Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 75 of 208
Found at i:21891808 original size:18 final size:18
Alignment explanation
Indices: 21891785--21891821 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21891775 TAGAGATTGA
*
21891785 GCTTAAATAATTTTTTTT
1 GCTTAAATAATTTTCTTT
21891803 GCTTAAATAATTTTCTTT
1 GCTTAAATAATTTTCTTT
21891821 G
1 G
21891822 TATTATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (18 bp):
GCTTAAATAATTTTCTTT
Found at i:21898334 original size:22 final size:22
Alignment explanation
Indices: 21898031--21898331 Score: 332
Period size: 22 Copynumber: 13.7 Consensus size: 22
21898021 AAGTAAAAAT
21898031 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
21898053 TATTGATTGAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
* *
21898075 TGTTCATTAAATTCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
21898097 TGTTAATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
21898119 TGTTGATTAAATGATGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * * *
21898141 TATTGATTGAATGTTGTCTAAT
1 TGTTGATTAAATGCTGTCCAAA
*
21898163 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
21898185 TGTTGATTTAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
21898207 TGTTGACTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * * *
21898229 TATGGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
21898251 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
21898273 TGTAGATTGAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
21898295 TGTTGATTAAATGCTATCCAAA
1 TGTTGATTAAATGCTGTCCAAA
*
21898317 TGTTAATTAAATGCT
1 TGTTGATTAAATGCT
21898332 ATCTGAATGT
Statistics
Matches: 228, Mismatches: 51, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 228 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TGTTGATTAAATGCTGTCCAAA
Found at i:21898343 original size:44 final size:44
Alignment explanation
Indices: 21898028--21898331 Score: 419
Period size: 44 Copynumber: 6.9 Consensus size: 44
21898018 TTGAAGTAAA
*
21898028 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* * * * *
21898072 AATTGTTCATTAAATTCTGTCCAAATGTTAATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* * * *
21898116 AATTGTTGATTAAATGATGTCCAAATATTGATTGAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* *
21898160 AATTGTTGATTAAATGTTGTCCAAATGTTGATTTAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* * * *
21898204 AATTGTTGACTAAATGCTGTCCAAATATGGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* *
21898248 AATTGTTGATTAAATGTTGTCCAAATGTAGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
* * *
21898292 AATTGTTGATTAAATGCTATCCAAATGTTAATTAAATGCT
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCT
21898332 ATCTGAATGT
Statistics
Matches: 226, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 226 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (44 bp):
AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGCTGTCC
Found at i:21906033 original size:22 final size:22
Alignment explanation
Indices: 21905975--21906299 Score: 341
Period size: 22 Copynumber: 14.8 Consensus size: 22
21905965 TTGAAGTAAA
21905975 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
21905997 AAAT-TTGATTGAATGCTGTAC
1 AATTGTTGATTAAATGCTGTCC
21906018 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
21906040 AAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* *
21906062 AATTGTTGATTAAAAGATGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
21906084 AAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
21906106 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
21906128 AAATATTGATTGAATTG-TGTCC
1 AATTGTTGATT-AAATGCTGTCC
21906150 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
21906172 AAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
*
21906194 AATTGTTGATTAAATGATGTCC
