGGGACATGGCGT
9690829 TGACATCTTA
Statistics
Matches: 135, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 25 0.19
45 7 0.05
46 34 0.25
47 4 0.03
48 25 0.19
49 20 0.15
50 17 0.13
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATATCTGGGACATGGCGTCAGCCTTGCTATATGAAGCC
Found at i:9704552 original size:43 final size:43
Alignment explanation
Indices: 9704504--9704590 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
9704494 AAATCGTACA
**
9704504 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAGTCACATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
*
9704547 ATGCCACTGTCCTAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
9704590 A
1 A
9704591 AATCACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:9708182 original size:19 final size:19
Alignment explanation
Indices: 9708149--9708188 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9708139 TGATTTTGTA
9708149 TTTTAGCCCATTTTCTCCGT
1 TTTTAGCCCATTTTCT-CGT
*
9708169 TTTTGGCCCA-TTTCTCGT
1 TTTTAGCCCATTTTCTCGT
9708187 TT
1 TT
9708189 CTTTTGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.07, C:0.28, G:0.12, T:0.53
Consensus pattern (19 bp):
TTTTAGCCCATTTTCTCGT
Found at i:9719294 original size:15 final size:15
Alignment explanation
Indices: 9719255--9719334 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
9719245 GTATCTTGGG
*
9719255 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
9719270 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
9719285 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
9719300 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
9719315 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
9719329 TTTCTT
1 TTTCTT
9719335 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:9719324 original size:30 final size:30
Alignment explanation
Indices: 9719246--9719333 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
9719236 CATAGTATCG
* * *
9719246 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
9719276 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
9719306 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
9719334 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:9721373 original size:46 final size:46
Alignment explanation
Indices: 9721316--9721433 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 46
9721306 CCGAGCACTC
9721316 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAT
* *
9721362 TGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAT
*
9721408 TGAGTTGAGTTCGAGTTCACTTATGG
1 TGAGTTGAGTCCGAGTTCACTTATGG
9721434 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCAT
Found at i:9727572 original size:47 final size:47
Alignment explanation
Indices: 9727507--9727669 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
9727497 ATCCATAAGT
9727507 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
9727554 GAACTCGGACTGAACTCAATGAGTTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
* *
9727600 GAACTCAGACTCAAATCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
9727647 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
9727670 TTTGGACGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 24 0.26
47 47 0.52
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:9727619 original size:93 final size:93
Alignment explanation
Indices: 9727460--9727725 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 93
9727450 CGCCCATAAG
* * * * * *
9727460 CGAACTTGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
9727525 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
9727553 CGAACTCGGACTGAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAAATCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
9727618 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
9727646 CGAACTCGGACTCAACTCAACGAGTTTGGACGTTGGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
9727711 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
9727726 CAAATATCTG
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:9727628 original size:46 final size:45
Alignment explanation
Indices: 9727453--9727721 Score: 190
Period size: 46 Copynumber: 5.8 Consensus size: 45
9727443 TGTAACTCGC
* * * *
9727453 CCATAAGCGAACTTGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
* *
9727499 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* * * *
9727549 -C-TCA-CGAACTCGGACTGAACTCAATGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
* * * *
9727592 CCATAAGTGAACTCAGACTCAAATCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* * *
9727642 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGTTGGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
* * * *
9727685 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
9727722 TGCCCAAATA
Statistics
Matches: 173, Mismatches: 32, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 4 0.02
45 4 0.02
46 83 0.48
47 51 0.29
48 4 0.02
49 4 0.02
50 6 0.03
51 5 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
Found at i:9730843 original size:48 final size:48
Alignment explanation
Indices: 9730770--9730891 Score: 172
Period size: 48 Copynumber: 2.5 Consensus size: 48
9730760 ACAGCATGAG
** **
9730770 AGCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGATATTTA
1 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATACA
* *
9730818 AGCCAGTGTAAGACATGTCTAGGACATACATCGGCCTCGCGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATACA
* *
9730866 AGCTAGTGTAAGACCTGTCTGGGACA
1 AGCCAGTGTAAGACATGTCTGGGACA
9730892 CGGCGTCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATACA
Found at i:9738119 original size:13 final size:14
Alignment explanation
Indices: 9738100--9738132 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9738090 TACTATATGA
9738100 AATTATATTT-TAT
1 AATTATATTTATAT
*
9738113 TATTATATTTATAT
1 AATTATATTTATAT
9738127 AATTAT
1 AATTAT
9738133 TAAAAGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTATATTTATAT
Found at i:9738788 original size:20 final size:20
Alignment explanation
Indices: 9738765--9738816 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
9738755 AAATCCAAAT
*
9738765 TAAAATACTGAAATTCTGGA
1 TAAAATACTGAAATTCAGGA
*
9738785 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
9738805 TAAGAATACTGA
1 TAA-AATACTGA
9738817 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:9743951 original size:78 final size:78
Alignment explanation
Indices: 9743829--9743977 Score: 298
Period size: 78 Copynumber: 1.9 Consensus size: 78
9743819 AACCGAACAA
9743829 GCCAAGAAAAGGACAGCCCAAAACCATCCAAGTACTGACCCAATTTAGCTCATTAGCTGATTATT
1 GCCAAGAAAAGGACAGCCCAAAACCATCCAAGTACTGACCCAATTTAGCTCATTAGCTGATTATT
9743894 TAAGCTCGAACTG
66 TAAGCTCGAACTG
9743907 GCCAAGAAAAGGACAGCCCAAAACCATCCAAGTACTGACCCAATTTAGCTCATTAGCTGATTATT
1 GCCAAGAAAAGGACAGCCCAAAACCATCCAAGTACTGACCCAATTTAGCTCATTAGCTGATTATT
9743972 TAAGCT
66 TAAGCT
9743978 TGCGAAGAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (78 bp):
GCCAAGAAAAGGACAGCCCAAAACCATCCAAGTACTGACCCAATTTAGCTCATTAGCTGATTATT
TAAGCTCGAACTG
Found at i:9747641 original size:45 final size:44
Alignment explanation
Indices: 9747573--9747657 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
9747563 AGAAGGAAAA
*
9747573 GTCGAGGATGTATTGGTACGTGTAGATAAATTTATCTTTCCTGCT
1 GTCGAGGATGTATTAGTACGTGTAGATAAATTTAT-TTTCCTGCT
* *
9747618 GTCGATGATGTATTAGTATGTGTAGATAAATTTATTTTCC
1 GTCGAGGATGTATTAGTACGTGTAGATAAATTTATTTTCC
9747658 CTATTGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 5 0.14
45 32 0.86
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (44 bp):
GTCGAGGATGTATTAGTACGTGTAGATAAATTTATTTTCCTGCT
Found at i:9754219 original size:27 final size:26
Alignment explanation
Indices: 9754162--9754242 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
9754152 AGCATGGTTG
* * *
9754162 CCAGAACTGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
9754188 TCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
9754215 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
9754242 C
1 C
9754243 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.11
27 41 0.89
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:9754314 original size:20 final size:20
Alignment explanation
Indices: 9754286--9754326 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9754276 CGGGTCTATA
*
9754286 ATCGGTACGAAGCCCACAAT
1 ATCGATACGAAGCCCACAAT
9754306 ATCGATACGAAGCCCACAAT
1 ATCGATACGAAGCCCACAAT
9754326 A
1 A
9754327 ACGGCACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGATACGAAGCCCACAAT
Found at i:9754437 original size:26 final size:27
Alignment explanation
Indices: 9754405--9754459 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9754395 GTCACTAGAT
9754405 ACAGATA-TTGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
*
9754431 ACAGATATTTGTGGCATAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
9754458 AC
1 AC
9754460 GCTTCCTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGAGCCACCAGA
Found at i:9754591 original size:202 final size:201
Alignment explanation
Indices: 9754314--9754709 Score: 706
Period size: 202 Copynumber: 2.0 Consensus size: 201
9754304 ATATCGATAC
*
9754314 GAAGCCCACAATAACGGCACACAGCCTTCGGTAACATGATCGGCACTCAGCCATTGATAACGGGT
1 GAAGCCCACAATAACGGCACACAGCCTTCGGTAACATGATCGGCACTCAGCCATCGAT-ACGGGT
* *
9754379 CTATTATTGTGACAAAGTCACTAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTG
65 CCAATATTGTGACAAAGTCACTAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTG
9754444 GCATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATATACATGTCATGGCAAAG
130 GCATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATATACATGTCATGGCAAAG
9754509 TCGGCAT
195 TCGGCAT
*
9754516 GAAGCCTACAATAACGGCACACAGCCTTCGGTAACATGATCGGCACTCAGCCATCGAT-C-GGTC
1 GAAGCCCACAATAACGGCACACAGCCTTCGGTAACATGATCGGCACTCAGCCATCGATACGGGTC
9754579 AACAGATATTGTGACAAAGTCACTAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTG
66 --CA-ATATTGTGACAAAGTCACTAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTG
9754644 TGGCATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATATACATGTCATGGCAA
128 TGGCATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATATACATGTCATGGCAA
9754709 A
193 A
9754710 CAACATACAG
Statistics
Matches: 187, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
199 4 0.02
200 1 0.01
201 1 0.01
202 181 0.97
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (201 bp):
GAAGCCCACAATAACGGCACACAGCCTTCGGTAACATGATCGGCACTCAGCCATCGATACGGGTC
CAATATTGTGACAAAGTCACTAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGG
CATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATATACATGTCATGGCAAAGT
CGGCAT
Found at i:9754618 original size:27 final size:26
Alignment explanation
Indices: 9754579--9754661 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
9754569 TCGATCGGTC
* *
9754579 AACAGATATTGTGACAAAGTCACTAG
1 AACAGATATTGTGACAAAGCCACCAG
* *
9754605 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
9754632 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAAAGCCACCAG
9754659 AAC
1 AAC
9754662 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:9754929 original size:27 final size:27
Alignment explanation
Indices: 9754892--9755507 Score: 705
Period size: 27 Copynumber: 22.6 Consensus size: 27
9754882 TTCCCCACAA
* *
9754892 GGGTATCTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9754919 GGGTATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
9754946 GGGTATTTCGGTATTTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
9754973 GGGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
9755000 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
9755027 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
9755054 TGGTATTTTAGTAATTCTACCC-ACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
9755080 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9755107 GGGTATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
9755134 GGGTATTTTAGTAATTCTACCCTGCAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
9755161 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
9755188 GGGTATTTCGGAAATTCTACCTTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
** * * *
9755215 GGGTATTTTGGTATTTTTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
9755242 GGGTATTTCGGTAATTCTACCCTATAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
9755269 GGGTATTTCAGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9755296 GGGTATTTCAGTAATTCTACCCTGCAGGGGTG
1 GGGTATTTCAGTAATTCTACCCTACA-----G
* * *
9755328 CAGGGTATTTCGGTATTTCTACCCTACAA
1 --GGGTATTTCAGTAATTCTACCCTACAG
* * *
9755357 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
9755384 GGGTATTTCAGTATTTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9755411 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9755438 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
9755465 GGGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
9755492 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
9755508 TTACAATCGA
Statistics
Matches: 504, Mismatches: 75, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.05
27 457 0.91
28 1 0.00
34 23 0.05
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:9755031 original size:81 final size:81
Alignment explanation
Indices: 9754888--9755500 Score: 782
Period size: 81 Copynumber: 7.5 Consensus size: 81
9754878 CATTTTCCCC
* * * * * *
9754888 ACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
* *
9754953 TCGGTATTTCTACCTT
66 TCAGTAATTCTACCTT
* *
9754969 ACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
*
9755034 TCAGTAATTCTACCCT
66 TCAGTAATTCTACCTT
*
9755050 AC-AGTGGTATTTTAGTAATTCTACCC-ACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTAT
1 ACAAG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTAT
9755113 TTCAGTAATTCTACCTT
65 TTCAGTAATTCTACCTT
* * *
9755130 ACAGGGGTATTTTAGTAATTCTACCCTGCAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
* *
9755195 TCGGAAATTCTACCTT
66 TCAGTAATTCTACCTT
* * ** * * * * *
9755211 ATAGGGGTATTTTGGTATTTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAAGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
9755276 TCAGTAATTCTACCTT
66 TCAGTAATTCTACCTT
*
9755292 ACAAGGGTATTTCAGTAATTCTACCCTGCAGGGGTGCAGGGTATTTCGGTATTTCTACCCTACAA
1 ACAAGGGTATTTCAGTAATTCTACCCTACA-----G--GGGTATTTCGGTATTTCTACCCTACAA
* * *
9755357 GGGTATTTCGGTATTTCTACCCT
59 GGGTATTTCAGTAATTCTACCTT
* * * *
9755380 ACAAGGGTATTTCAGTATTTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
* *
9755445 TTAGTAATTCTACCCT
66 TCAGTAATTCTACCTT
* *
9755461 ACAGGGGTATTTC-GATAATTCTACCTTACAGGGGTATTTC
1 ACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
9755501 AGTAATTTTA
Statistics
Matches: 469, Mismatches: 52, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
80 78 0.17
81 318 0.68
83 1 0.00
88 72 0.15
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATT
TCAGTAATTCTACCTT
Found at i:9755585 original size:27 final size:27
Alignment explanation
Indices: 9755492--9755642 Score: 130
Period size: 27 Copynumber: 5.6 Consensus size: 27
9755482 TACCTTACAG
9755492 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** ** * *
9755518 CAGTATTTTGGTAATTTTATAAACCG-
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
9755544 GGGATACTTT-GGTAATTTTACAAGTCGA
1 GGG-TA-TTTCAGTAATTTTACAAATCGA
* *
9755572 GGGTATTTCAGTAATTTTGCAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
9755599 GGGTATTTTAGTAATTTTGCAAAAT-GA
1 GGGTATTTCAGTAATTTTAC-AAATCGA
*
9755626 GGGTATTTCTGTAATTT
1 GGGTATTTCAGTAATTT
9755643 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
26 19 0.19
27 71 0.71
28 10 0.10
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:9760806 original size:48 final size:48
Alignment explanation
Indices: 9760730--9760923 Score: 343
Period size: 48 Copynumber: 4.0 Consensus size: 48
9760720 CAAGATAAAT
*
9760730 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
9760778 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
9760826 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
9760874 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
9760922 AT
1 AT
9760924 GTGTGTATAT
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:9761149 original size:36 final size:37
Alignment explanation
Indices: 9761064--9761202 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
9761054 GGAAATATAT
9761064 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
9761101 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
9761138 -CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
9761174 TCTGGGTAAGACCCGATAACTACATGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
9761203 GGACTATTCG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 35 0.36
37 62 0.64
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:9761184 original size:73 final size:73
Alignment explanation
Indices: 9761065--9761202 Score: 240
Period size: 73 Copynumber: 1.9 Consensus size: 73
9761055 GAAATATATT
* *
9761065 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGG
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGG
9761130 AGATTATG
66 AGATTATG
* *
9761138 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCTGGGTAAGACCCGATAACTACATGTGG
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGG
9761203 GGACTATTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (73 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACATGTGG
AGATTATG
Found at i:9763998 original size:11 final size:11
Alignment explanation
Indices: 9763982--9764006 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9763972 ATATGATATT
9763982 TTATTATTTTA
1 TTATTATTTTA
9763993 TTATTATTTTA
1 TTATTATTTTA
9764004 TTA
1 TTA
9764007 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:9767238 original size:43 final size:43
Alignment explanation
Indices: 9767210--9767307 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
9767200 TAGCCAAGCT
*
9767210 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCAAGAC
* ** * * * * *
9767253 ATGGTCTTACACGTAATCTCATGATGATGCCAATGCCCTATAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCAAGAC
9767296 ATGGTCTTACAC
1 ATGGTCTTACAC
9767308 ATAATCACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCAAGAC
Found at i:9773348 original size:51 final size:51
Alignment explanation
Indices: 9773252--9773351 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
9773242 TGTGGCGTAA
* * * *
9773252 ACATAGTACCACCCTTGTAGTCAAAGCTATCTTCTTCATAAAGTGGCCTTC
1 ACATAGTACCACACTTGTAGCCAAAGCTATATTCTTCACAAAGTGGCCTTC
*
9773303 ACATAGTACCACACTTGT-GACCAAAGCTATATT-TTACACATAGTGGCCT
1 ACATAGTACCACACTTGTAG-CCAAAGCTATATTCTT-CACAAAGTGGCCT