1 AATTGTTGATTAAATGCTGTCC
* * * *
21906216 GAA-TGTTGATTGAAGGTTGTTC
1 -AATTGTTGATTAAATGCTGTCC
*
21906238 AATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * * *
21906260 AAATGTTAATTAAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCC
* * *
21906282 AAATGTTGAATAATTGCT
1 AATTGTTGATTAAATGCT
21906300 ATTCGTTTTT
Statistics
Matches: 251, Mismatches: 47, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
21 24 0.10
22 221 0.88
23 6 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (22 bp):
AATTGTTGATTAAATGCTGTCC
Found at i:21906066 original size:44 final size:44
Alignment explanation
Indices: 21905975--21906299 Score: 447
Period size: 44 Copynumber: 7.4 Consensus size: 44
21905965 TTGAAGTAAA
* *
21905975 AATTGTTGATTAAATGCTGTCCAAAT-TTGATTGAATGCTGTAC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
*
21906018 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * *
21906062 AATTGTTGATTAAAAGATGTCCAAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
*
21906106 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAAT-TGTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGT-TGTCC
*
21906150 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * *
21906194 AATTGTTGATTAAATGATGTCCGAATGTTGATTGAAGGTTGTTC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * *
21906238 AATTGTTGATTAAATGTTGTCCAAATGTTAATTAAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * *
21906282 AAATGTTGAATAATTGCT
1 AATTGTTGATTAAATGCT
21906300 ATTCGTTTTT
Statistics
Matches: 250, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
43 26 0.10
44 223 0.89
45 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (44 bp):
AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
Found at i:21906255 original size:11 final size:11
Alignment explanation
Indices: 21906153--21906290 Score: 63
Period size: 11 Copynumber: 12.5 Consensus size: 11
21906143 TGTGTCCAAT
21906153 TGTTGATTAAA
1 TGTTGATTAAA
* *
21906164 TGCTG-TCCAAA
1 TGTTGAT-TAAA
*
21906175 TGTTGATTTAA
1 TGTTGATTAAA
* *
21906186 TGTTG-TCCAAT
1 TGTTGAT-TAAA
21906197 TGTTGATTAAA
1 TGTTGATTAAA
* **
21906208 TGATG-TCCGAA
1 TGTTGAT-TAAA
*
21906219 TGTTGATTGAA
1 TGTTGATTAAA
* *
21906230 GGTTG-TTCAAT
1 TGTTGATT-AAA
21906241 TGTTGATTAAA
1 TGTTGATTAAA
*
21906252 TGTTG-TCCAAA
1 TGTTGAT-TAAA
*
21906263 TGTTAATTAAA
1 TGTTGATTAAA
21906274 TGTTG-TCTAAA
1 TGTTGAT-TAAA
21906285 TGTTGA
1 TGTTGA
21906291 ATAATTGCTA
Statistics
Matches: 91, Mismatches: 24, Indels: 23
0.66 0.17 0.17
Matches are distributed among these distances:
10 7 0.08
11 78 0.86
12 6 0.07
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (11 bp):
TGTTGATTAAA
Found at i:21917680 original size:20 final size:20
Alignment explanation
Indices: 21917633--21917699 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
21917623 TTGTACGGGA
*
21917633 TTTGCACTTCGGTGCCCCTA
1 TTTGCACTTCGGTGCCCCTG
* * * *
21917653 TATACACTTCGGTGTCCTTG
1 TTTGCACTTCGGTGCCCCTG
* *
21917673 TTTGCACTACAGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
21917693 TTTGCAC
1 TTTGCAC
21917700 ATTTCTGTCC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.13, C:0.31, G:0.19, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:21918780 original size:24 final size:24
Alignment explanation
Indices: 21918753--21918799 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
21918743 TAGGTTGTTG
21918753 AAATGACATATTTATGCATGTTTT
1 AAATGACATATTTATGCATGTTTT
*
21918777 AAATGGCATATTTATGCATGTTT
1 AAATGACATATTTATGCATGTTT
21918800 GAATGATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (24 bp):
AAATGACATATTTATGCATGTTTT
Found at i:21920793 original size:20 final size:21
Alignment explanation
Indices: 21920741--21920796 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
21920731 TAAAACTAAA
*
21920741 AGTGTGGATAAAAACATTGGTG