9773352 GCACTTTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
ACATAGTACCACACTTGTAGCCAAAGCTATATTCTTCACAAAGTGGCCTTC
Found at i:9787908 original size:234 final size:234
Alignment explanation
Indices: 9787499--9788200 Score: 1386
Period size: 234 Copynumber: 3.0 Consensus size: 234
9787489 GAAGTGTCGA
9787499 GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
1 GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
9787564 AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
66 AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
9787629 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
131 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
9787694 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
196 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
*
9787733 GCCAACTGAGTAACATAGGGGGCAATGGAGATGCCCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
1 GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
9787798 AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
66 AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
9787863 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
131 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
9787928 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
196 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
9787967 GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
1 GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
*
9788032 AATTGTGAGGGCAATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
66 AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
9788097 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
131 GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
9788162 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
196 GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
9788201 AAGGCCCAAA
Statistics
Matches: 465, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 465 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (234 bp):
GCCAACTGAGTAACATAGGGGGCAATGGAGATGACCCCCTTCCTATGCCGCTCCGTCTGGTGCTG
AATTGTGAGGGCGATGAAATAGGTAAGGTCGATGACGTGCCCGTGCGACATACACCATATAAAGT
GTAACGCCCCCATTTTTGGGTTTTCTGTGTTTCTGTGATTTTTAAAATTTGTGTGTGTTTTGGTT
GGTTAATATATATATTTTAGGAGGTTAGTGGGCCTTTGG
Found at i:9788964 original size:27 final size:27
Alignment explanation
Indices: 9788923--9789014 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
9788913 TGGATAAGTT
*
9788923 GTAGAATTACCGAAATACCCTTTTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
9788950 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
9788977 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
9789004 GTAAAATTACC
1 GTAGAATTACC
9789015 ATTTTGCCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:9790754 original size:54 final size:54
Alignment explanation
Indices: 9790690--9790798 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
9790680 TACTAGTGCG
* *
9790690 TCCCAGCACCGTGAAGGAGAATGATGGATGTGGCGGTTGAGAACATGTAAGTCA
1 TCCCAGCACCGTGAAGGAGAACGATGGATGTGGCGGTGGAGAACATGTAAGTCA
*
9790744 TCCCAGCACCGTGAAGGAGAACGATGGATGTGGCGGTGGAGAGCATGTAAGTCA
1 TCCCAGCACCGTGAAGGAGAACGATGGATGTGGCGGTGGAGAACATGTAAGTCA
9790798 T
1 T
9790799 TGTCTTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.19
Consensus pattern (54 bp):
TCCCAGCACCGTGAAGGAGAACGATGGATGTGGCGGTGGAGAACATGTAAGTCA
Found at i:9792464 original size:39 final size:38
Alignment explanation
Indices: 9792403--9792481 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
9792393 CTCAATTGAA
*
9792403 TGGGCATGGTGGTTTGAGGAGTTTATACTCCTCATTCC
1 TGGGCATGGTGGTTCGAGGAGTTTATACTCCTCATTCC
*
9792441 TGGGTCATGGTGGTTCGATGAGTTTATACTCCTCATTCC
1 TGGG-CATGGTGGTTCGAGGAGTTTATACTCCTCATTCC
9792480 TG
1 TG
9792482 CTACCATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 4 0.11
39 34 0.89
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (38 bp):
TGGGCATGGTGGTTCGAGGAGTTTATACTCCTCATTCC
Found at i:9805744 original size:46 final size:45
Alignment explanation
Indices: 9805543--9805849 Score: 164
Period size: 47 Copynumber: 6.6 Consensus size: 45
9805533 TTGTTGATAC
* * * * *
9805543 CATGTCCCAGACATGGTCTTACACTGGCTCACATATATGCGTGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATA-AT-TG-GCTGAAG
* * * *
9805592 CATGTCCTAGACATGTCTTACACTAGGACAACTC----TTAGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GG-C-ACTCATAATTGGCTGAAG
* * * *
9805636 CGTGTCCCAGACACGTCTTACACTGGCTATCTC-T-GTTGAGGC-CAATG
1 CATGTCCCAGACATGTCTTACACTGGC-A-CTCATAATT--GGCTGAA-G
*
9805683 CATGTCCCAGACATGTCTTACTCTGGCACTCATAATATGGCTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAAT-TGGCTGAAG
* * * * * * *
9805729 CATATCCCAGACATGTCTTGCACTAGCCCTCGT--TTGGATATCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAATTGG--CT-GAAG
* * *
9805775 CCATGTCCTAAACATGGACTTACACTGGCACTCATAATGTGGCTGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCATAAT-TGGCTGAAG
9805823 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
9805850 GCACAAATCA
Statistics
Matches: 197, Mismatches: 40, Indels: 45
0.70 0.14 0.16
Matches are distributed among these distances:
42 2 0.01
43 8 0.04
44 27 0.14
45 6 0.03
46 50 0.25
47 53 0.27
48 28 0.14
49 16 0.08
50 2 0.01
51 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATAATTGGCTGAAG
Found at i:9811833 original size:93 final size:93
Alignment explanation
Indices: 9811685--9811899 Score: 313
Period size: 93 Copynumber: 2.3 Consensus size: 93
9811675 CATTCGAACT
* * * *
9811685 CGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAGTTGAGTCCGAGC
1 CGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCATTAAGTTGAGTCCGAGC
* *
9811750 TCGTGAGATGTAACTAGGCATCCGAGCA
66 TCATGAGATGTAAATAGGCATCCGAGCA
* * * *
9811778 CGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTTATTAAGTTGAGTTCGAGT
1 CGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCATTAAGTTGAGTCCGAGC
*
9811843 TCATGAGATGTAAATAGGCATCCGAGCT
66 TCATGAGATGTAAATAGGCATCCGAGCA
* *
9811871 CGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGTTGAGTTGAGTCTGAGTTCACTTATGG
9811900 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 109 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (93 bp):
CGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCATTAAGTTGAGTCCGAGC
TCATGAGATGTAAATAGGCATCCGAGCA
Found at i:9811882 original size:47 final size:47
Alignment explanation
Indices: 9811729--9811891 Score: 154
Period size: 47 Copynumber: 3.5 Consensus size: 47
9811719 AACGTTCGAA
* * *
9811729 CTCGTTGAGTTGAGTCCGAGCTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAATAGGCATCCGAG
* * * ** *
9811776 CACGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAT--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAAATAGGCATCCGAG
** * *
9811822 CTTATTAAGTTGAGTTCGAGTTCATGAGATGTAAATAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAATAGGCATCCGAG
9811869 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
9811892 GCTTATGGGT
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
43 7 0.08
45 3 0.03
46 23 0.27
47 44 0.51
48 3 0.03
50 6 0.07
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAAATAGGCATCCGAG
Found at i:9814809 original size:15 final size:15
Alignment explanation
Indices: 9814786--9814845 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
9814776 GTATCGTATC
*
9814786 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
9814801 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
9814816 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
*
9814831 TTGAATTTCTTTATT
1 TTGGATTTCTTTATT
9814846 CGGTTTTCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:9814823 original size:30 final size:30
Alignment explanation
Indices: 9814787--9814855 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
9814777 TATCGTATCT
* *
9814787 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGAATTTCTTTATTC
*
9814817 TGGGTTTCTCTATCTTGAATTTCTTTATTC
1 TGGGTTTCTTTATCTTGAATTTCTTTATTC
*
9814847 -GGTTTTCTT
1 TGGGTTTCTT
9814856 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.61
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGAATTTCTTTATTC
Found at i:9817364 original size:47 final size:47
Alignment explanation
Indices: 9817307--9817661 Score: 362
Period size: 47 Copynumber: 7.6 Consensus size: 47
9817297 GATGCGAACG
* *
9817307 TCCGAACTCGTTGACTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
* * *
9817354 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCA
*
9817400 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
* * *
9817447 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCA
*
9817493 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
* * *
9817540 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCA
*
9817586 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
*
9817633 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
9817662 GCTTATGGGT
Statistics
Matches: 254, Mismatches: 27, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 9 0.04
43 12 0.05
45 9 0.04
46 84 0.33
47 110 0.43
48 9 0.04
50 12 0.05
51 9 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
Found at i:9817414 original size:46 final size:46
Alignment explanation
Indices: 9817279--9817615 Score: 320
Period size: 46 Copynumber: 7.3 Consensus size: 46
9817269 TTTGGGCATC
* *
9817279 AGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGACTTG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
* * * *
9817325 AGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAACTCGTTGAGTTG
9817372 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
* * * *
9817418 AGTCTGAGTTCA-TGA--GATG-TAACTAGGCATCCGAGCTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAACTCGTTGAGTTG
9817465 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
* * * *
9817511 AGTCTGAGTTCA-TGA--GATG-TAACTAGGCATCCGAGCTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAACTCGTTGAGTTG
9817558 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
*
9817604 AGTCTGAGTTCA
1 AGTCCGAGTTCA
9817616 TGAGATGTAA
Statistics
Matches: 237, Mismatches: 27, Indels: 54
0.75 0.08 0.17
Matches are distributed among these distances:
42 9 0.04
43 12 0.05
45 9 0.04
46 94 0.40
47 83 0.35
48 9 0.04
50 12 0.05
51 9 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
Found at i:9817443 original size:93 final size:93
Alignment explanation
Indices: 9817279--9817669 Score: 737
Period size: 93 Copynumber: 4.2 Consensus size: 93
9817269 TTTGGGCATC
* * * *
9817279 AGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGACTTGAGTCCGAGTTCGTGAGATG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
9817344 TAACTAGGCATCCGAGCTCGTTGAGTTG
66 TAACTAGGCATCCGAGCTCGTTGAGTTG
9817372 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
9817437 TAACTAGGCATCCGAGCTCGTTGAGTTG
66 TAACTAGGCATCCGAGCTCGTTGAGTTG
9817465 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
9817530 TAACTAGGCATCCGAGCTCGTTGAGTTG
66 TAACTAGGCATCCGAGCTCGTTGAGTTG
9817558 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
1 AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
9817623 TAACTAGGCATCCGAGCTCGTTGAGTTG
66 TAACTAGGCATCCGAGCTCGTTGAGTTG
*
9817651 AGTCCGAGTTCGCTTATGG
1 AGTCCGAGTTCACTTATGG
9817670 GTGGGTTACA
Statistics
Matches: 293, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 293 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCTGAGTTCATGAGATG
TAACTAGGCATCCGAGCTCGTTGAGTTG
Found at i:9823173 original size:16 final size:16
Alignment explanation
Indices: 9823152--9823194 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
9823142 ATGTATCGGC
* *
9823152 AAAAGCCGAAATGCTG
1 AAAAGCTGAAATGCCG
9823168 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
9823184 AAAAGCTGAAA
1 AAAAGCTGAAA
9823195 CTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:9823175 original size:8 final size:8
Alignment explanation
Indices: 9823152--9823194 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9823142 ATGTATCGGC
*
9823152 AAAAGCCG
1 AAAAGCTG
*
9823160 AAATGCTG
1 AAAAGCTG
9823168 AAAAGCTG
1 AAAAGCTG
* *
9823176 AAATGCCG
1 AAAAGCTG
9823184 AAAAGCTG
1 AAAAGCTG
9823192 AAA
1 AAA
9823195 CTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (8 bp):
AAAAGCTG
Found at i:9823460 original size:29 final size:28
Alignment explanation
Indices: 9823405--9823504 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
9823395 GTGAGTATGA
* *
9823405 ATATGAATGTGA-TTGGGTCTAACGGGCC
1 ATATAAATGTGATTTGGG-CTAATGGGCC
9823433 ATATAAATGTGATTTGGGCGTAATGGGCC
1 ATATAAATGTGATTTGGGC-TAATGGGCC
* *
9823462 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGG-CTAATGGGCC
* *
9823491 ATATGAATATGATT
1 ATATAAATGTGATT
9823505 AGGCTTAGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.20
29 48 0.79
30 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTAATGGGCC
Found at i:9823527 original size:57 final size:57
Alignment explanation
Indices: 9823413--9823528 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 57
9823403 GAATATGAAT
* * * *
9823413 GTGATTGGGTCTAACGGGCCATATAAATGTGATTTGGGCGTAATGGGCCATATACAG
1 GTGATTGGGCCTAACGGGCCATATAAATATGATTTAGGCGTAATGGGCCAGATACAG
* * * * *
9823470 GTGATTTGGGCCTAATGGGCCATATGAATATGA-TTAGGCTTAGTGGGCTAGATACAG
1 GTGA-TTGGGCCTAACGGGCCATATAAATATGATTTAGGCGTAATGGGCCAGATACAG
9823527 GT
1 GT
9823529 ATGTGAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 25 0.51
58 24 0.49
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (57 bp):
GTGATTGGGCCTAACGGGCCATATAAATATGATTTAGGCGTAATGGGCCAGATACAG
Found at i:9829209 original size:43 final size:43
Alignment explanation
Indices: 9829140--9829256 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
9829130 AGTAAATGTG
* * *
9829140 ATGGAATGGATTTATCTCGGACGGGTAATCCATTGATCTCAAT
1 ATGGAATGGATTTAGCCCCGACGGGTAATCCATTGATCTCAAT
* * *
9829183 ATGGAATGGATTTAGCCCCGATGGGTAATCCATTGATTTCAGT
1 ATGGAATGGATTTAGCCCCGACGGGTAATCCATTGATCTCAAT
** * * *
9829226 ATATAAAGGATTTAGCCCGGACGGATAATCC
1 ATGGAATGGATTTAGCCCCGACGGGTAATCC
9829257 TGAGTTGAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ATGGAATGGATTTAGCCCCGACGGGTAATCCATTGATCTCAAT
Found at i:9829355 original size:146 final size:143
Alignment explanation
Indices: 9829089--9829403 Score: 348
Period size: 146 Copynumber: 2.2 Consensus size: 143
9829079 ATGTAAAATG
* * * *
9829089 GGATTCAGCCTGGACGTGTAATCTTGAGTTAAACTCTCTCGAGTAAATGTGATGGAATGGATTTA
1 GGATTTAGCCTGGACG-GTAATCCTGAGTTAAACTCTCTCGAGTAAATATGATAGAATGGATTTA
* * * *
9829154 TCTCGGACGGGTAATCCATTGATCTCAATATGGAATGGATTTAGCCCCGATGGGTAATCCATTGA
65 TCTCAGACGGGTAATCCATTGATCTCAATATGGAAAGGATTTAGCCCCGACGGGTAATCCATCGA
9829219 T-TTCAGTATATAAA
130 TCTT-AGTATATAAA
* * *
9829233 GGATTTAGCCCGGACGGATAATCCTGAGTTGAACTTTCTTTCGAGTAAATATGATAGAATGGATT
1 GGATTTAGCCTGGACGG-TAATCCTGAGTTAAAC--TCTCTCGAGTAAATATGATAGAATGGATT
* * ** * ** *
9829298 TATCTCAGATGGGTAATCTATTG-T-TTTATATTGTAAAGGATTTAGCCAGGGACGGGTAATCTA
63 TATCTCAGACGGGTAATCCATTGATCTCAATA-TGGAAAGGATTTAGCC-CCGACGGGTAATCCA
*
9829361 TCGATCTTTGTATATAAA
126 TCGATCTTAGTATATAAA
*
9829379 GGATTTAGCCTGGATGGGTAATCCT
1 GGATTTAGCCTGGA-CGGTAATCCT
9829404 AATTGACTAG
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
143 1 0.01
144 32 0.23
145 15 0.11
146 90 0.63
147 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (143 bp):
GGATTTAGCCTGGACGGTAATCCTGAGTTAAACTCTCTCGAGTAAATATGATAGAATGGATTTAT
CTCAGACGGGTAATCCATTGATCTCAATATGGAAAGGATTTAGCCCCGACGGGTAATCCATCGAT
CTTAGTATATAAA
Found at i:9829357 original size:43 final size:43
Alignment explanation
Indices: 9829308--9829401 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
9829298 TATCTCAGAT
* *
9829308 GGGTAATCTATTG-T-TTTATATTGTAAAGGATTTAGCCAGGGAC
1 GGGTAATCTATCGATCTTTATA-TATAAAGGATTTAGCC-GGGAC
* * *
9829351 GGGTAATCTATCGATCTTTGTATATAAAGGATTTAGCCTGGAT
1 GGGTAATCTATCGATCTTTATATATAAAGGATTTAGCCGGGAC
9829394 GGGTAATC
1 GGGTAATC
9829402 CTAATTGACT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 23 0.52
44 16 0.36
45 5 0.11
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.36
Consensus pattern (43 bp):
GGGTAATCTATCGATCTTTATATATAAAGGATTTAGCCGGGAC
Found at i:9836776 original size:83 final size:84
Alignment explanation
Indices: 9836677--9837152 Score: 337
Period size: 85 Copynumber: 5.6 Consensus size: 84
9836667 ATTAAATCAA
* * * * *
9836677 AATAAAGTC-TGTTAAATGCCAGGAATAAATCTTGAAACA-AAATTATTTGATTAAGTCTTCGTT
1 AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAACAGAAATTATTTAATTAAGTCTTCGTT
* **
9836740 TAGAAACAAATCAGTATCG
66 TGGAAACAAATCAAAATCG
* * ** * **
9836759 AATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTATTTAATTTAATTC-TAAT
1 AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAACAGAAATTATTTAA-TTAAGTCTTCGT
*
9836823 TTGGAAACAAAATTAAAATCG
65 TTGGAAAC-AAATCAAAATCG
* ** * *
9836844 AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAATAGATTTTGTTTAATTATAAT-TTCTA
1 AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAACAGAAATTATTTAATTA-AGTCTTC--
*
9836908 GTTTTGGAAATAAAATCAAAAT-G
63 G-TTTGGAAA-CAAATCAAAATCG
* * * *
9836931 TAATAAAATC-TGTTGAATGACGGGAATAAATAGT-GAAACA-AAATTATTTGATTAAGTCTTCG
1 -AATAAAATCTTGTTAAATGGCGGGAATAAAT-CTCGAAACAGAAATTATTTAATTAAGTCTTCG
* *
9836993 TTTGGAAACAAATCAATATTG
64 TTTGGAAACAAATCAAAATCG
* * * * * ** * *
9837014 AATAAAATCTTGTTAAACGGTGAGAATAAATGC-CAAAATAG-TTTTAATTTAATTTAATTC-TA
1 AATAAAATCTTGTTAAATGGCGGGAATAAAT-CTCGAAACAGAAATT-ATTTAA-TTAAGTCTTC
* *
9837076 ATTTGGAAACAAAATTAAAATCG
63 GTTTGGAAAC-AAATCAAAATCG
*** ** *
9837099 AATAAAATCTTGTTAACCAGCAAGAATAAATCTCGAAACA-AATTTTATTTAATT
1 AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAACAGAA-ATTATTTAATT
9837153 TTAATTTTTT
Statistics
Matches: 312, Mismatches: 59, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
82 26 0.08
83 56 0.18
84 39 0.12
85 123 0.39
86 16 0.05
87 25 0.08
88 27 0.09
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (84 bp):
AATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAACAGAAATTATTTAATTAAGTCTTCGTT
TGGAAACAAATCAAAATCG
Found at i:9836858 original size:85 final size:85
Alignment explanation
Indices: 9836742--9837158 Score: 407
Period size: 85 Copynumber: 4.9 Consensus size: 85
9836732 TCTTCGTTTA
**
9836742 GAAAC-AAATCAGTATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTA
1 GAAACAAAATCAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTA
9836806 TTTAATTTAATTCTAATTTG
66 TTTAATTTAATTCTAATTTG
* * *
9836826 GAAACAAAATTAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCTCGAAATAGATTTTG
1 GAAACAAAATCAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTA
*
9836891 TTTAATTATAATTTCTAGTTTTG
66 TTTAATT-TAA-TTCTA-ATTTG
* * * *** * **
9836914 GAAATAAAATCAAAAT-GTAATAAAATC-TGTTGAATGACGGGAATAAATAGTGAAACA-AAATT
1 GAAACAAAATCAAAATCG-AATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTT
* * **
9836976 ATTTGA-TTAAGTCTTCGTTTG
65 ATTTAATTTAATTC-TAATTTG
* * * * * * *
9836997 GAAAC-AAATCAATATTGAATAAAATCTTGTTAAACGGTGAGAATAAATGCCAAAATAG-TTTTA
1 GAAACAAAATCAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTT-
9837060 ATTTAATTTAATTCTAATTTG
65 ATTTAATTTAATTCTAATTTG
* *** ** * * *
9837081 GAAACAAAATTAAAATCGAATAAAATCTTGTTAACCAGCAAGAATAAATCTCGAAACAAATTTTA
1 GAAACAAAATCAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTA
9837146 TTTAATTTTAATT
66 TTTAA-TTTAATT
9837159 TTTTTGTTTT
Statistics
Matches: 268, Mismatches: 51, Indels: 26
0.78 0.15 0.08
Matches are distributed among these distances:
82 18 0.07
83 33 0.12
84 24 0.09
85 115 0.43
86 21 0.08
87 30 0.11
88 27 0.10
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (85 bp):
GAAACAAAATCAAAATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTA
TTTAATTTAATTCTAATTTG
Found at i:9837152 original size:255 final size:256
Alignment explanation
Indices: 9836677--9837217 Score: 791
Period size: 255 Copynumber: 2.1 Consensus size: 256
9836667 ATTAAATCAA
* * * **
9836677 AATAAAGTCTGTTAAATGCCAGGAATAAATCTTGAAACAAAATTATTTGATTAAGTCTTCGTTTA
1 AATAAAATCTGTTGAATGACAGGAATAAATAGTGAAACAAAATTATTTGATTAAGTCTTCGTTTA
* * * *
9836742 GAAACAAATCAGTATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTTAT
66 GAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAATAGATTTTAT
** **
9836807 TTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAATGGCGGGAATA
131 TTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAATA
* * * *
9836872 AATCTCGAAATAGATTTTGTTTAATTATAA-TTTCTAGTTTTGGAAATAAAATCAAAATGT
196 AATCTCGAAACAAATTTTATTTAATTATAATTTTCTAGTTTTGGAAACAAAATCAAAATGT
* *
9836932 AATAAAATCTGTTGAATGACGGGAATAAATAGTGAAACAAAATTATTTGATTAAGTCTTCGTTTG
1 AATAAAATCTGTTGAATGACAGGAATAAATAGTGAAACAAAATTATTTGATTAAGTCTTCGTTTA
* * *
9836997 GAAACAAATCAATATTGAATAAAATCTTGTTAAACGGTGAGAATAAATGCCAAAATAG-TTTTAA
66 GAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAATAGATTTT-A
*
9837061 TTTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAACCAGCAAGAAT
130 TTTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAAT
* * * *
9837126 AAATCTCGAAACAAATTTTATTTAATTTTAATTTTTTTGTTTTGGCAACAAAATCAAAATGT
195 AAATCTCGAAACAAATTTTATTTAATTATAATTTTCTAGTTTTGGAAACAAAATCAAAATGT
*
9837188 AATAAAATCTGTTGAACTG-TAGGAATAAAT
1 AATAAAATCTGTTGAA-TGACAGGAATAAAT
9837218 CCAGAAACAA
Statistics
Matches: 254, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
254 4 0.02
255 197 0.78
256 51 0.20
257 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (256 bp):
AATAAAATCTGTTGAATGACAGGAATAAATAGTGAAACAAAATTATTTGATTAAGTCTTCGTTTA
GAAACAAATCAATATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAATAGATTTTAT
TTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAATA
AATCTCGAAACAAATTTTATTTAATTATAATTTTCTAGTTTTGGAAACAAAATCAAAATGT
Found at i:9837319 original size:255 final size:251
Alignment explanation
Indices: 9836677--9837332 Score: 588
Period size: 255 Copynumber: 2.6 Consensus size: 251
9836667 ATTAAATCAA
* * * * *
9836677 AATAAAGTCTGTTAAATGCCAGGAATAAAT-CTTGAAACAAAATTATTTGATTAAGTCTTCGTTT
1 AATAAAATCTGTTGAATGAC-GGAATAAATAC-AGAAACAAAATTATTTAATTAAGTCTTCG-TT
* * ** ** * * ** * * * *
9836741 A-GAAACAAATCAGTATCGAATAAAATCTTGTTAAATGGCGGGAATAAATCCCGAAATAGATTTT
63 AGGAAAAAAATAAAAAAGGAATAAAATCTCGTTAAACGATGAGAATAAATGCC-AAA-ACA-TTA
** **
9836805 ATTTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAATGGCGGGAA
125 ATTTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAA
* * * *
9836870 TAAATCTCGAAATAGATTTTGTTTAATTATAATTTCTAGTTTTGGAAATAAAATCAAAATGT
190 TAAATCTCGAAACAAATTTTATTTAATTATAATTTCTAGTTTTGGAAACAAAATCAAAATGT
** * *
9836932 AATAAAATCTGTTGAATGACGGGAATAAATAGTGAAACAAAATTATTTGATTAAGTCTTCGTTTG
1 AATAAAATCTGTTGAATGAC-GGAATAAATACAGAAACAAAATTATTTAATTAAGTCTTCGTTAG
* * * ** * * *
9836997 GAAACAAATCAATATTGAATAAAATCTTGTTAAACGGTGAGAATAAATGCCAAAATAGTTTTAAT
65 GAAAAAAATAAAAAAGGAATAAAATCTCGTTAAACGATGAGAATAAATGCCAAAACA---TTAAT
*
9837062 TTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAACCAGCAAGAATA
127 TTAATTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAATA
* * * *
9837127 AATCTCGAAACAAATTTTATTTAATTTTAATTTTTTTGTTTTGGCAACAAAATCAAAATGT
192 AATCTCGAAACAAATTTTATTTAATTATAA-TTTCTAGTTTTGGAAACAAAATCAAAATGT
* * * * *
9837188 AATAAAATCTGTTGAACTGTA-GGAATAAATCCAGAAAC-AATTTGTTTTAACTTTAATTTTTCG
1 AATAAAATCTGTTGAA-TG-ACGGAATAAATACAGAAACAAAATT-ATTTAA--TTAAGTCTTCG
* * * * *
9837251 TTAGGAAATAAAATAAAAAAAGGAATAAATTC-CGTTGAACGATGGGACTAAAT-CCTGAAACA-
61 TTAGGAAA-AAAAT-AAAAAAGGAATAAAATCTCGTTAAACGATGAGAATAAATGCC-AAAACAT
* *
9837313 TAATTTATTTTAATTTTAAT
123 TAATTTAATTTAATTCTAAT
9837333 ACTTGTTTTG
Statistics
Matches: 337, Mismatches: 51, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
253 2 0.01
254 5 0.01
255 213 0.63
256 60 0.18
257 2 0.01
258 19 0.06
259 24 0.07
260 12 0.04
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (251 bp):
AATAAAATCTGTTGAATGACGGAATAAATACAGAAACAAAATTATTTAATTAAGTCTTCGTTAGG
AAAAAAATAAAAAAGGAATAAAATCTCGTTAAACGATGAGAATAAATGCCAAAACATTAATTTAA
TTTAATTCTAATTTGGAAACAAAATTAAAATCGAATAAAATCTTGTTAAACAGCAAGAATAAATC
TCGAAACAAATTTTATTTAATTATAATTTCTAGTTTTGGAAACAAAATCAAAATGT
Found at i:9837364 original size:88 final size:85
Alignment explanation
Indices: 9837162--9837369 Score: 204
Period size: 86 Copynumber: 2.4 Consensus size: 85
9837152 TTTAATTTTT
* * * * *
9837162 TTGTTTTGGCAACAAAATCAAAATGTAATAAAATCTGTTGAACTGTAGGAATAAATCCAGAAACA
1 TTGTTTTGGAAATAAAATCAAAATGGAATAAATTCCGTTGAACTGTAGGAATAAATCCAGAAACA
* **
9837227 ATTTGTTTTAACTTTAATTT
66 ATTTATTTTAACTTTAATAC
* * * * * *
9837247 TTCG-TTAGGAAATAAAATAAAAAAAGGAATAAATTCCGTTGAAC-GATGGGACTAAATCCTGAA
1 TT-GTTTTGGAAATAAAAT-CAAAATGGAATAAATTCCGTTGAACTG-TAGGAATAAATCCAGAA
*
9837310 ACATAATTTATTTTAATTTTAATAC
63 AC--AATTTATTTTAACTTTAATAC
9837335 TTGTTTTGGAAATAAAATCAAAATTGGAATGAAAT
1 TTGTTTTGGAAATAAAATCAAAA-TGGAAT-AAAT
9837370 CCACTGAACA
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
85 14 0.14
86 37 0.38
87 5 0.05
88 37 0.38
89 4 0.04
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (85 bp):
TTGTTTTGGAAATAAAATCAAAATGGAATAAATTCCGTTGAACTGTAGGAATAAATCCAGAAACA
ATTTATTTTAACTTTAATAC
Found at i:9849316 original size:50 final size:50
Alignment explanation
Indices: 9849262--9849540 Score: 333
Period size: 50 Copynumber: 5.5 Consensus size: 50
9849252 CTGGTATGCA
* *
9849262 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
9849312 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * * *
9849362 TAGTAGCCTGCACTTAGTACTACCCACGTGATCGAAGCTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* * * *
9849413 TACTACCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *** *
9849463 TAGTATCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCTGGTACACG
* *
9849515 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
9849541 TGTGTTCTCA
Statistics
Matches: 193, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
50 120 0.62
51 39 0.20
52 34 0.18
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:9849429 original size:101 final size:100
Alignment explanation
Indices: 9849262--9849495 Score: 324
Period size: 101 Copynumber: 2.3 Consensus size: 100
9849252 CTGGTATGCA
* * * ** * *
9849262 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCGGGTACACATACTACCCTGCACTT
* *
9849327 AGTACTACACACGTGACCTAACCATCTGATACACG
66 AGTACTACACACGCGACCTAACAATCTGATACACG
* * *
9849362 TAGTAGCCTGCACTTAGTACTACCCACGTGATCGAAGCTATCGGGTACACATACTACCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAATCGGGTACACATACTACCCTGCACT
* *
9849427 TAGTACTACACATGCGACCTAACAATCTGGTACACG
65 TAGTACTACACACGCGACCTAACAATCTGATACACG
*
9849463 TAGTATCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
9849496 TAAAACCATC
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
100 32 0.28
101 84 0.72
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAATCGGGTACACATACTACCCTGCACTT
AGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:9851339 original size:47 final size:47
Alignment explanation
Indices: 9851235--9851489 Score: 217
Period size: 47 Copynumber: 5.5 Consensus size: 47
9851225 GTGAGCTAGC
*
9851235 GTAAGA-CATGTCTGGGACATGCATCGGCCACATT---ATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGCATCGG---CATTGAGATGAGTGCCAGT
* * *
9851281 GTAAGACCATGTTTGGGACATGGCATCGGCATTAAGATGAGTGCTAGT
1 GTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGATGAGTGCCAGT
* * *
9851329 GTAAGA-CATGTCTGGAACATGCATCGGCCTCGAGA--AGTAAGCCAGT
1 GTAAGACCATGTCTGGGACATGCATCGGCATTGAGATGAGT--GCCAGT
* *
9851375 GTAAGA-CATGTTTGGGACATGCATCGGC-TATGAGATGA-TAGTCAGT
1 GTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGATGAGT-GCCAGT
* ** * *
9851421 GTAAGACCATGTCTGGGATATGGCATC-AAATTGAGATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGATGAGTGCCAGT
*
9851468 GTAAGACCGTGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
9851490 GCATTGACAC
Statistics
Matches: 173, Mismatches: 22, Indels: 28
0.78 0.10 0.13
Matches are distributed among these distances:
44 3 0.02
45 5 0.03
46 66 0.38
47 69 0.40
48 30 0.17
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGCATCGGCATTGAGATGAGTGCCAGT
Found at i:9851465 original size:93 final size:93
Alignment explanation
Indices: 9851273--9851489 Score: 246
Period size: 93 Copynumber: 2.3 Consensus size: 93
9851263 CACATTATGA
*
9851273 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAAGATGAGTGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATGAAGATGAGTGCTAGTGTAAGACAT
***
9851338 GTCTGGAACATGCATCGGCCTCGAGAAGT
65 GTCTGGAACATGCATCGAAATCGAGAAGT
*
9851367 AAGCCAGTGTAAGA-CATGTTTGGGACATGCATCGGCTATG-AGATGA-TAG-TCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGC-ATGAAGATGAGT-GCT-AGTGTAAGA-
* * * *
9851428 CATGTCTGGGATATGGCATC-AAATTGAGATGT
62 CATGTCTGGAACAT-GCATCGAAATCGAGAAGT
* *
9851460 GAGCCAGTGTAAGACCGTGTCTGGGACATG
1 GAGCCAGTGTAAGACCATGTTTGGGACATG
9851490 GCATTGACAC
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
91 2 0.02
92 24 0.23
93 48 0.46
94 31 0.30
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (93 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCATGAAGATGAGTGCTAGTGTAAGACATG
TCTGGAACATGCATCGAAATCGAGAAGT
Found at i:9851489 original size:140 final size:140
Alignment explanation
Indices: 9851235--9851489 Score: 334
Period size: 140 Copynumber: 1.8 Consensus size: 140
9851225 GTGAGCTAGC
* *
9851235 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
** * *
9851300 ATGGCATCGGCATTAAGATGAGTGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGAGAA
66 ATGGCATCGAAATTAAGATGAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGAGAA
9851365 GTAAGCCAGT
131 GTAAGCCAGT
* * * * *
9851375 GTAAGACATGTTTGGGACATGCATCGGCTATGA-GATGATAGTCAGTGTAAGACCATGTCTGGGA
1 GTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAGAGCCAGTGTAAGACCATGTCTGGGA
* * * * *
9851439 TATGGCATC-AAATTGAGATGTGAGCCAGTGTAAGACCGTGTCTGGGACATG
65 CATGGCATCGAAATTAAGATGAGAGCCAGTGTAAGA-CATGTCTGGAACATG
9851490 GCATTGACAC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
139 20 0.21
140 76 0.78
141 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (140 bp):
GTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCGAAATTAAGATGAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGAGAA
GTAAGCCAGT
Found at i:9851491 original size:47 final size:48
Alignment explanation
Indices: 9851225--9851493 Score: 238
Period size: 46 Copynumber: 5.8 Consensus size: 48
9851215 GGTTACTTGC
* *
9851225 GTGAGCTAGCGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---AT
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGAT
* * *
9851271 GAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAAGAT
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
* * * * * * *
9851319 GAGTGCTAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCTCGAGAA
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
* *
9851365 GTAAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TATGAGAT
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAT
* * **
9851411 GAT-AGTCAGTGTAAGACCATGTCTGGGATATGGCATC-AAATTGAGAT
1 G-TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
*
9851458 GTGAGCCAGTGTAAGACCGTGTCTGGGACATGGCAT
1 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
9851494 TGACACTTTA
Statistics
Matches: 184, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 5 0.03
46 75 0.41
47 75 0.41
48 29 0.16
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
Found at i:9858397 original size:91 final size:93
Alignment explanation
Indices: 9858243--9858411 Score: 245
Period size: 91 Copynumber: 1.8 Consensus size: 93
9858233 AGGCCGATGC
* * * * * * *
9858243 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATCGTCTTACACTAGCTATCATGCATACGGGCCGATGCATGTCCCAAACATGT
9858308 CTTACACTAGCACGAAACTTAACCAATG
66 CTTACACTAGCACGAAACTTAACCAATG
9858336 CATGTCCCAGACA-CGTCTTACACTAGCTATCAT-CAT-CGAGGCCGATGCATGTCCCAAACATG
1 CATGTCCCAGACATCGTCTTACACTAGCTATCATGCATACG-GGCCGATGCATGTCCCAAACATG
9858398 TCTTACACTAGCAC
65 TCTTACACTAGCAC
9858412 TCATCTCTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 2 0.03
91 36 0.53
92 17 0.25
93 13 0.19
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (93 bp):
CATGTCCCAGACATCGTCTTACACTAGCTATCATGCATACGGGCCGATGCATGTCCCAAACATGT
CTTACACTAGCACGAAACTTAACCAATG
Found at i:9858401 original size:47 final size:48
Alignment explanation
Indices: 9858194--9858451 Score: 232
Period size: 47 Copynumber: 5.5 Consensus size: 48
9858184 TTGTCGCTGC
* * *
9858194 CATGTCCCAGACATGGTCTTACGCTGGCTATCACCATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * * * *
9858242 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTATCAT-CAT-CGAGGCCGATG
* * * *
9858292 CATGTCCCAGACAT-GTCTTACACTAGC-A-CGA--AACTTA-ACCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTATC-ATCATC-GAGGCCGATG
*
9858336 CATGTCCCAGACA-CGTCTTACACTAGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
9858383 CATGTCCCAAACAT-GTCTTACACTAGC-ACTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGAGGCCGATG
9858429 CAATGTCCCAGACATGGTCTTAC
1 C-ATGTCCCAGACATGGTCTTAC
9858452 GCCGGCTATC
Statistics
Matches: 171, Mismatches: 23, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 2 0.01
46 15 0.09
47 49 0.29
48 20 0.12
49 43 0.25
50 8 0.05
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:9858493 original size:141 final size:140
Alignment explanation
Indices: 9858194--9858451 Score: 360
Period size: 141 Copynumber: 1.8 Consensus size: 140
9858184 TTGTCGCTGC
* * * *
9858194 CATGTCCCAGACATGGTCTTACGCTGGCTATCACCATCGAGGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACA-CGTCTTACACTAGCTATCACCATCGAGGCCGATGCCATGTCCCAAACATGG
* * * * *
9858259 TCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCACGAA
65 TCTTACACTAGCACTCATCTATACG-GCCGATGCATGTCCCAGACATGTCTTACACCAGCACGAA
9858324 ACTTAACCAATG
129 ACTTAACCAATG
*
9858336 CATGTCCCAGACACGTCTTACACTAGCTATCATCATCGAGGCCGATG-CATGTCCCAAACAT-GT
1 CATGTCCCAGACACGTCTTACACTAGCTATCACCATCGAGGCCGATGCCATGTCCCAAACATGGT
*
9858399 CTTACACTAGCACTCATCTCTAC-GCCGATGCAATGTCCCAGACATGGTCTTAC
66 CTTACACTAGCACTCATCTATACGGCCGATGC-ATGTCCCAGACAT-GTCTTAC
9858452 GCCGGCTATC
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
137 7 0.07
138 13 0.12
139 28 0.27
140 13 0.12
141 30 0.29
142 13 0.12
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (140 bp):
CATGTCCCAGACACGTCTTACACTAGCTATCACCATCGAGGCCGATGCCATGTCCCAAACATGGT
CTTACACTAGCACTCATCTATACGGCCGATGCATGTCCCAGACATGTCTTACACCAGCACGAAAC
TTAACCAATG
Found at i:9862546 original size:48 final size:48
Alignment explanation
Indices: 9862427--9862599 Score: 229
Period size: 48 Copynumber: 3.6 Consensus size: 48
9862417 ATATCGATGA
* * ** **
9862427 CATGTCCTAGACATGGTCTTACACGAAATCACATATCGACACCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
*
9862475 CATGTCCCAGACATGCTCTTACATGGGATCACATATCGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
* **
9862523 CATGTCCCAGACATGGTCTTACATGGGATCAAATATCGATGCCAATTA
1 CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
* * *
9862571 CATATTCCGGACATGGTCTTACATGGGAT
1 CATGTCCCAGACATGGTCTTACATGGGAT
9862600 TACACATAAC
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
Found at i:9863535 original size:14 final size:14
Alignment explanation
Indices: 9863516--9863546 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9863506 GGTCTAATTA
9863516 CCATTTAATGACAT
1 CCATTTAATGACAT
9863530 CCATTTAATGACAT
1 CCATTTAATGACAT
9863544 CCA
1 CCA
9863547 ACTCAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (14 bp):
CCATTTAATGACAT
Found at i:9874048 original size:46 final size:46
Alignment explanation
Indices: 9873998--9874172 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
9873988 GATTGAGCAG
9873998 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * *
9874044 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
*
9874091 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* **
9874136 CCTGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9874173 GCGGGCTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:9877129 original size:47 final size:47
Alignment explanation
Indices: 9877058--9877368 Score: 505
Period size: 47 Copynumber: 6.6 Consensus size: 47
9877048 CCCTTCGGGA
* * * * * *
9877058 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9877105 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9877152 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9877199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9877246 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9877295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9877342 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
9877369 TATTCAAATA
Statistics
Matches: 249, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 204 0.82
49 45 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9877316 original size:143 final size:141
Alignment explanation
Indices: 9877058--9877368 Score: 505
Period size: 143 Copynumber: 2.2 Consensus size: 141
9877048 CCCTTCGGGA
* * * * *
9877058 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
9877123 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATC
9877188 GGCCATTAGGC
131 GGCCATTAGGC
* *
9877199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* * *
9877264 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
*
9877329 TCGGCCATTAGGT
129 TCGGCCATTAGGC
9877342 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
9877369 TATTCAAATA
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
141 48 0.31
143 109 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:9878844 original size:69 final size:70
Alignment explanation
Indices: 9878755--9878888 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
9878745 TAGTACATAA
* * * * *
9878755 TACCATGATTTTGTCCTAATTTGGAGAGCCAATAATTTA-AGTATTACAGCAGCATATTAATTAG
1 TACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
9878819 CTAAG
66 CTAAG
9878824 TACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 TACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
9878889 TAATAAACTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (70 bp):
TACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
CTAAG
Found at i:9895597 original size:24 final size:23
Alignment explanation
Indices: 9895561--9895605 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9895551 GAGTTCAAGT
*
9895561 GAGCCATGTCAGGAAGCTCATAA
1 GAGCCATATCAGGAAGCTCATAA
*
9895584 GAGCCTATATCAGGACGCTCAT
1 GAGCC-ATATCAGGAAGCTCAT
9895606 GTAGAGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
GAGCCATATCAGGAAGCTCATAA
Found at i:9897324 original size:37 final size:37
Alignment explanation
Indices: 9897274--9897348 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
9897264 AAATATCATG
9897274 ATTGTTAATGTAATTTTGATTTAACAAATTTACTTTT
1 ATTGTTAATGTAATTTTGATTTAACAAATTTACTTTT
9897311 ATTGTTAATGTAATTTTGATTTAACAAATTTACTTTT
1 ATTGTTAATGTAATTTTGATTTAACAAATTTACTTTT
9897348 A
1 A
9897349 CGAAATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (37 bp):
ATTGTTAATGTAATTTTGATTTAACAAATTTACTTTT
Found at i:9897537 original size:13 final size:13
Alignment explanation
Indices: 9897519--9897592 Score: 87
Period size: 13 Copynumber: 5.8 Consensus size: 13
9897509 TTCTTCATTA
9897519 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
9897532 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
9897545 CTGTGGAAAAG-G
1 CTTTTGAAAAGTG
* *
9897557 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
*
9897570 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
9897583 CTTTAGAAAA
1 CTTTTGAAAA
9897593 ATTTAAGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
12 9 0.18
13 42 0.82
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:9897592 original size:38 final size:38
Alignment explanation
Indices: 9897519--9897592 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
9897509 TTCTTCATTA
* *
9897519 CTTTTGAAAAGTGCTTTTGAAAAGTGCTGTGGAAAAGG
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTAGAAAAGG
* * *
9897557 CTTTTGAGAAGTACTTTTGAGAAGTGCTTTAGAAAA
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTAGAAAA
9897593 ATTTAAGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (38 bp):
CTTTTGAAAAGTACTTTTGAAAAGTGCTGTAGAAAAGG
Found at i:9899975 original size:36 final size:36
Alignment explanation
Indices: 9899935--9900012 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
9899925 ATGGACCCTC
*
9899935 GGATTAATCCATGGACAAAGTTAGACATAAGTTAGT
1 GGATTAATCCATGGAAAAAGTTAGACATAAGTTAGT
* * *
9899971 GGATTAATGCATGGAAAAAGTTAGACATGAGTTTGT
1 GGATTAATCCATGGAAAAAGTTAGACATAAGTTAGT
9900007 GGATTA
1 GGATTA
9900013 TTAATGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (36 bp):
GGATTAATCCATGGAAAAAGTTAGACATAAGTTAGT
Found at i:9903018 original size:35 final size:35
Alignment explanation
Indices: 9902978--9903050 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
9902968 AGAGAAAAGC
*
9902978 TGATTCAGAGGCAAAAGATTCGAGGAAGAGATTAA
1 TGATTCAGAGGCAAAAGATTCGAAGAAGAGATTAA
* * *
9903013 TGATTCAGAGGCAAGAGATTTGAAGAAGAGATTGA
1 TGATTCAGAGGCAAAAGATTCGAAGAAGAGATTAA
9903048 TGA
1 TGA
9903051 ATAAATCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (35 bp):
TGATTCAGAGGCAAAAGATTCGAAGAAGAGATTAA
Found at i:9906828 original size:28 final size:29
Alignment explanation
Indices: 9906797--9906852 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
9906787 ATCTGAAATA
9906797 CTGATAT-CATGGCCTGAAGCCAAATCAG
1 CTGATATGCATGGCCTGAAGCCAAATCAG
*
9906825 CTGATATGCATGGCGTGAAGCCAAATCA
1 CTGATATGCATGGCCTGAAGCCAAATCA
9906853 ATATAACTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (29 bp):
CTGATATGCATGGCCTGAAGCCAAATCAG
Found at i:9911082 original size:8 final size:8
Alignment explanation
Indices: 9911070--9911102 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
9911060 AATAGGGACT
*
9911070 AAAATGTT
1 AAAATGTG
9911078 AAAATGTG
1 AAAATGTG
9911086 AAAATGTG
1 AAAATGTG
9911094 AAAATGTG
1 AAAATGTG
9911102 A
1 A
9911103 GGGCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (8 bp):
AAAATGTG
Found at i:9911580 original size:42 final size:42
Alignment explanation
Indices: 9911465--9911582 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 42
9911455 TAGGATTCTG
* ** * * *
9911465 GTATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGACATC
1 GTATTTGATTTCGTGTAAGACCTTGTCTGGGACATCGACATC
*
9911507 -TATTTGATATTTACGTGTAAGACCATT-TCTGGGACATCGGCATC
1 GTATTTG--ATTT-CGTGTAAGACC-TTGTCTGGGACATCGACATC
*
9911551 GTATTTGATTTCGTGTAAGGCCTTGTCTGGGA
1 GTATTTGATTTCGTGTAAGACCTTGTCTGGGA
9911583 TAGTGGCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
41 7 0.11
42 17 0.27
43 8 0.13
44 24 0.39
45 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GTATTTGATTTCGTGTAAGACCTTGTCTGGGACATCGACATC
Found at i:9911591 original size:42 final size:43
Alignment explanation
Indices: 9911470--9911626 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
9911460 TTCTGGTATG
** * * * *
9911470 TGATTTCGTGTAAGACCACGTCTAGGACGTTGACATC--TATT
1 TGATTTCGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
9911511 TGATATTTACGTGTAAGACCATTTCTGGGACATCGGCATCG-TATT
1 TG--ATTT-CGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
* * *
9911556 TGATTTCGTGTAAGGCC-TTGTCTGGGATAGT-GGCATTGATATT
1 TGATTTCGTGTAAGACCATT-TCTGGGACA-TCGGCATCGATATT
* * **
9911599 TGATTACATGTAAGACCACATCTGGGAC
1 TGATTTCGTGTAAGACCATTTCTGGGAC
9911627 GTTGGCATTG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 4 0.04
42 24 0.26
43 34 0.37
44 25 0.27
45 6 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
Found at i:9920747 original size:47 final size:47
Alignment explanation
Indices: 9920681--9921060 Score: 638
Period size: 47 Copynumber: 8.1 Consensus size: 47
9920671 GAAATGATAG
9920681 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9920728 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9920775 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9920822 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9920869 TAAGGCCTAATGGCCGATGTGATG-A-GTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
9920916 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9920963 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
9921010 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
9921057 TAAG
1 TAAG
9921061 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 9 0.03
46 1 0.00
47 296 0.94
48 1 0.00
49 9 0.03
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:9921235 original size:37 final size:37
Alignment explanation
Indices: 9921179--9921257 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
9921169 CCGAGCTCTA
* *
9921179 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
9921216 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
9921253 AAGAC
1 AAGAC
9921258 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:9923784 original size:47 final size:47
Alignment explanation
Indices: 9923733--9924143 Score: 707
Period size: 47 Copynumber: 8.7 Consensus size: 47
9923723 TTAGGATTCT
* * *
9923733 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
9923780 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9923827 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9923874 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9923921 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9923968 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9924015 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
9924062 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
9924109 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
9924144 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 349 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:9924311 original size:37 final size:36
Alignment explanation
Indices: 9924262--9924338 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
9924252 CCGAGCTCTA
* *
9924262 AAGACCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCGATGACTACGTGTGGAGATTATGTCCGGGT
*
9924298 AAGACCCGATGACTTCGTGTGGAGATTATGTCCGGGT
1 AAGA-CCGATGACTACGTGTGGAGATTATGTCCGGGT
9924335 AAGA
1 AAGA
9924339 TGTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (36 bp):
AAGACCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:9925799 original size:40 final size:40
Alignment explanation
Indices: 9925556--9925785 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
9925546 GAGAATTGAG
*
9925556 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
9925596 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
9925636 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
9925676 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
9925716 AGTAATGTATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
9925756 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
9925786 TAATCATGCT
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 169 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:9929417 original size:47 final size:47
Alignment explanation
Indices: 9929366--9929823 Score: 801
Period size: 47 Copynumber: 9.7 Consensus size: 47
9929356 TTAGGATTCT
* * *
9929366 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
9929413 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929460 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929507 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929554 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929601 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929648 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9929695 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
9929742 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
9929789 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
9929824 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
46 1 0.00
47 396 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:9929998 original size:37 final size:37
Alignment explanation
Indices: 9929942--9930020 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
9929932 CCGAGCTCTA
* * *
9929942 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
9929979 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
9930016 AAGAC
1 AAGAC
9930021 GTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:9930288 original size:37 final size:37
Alignment explanation
Indices: 9930233--9930310 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
9930223 CCGAGCTCTA
* * *
9930233 AAGA-CCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
9930269 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
9930306 AAGAC
1 AAGAC
9930311 GTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:9930429 original size:290 final size:291
Alignment explanation
Indices: 9929908--9930487 Score: 1135
Period size: 290 Copynumber: 2.0 Consensus size: 291
9929898 ATTAATGTCT
9929908 GTAAGCTTCATGCTCGTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGT
1 GTAAGCTTCATGCTCGTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGT
9929973 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGTAAGACGTCGTAATAAGAATTGC
66 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGTAAGACGTCGTAATAAGAATTGC
9930038 TTATAATTATATTCAATGCGAAAGGTTAAGCAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
131 TTATAATTATATTCAATGCGAAAGGTTAAGCAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
9930103 TTGCACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGA
196 TTGCACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGA
9930168 TTATGTGACATCGGATCAGTGTGAGAGGTTC
261 TTATGTGACATCGGATCAGTGTGAGAGGTTC
*
9930199 GTAAGCTTCGTGCTCGTACTATATCCGAGCTCTAAAGA-CCGATGACTACGTGTGGGGATTTTGT
1 GTAAGCTTCATGCTCGTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGT
9930263 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGTAAGACGTCGTAATAAGAATTGC
66 CCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGTAAGACGTCGTAATAAGAATTGC
9930328 TTATAATTATATTCAATGCGAAAGGTTAAGCAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
131 TTATAATTATATTCAATGCGAAAGGTTAAGCAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
9930393 TTGCACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGA
196 TTGCACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGA
*
9930458 TTATGTGACATCGGATCTGTGTGAGAGGTT
261 TTATGTGACATCGGATCAGTGTGAGAGGTT
9930488 ATGTGAAATC
Statistics
Matches: 287, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
290 250 0.87
291 37 0.13
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (291 bp):
GTAAGCTTCATGCTCGTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGT
CCGGGTAAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGTAAGACGTCGTAATAAGAATTGC
TTATAATTATATTCAATGCGAAAGGTTAAGCAGGTATGTACTCCAAGTTTATATGTGAGCTTGAT
TTGCACTAAATCATAAGGTAGTTATGTGATGCATACGAGAGCAATCTATGAGACTATTCCTATGA
TTATGTGACATCGGATCAGTGTGAGAGGTTC
Found at i:9933406 original size:360 final size:360
Alignment explanation
Indices: 9932745--9933466 Score: 1444
Period size: 360 Copynumber: 2.0 Consensus size: 360
9932735 ATAGACCGCC
9932745 TGTGAGCTTGGGAGCTACCTCAGTAGCTAGTGTTGATAATGTTAGATCTAATCAACCCGAGTGTA
1 TGTGAGCTTGGGAGCTACCTCAGTAGCTAGTGTTGATAATGTTAGATCTAATCAACCCGAGTGTA
9932810 AACATTATGGTAAAAGACATCCTGGTAGCTGTAAATTGCATGATCGGGCATATTTTAAATGTGGA
66 AACATTATGGTAAAAGACATCCTGGTAGCTGTAAATTGCATGATCGGGCATATTTTAAATGTGGA
9932875 TCGACGGATCATTTCGTACATGAATGCCCTAAATTAGCTGAACAAGATACCATACAAAATACGAG
131 TCGACGGATCATTTCGTACATGAATGCCCTAAATTAGCTGAACAAGATACCATACAAAATACGAG
9932940 ATCGGGTAATTCTGCAGCTCGAGGTAGACCACCCAAAAATACGGGTAACGTGAGTAGCAGTCAGA
196 ATCGGGTAATTCTGCAGCTCGAGGTAGACCACCCAAAAATACGGGTAACGTGAGTAGCAGTCAGA
9933005 GAGGGACTAAAGATACAACAGTTAGATCCGAGGCTCATGCACCTGCTAGAGCCTATGCTATATGC
261 GAGGGACTAAAGATACAACAGTTAGATCCGAGGCTCATGCACCTGCTAGAGCCTATGCTATATGC
9933070 GCACGCGAGGAGGCTTCATCCCCAGATGTTATTAG
326 GCACGCGAGGAGGCTTCATCCCCAGATGTTATTAG
9933105 TGTGAGCTTGGGAGCTACCTCAGTAGCTAGTGTTGATAATGTTAGATCTAATCAACCCGAGTGTA
1 TGTGAGCTTGGGAGCTACCTCAGTAGCTAGTGTTGATAATGTTAGATCTAATCAACCCGAGTGTA
9933170 AACATTATGGTAAAAGACATCCTGGTAGCTGTAAATTGCATGATCGGGCATATTTTAAATGTGGA
66 AACATTATGGTAAAAGACATCCTGGTAGCTGTAAATTGCATGATCGGGCATATTTTAAATGTGGA
9933235 TCGACGGATCATTTCGTACATGAATGCCCTAAATTAGCTGAACAAGATACCATACAAAATACGAG
131 TCGACGGATCATTTCGTACATGAATGCCCTAAATTAGCTGAACAAGATACCATACAAAATACGAG
9933300 ATCGGGTAATTCTGCAGCTCGAGGTAGACCACCCAAAAATACGGGTAACGTGAGTAGCAGTCAGA
196 ATCGGGTAATTCTGCAGCTCGAGGTAGACCACCCAAAAATACGGGTAACGTGAGTAGCAGTCAGA
9933365 GAGGGACTAAAGATACAACAGTTAGATCCGAGGCTCATGCACCTGCTAGAGCCTATGCTATATGC
261 GAGGGACTAAAGATACAACAGTTAGATCCGAGGCTCATGCACCTGCTAGAGCCTATGCTATATGC
9933430 GCACGCGAGGAGGCTTCATCCCCAGATGTTATTAG
326 GCACGCGAGGAGGCTTCATCCCCAGATGTTATTAG
9933465 TG
1 TG
9933467 GTACATTTAC
Statistics
Matches: 362, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 362 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (360 bp):
TGTGAGCTTGGGAGCTACCTCAGTAGCTAGTGTTGATAATGTTAGATCTAATCAACCCGAGTGTA
AACATTATGGTAAAAGACATCCTGGTAGCTGTAAATTGCATGATCGGGCATATTTTAAATGTGGA
TCGACGGATCATTTCGTACATGAATGCCCTAAATTAGCTGAACAAGATACCATACAAAATACGAG
ATCGGGTAATTCTGCAGCTCGAGGTAGACCACCCAAAAATACGGGTAACGTGAGTAGCAGTCAGA
GAGGGACTAAAGATACAACAGTTAGATCCGAGGCTCATGCACCTGCTAGAGCCTATGCTATATGC
GCACGCGAGGAGGCTTCATCCCCAGATGTTATTAG
Found at i:9937284 original size:59 final size:59
Alignment explanation
Indices: 9937189--9937307 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
9937179 CCAATCGTGT
*
9937189 ACCCAATGCCTCCTGCAACTTCTTCCAGAACCGAGATGTAAACCTAGGGTCTCGATCAG
1 ACCCAATGCCTCCTGCAACTTCTGCCAGAACCGAGATGTAAACCTAGGGTCTCGATCAG
*
9937248 ACCCAATGCCTCCTGCAACTTCTGCCAGAACTGAGATGTAAACCTAGGGTCTCGATCAG
1 ACCCAATGCCTCCTGCAACTTCTGCCAGAACCGAGATGTAAACCTAGGGTCTCGATCAG
9937307 A
1 A
9937308 AATAATCGAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (59 bp):
ACCCAATGCCTCCTGCAACTTCTGCCAGAACCGAGATGTAAACCTAGGGTCTCGATCAG
Found at i:9951930 original size:80 final size:80
Alignment explanation
Indices: 9951787--9952089 Score: 387
Period size: 80 Copynumber: 3.8 Consensus size: 80
9951777 TCCTCGTTCA
* * * * * *
9951787 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
9951851 TTAACAACTCGCACG
66 TTAACAACTCGCACG
*
9951866 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
9951931 TTAACAACTCGCACG
66 TTAACAACTCGCACG
9951946 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
** * *
9952011 TTAGTATCTCGCACA
66 TTAACAACTCGCACG
* ** * * * * * *
9952026 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACTTAACCCGG
9952089 A
64 A
9952090 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 36 0.18
80 159 0.80
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:9952049 original size:120 final size:120
Alignment explanation
Indices: 9951817--9952089 Score: 363
Period size: 120 Copynumber: 2.3 Consensus size: 120
9951807 CGGTTTTAGT
* *
9951817 AACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * *
9951882 AACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
*
9951936 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
9952001 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
9952057 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
9952090 CAGCATTCAA
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
119 11 0.08
120 118 0.87
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:9952050 original size:40 final size:40
Alignment explanation
Indices: 9951787--9952036 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
9951777 TCCTCGTTCA
* * * ** *
9951787 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
9951826 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
9951866 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
9951906 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
9951946 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
9951986 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
9952026 AAGGCCTTCGG
1 AATGCCTTCGG
9952037 ATCTTAGTCC
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:9952098 original size:41 final size:41
Alignment explanation
Indices: 9952021--9952098 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
9952011 TTAGTATCTC
* * *
9952021 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
9952062 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
9952099 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Done.