1 AGTGT-GATAAAAGCATTGGTG
*
21920763 AG-G-GTTAAAAGCATT-GTG
1 AGTGTGATAAAAGCATTGGTG
21920781 AGTGTGATAAAAGCAT
1 AGTGTGATAAAAGCAT
21920797 AGAACGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 10 0.34
21 1 0.03
22 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (21 bp):
AGTGTGATAAAAGCATTGGTG
Found at i:21921926 original size:30 final size:30
Alignment explanation
Indices: 21921892--21921951 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21921882 TTAATTAAAG
*
21921892 TTATTCAATTTATTTTCCTTTGGAAGCGAA
1 TTATTCAATTTATTTTCCTTTGCAAGCGAA
21921922 TTATTCAATTTATTTTCCTTTGCAAGCGAA
1 TTATTCAATTTATTTTCCTTTGCAAGCGAA
21921952 GAGATTCGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.47
Consensus pattern (30 bp):
TTATTCAATTTATTTTCCTTTGCAAGCGAA
Found at i:21922854 original size:22 final size:22
Alignment explanation
Indices: 21922826--21922867 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21922816 CCGCTACACA
21922826 CCATAATAACTTTCGTAGAACT
1 CCATAATAACTTTCGTAGAACT
* *
21922848 CCATAATGAGTTTCGTAGAA
1 CCATAATAACTTTCGTAGAA
21922868 TTCGTTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (22 bp):
CCATAATAACTTTCGTAGAACT
Found at i:21926984 original size:30 final size:31
Alignment explanation
Indices: 21926950--21927017 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
21926940 TTGCCCAAGA
** * **
21926950 GTAAATACTCAAAATTTGAGGGGTTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACTAATAGT
21926980 GTAAATACGAAAAATTTGAAGGACTAATAGT
1 GTAAATACGAAAAATTTGAAGGACTAATAGT
21927011 GTAAATA
1 GTAAATA
21927018 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACTAATAGT
Found at i:21930479 original size:23 final size:22
Alignment explanation
Indices: 21930442--21930484 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21930432 TAAATACCAC
*
21930442 CCCTCATTCGCTCATTTCATCAT
1 CCCTCATTCACTCA-TTCATCAT
*
21930465 CCCTCATTCATTCATTCATC
1 CCCTCATTCACTCATTCATC
21930485 TCTCTCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.19, C:0.40, G:0.02, T:0.40
Consensus pattern (22 bp):
CCCTCATTCACTCATTCATCAT
Found at i:21932253 original size:14 final size:14
Alignment explanation
Indices: 21932234--21932261 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21932224 TAAAGTTATA
21932234 TTTAATAATTCATT
1 TTTAATAATTCATT
21932248 TTTAATAATTCATT
1 TTTAATAATTCATT
21932262 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:21939971 original size:14 final size:14
Alignment explanation
Indices: 21939952--21939979 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21939942 TAAAGTTATA
21939952 TTTAATAATTCATT
1 TTTAATAATTCATT
21939966 TTTAATAATTCATT
1 TTTAATAATTCATT
21939980 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:21948521 original size:43 final size:41
Alignment explanation
Indices: 21948467--21948615 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 41
21948457 AAAAAACTAG
*
21948467 TAAAGGTCATGTTTTATAGTGACAATTTTAGTAAAAGCGTCGC
1 TAAAGGTCATGTTTTATAGTGACATTTTTAGTAAAAG-G-CGC
* * * * *
21948510 TAAAGGTCATGTTCTT-TAGCGGCGTTTTTGGGAAAAGTGCGGC
1 TAAAGGTCATGTT-TTATAGTGACATTTTTAGTAAAAG-GC-GC
* * *
21948553 TAAAAGTCATGTTCTATAGT-AGCTTTTTTAGTAAAAGGCCGC
1 TAAAGGTCATGTTTTATAGTGA-CATTTTTAGTAAAAGG-CGC
*
21948595 TAAAGGTCATGTTTTTTAGTG
1 TAAAGGTCATGTTTTATAGTG
21948616 GCGTTTGTGG
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
42 22 0.27
43 59 0.71
44 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (41 bp):
TAAAGGTCATGTTTTATAGTGACATTTTTAGTAAAAGGCGC
Found at i:21948598 original size:42 final size:43
Alignment explanation
Indices: 21948492--21948607 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
21948482 ATAGTGACAA
* * *
21948492 TTTTAGTAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGT
1 TTTTAGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGT
* * * * * * *
21948535 TTTTGGGAAAAGTGCGGCTAAAAGTCATGTTCTATAGTAGCTT
1 TTTTAGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGT
21948578 TTTTAGTAAAAG-GCCGCTAAAGGTCATGTT
1 TTTTAGTAAAAGCGCCGCTAAAGGTCATGTT
21948608 TTTTAGTGGC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 16 0.27
43 43 0.73
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TTTTAGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCAGCGT
Found at i:21954020 original size:35 final size:35
Alignment explanation
Indices: 21953974--21954040 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
21953964 TTTTTCTATT
21953974 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
* *
21954009 CTTTAAATGTTTGTGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAGTTATGATAATCAT
21954041 CTTTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
Found at i:21956307 original size:15 final size:16
Alignment explanation
Indices: 21956284--21956314 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21956274 AAAAATTGAG
21956284 AAAGAAAAGTGCAGAA
1 AAAGAAAAGTGCAGAA
21956300 AAAG-AAAGTGCAGAA
1 AAAGAAAAGTGCAGAA
21956315 TAAATCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.06, G:0.26, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGTGCAGAA
Found at i:21957704 original size:41 final size:41
Alignment explanation
Indices: 21957655--21957771 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 41
21957645 GATTTTGCTT
* *
21957655 ACCTTTTGC-GACGTTTGTGAGAAAACGCCGCTATAGTTCTA
1 ACCTTTTGCAG-CGTTTATGAGAAAATGCCGCTATAGTTCTA
* *
21957696 ACCTTTTGCAGCATTTATGAGAAAAATGACGCTATAGTTCTA
1 ACCTTTTGCAGCGTTTATGAG-AAAATGCCGCTATAGTTCTA
*
21957738 ACCTTTTGCAGTGTTTATGAGAAAATGCCGCTAT
1 ACCTTTTGCAGCGTTTATGAGAAAATGCCGCTAT
21957772 TGCTTTACTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 29 0.43
42 38 0.57
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
ACCTTTTGCAGCGTTTATGAGAAAATGCCGCTATAGTTCTA
Found at i:21970333 original size:25 final size:25
Alignment explanation
Indices: 21970304--21970410 Score: 144
Period size: 25 Copynumber: 4.3 Consensus size: 25
21970294 ATTCCCACTC
21970304 ACAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
* *
21970329 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATCT
* *
21970354 ATAGCTCGTGAAAGCATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
* *
21970379 ACAGCTCATGTGAGCATACCGAT-T
1 ACAGCTCGTGAGAGCATACCGATCT
21970403 CACAGCTC
1 -ACAGCTC
21970411 TATGAGCATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 1 0.01
25 70 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATCT
Found at i:21970410 original size:50 final size:50
Alignment explanation
Indices: 21970302--21970410 Score: 182
Period size: 50 Copynumber: 2.2 Consensus size: 50
21970292 ACATTCCCAC
* *
21970302 TCACAGCTCGTGAGAGCATACCGATCTACAGCTCGTGTGAGCATACCGAT
1 TCACAGCTCGTGAAAGCATACCGATCTACAGCTCATGTGAGCATACCGAT
* *
21970352 TTATAGCTCGTGAAAGCATACCGATCTACAGCTCATGTGAGCATACCGAT
1 TCACAGCTCGTGAAAGCATACCGATCTACAGCTCATGTGAGCATACCGAT
21970402 TCACAGCTC
1 TCACAGCTC
21970411 TATGAGCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (50 bp):
TCACAGCTCGTGAAAGCATACCGATCTACAGCTCATGTGAGCATACCGAT
Found at i:21998403 original size:20 final size:20
Alignment explanation
Indices: 21998378--21998415 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21998368 ACCAATCGAA
21998378 GATAATTA-ATTATTTAATTT
1 GATAATTAGA-TATTTAATTT
21998398 GATAATTAGATATTTAAT
1 GATAATTAGATATTTAAT
21998416 CGATCATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
GATAATTAGATATTTAATTT
Found at i:22000160 original size:16 final size:16
Alignment explanation
Indices: 22000122--22000160 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22000112 ATTTAACTTA
*
22000122 AAAATTTGTTATTAAT
1 AAAATTTCTTATTAAT
* *
22000138 TACATTTCTTATTAAT
1 AAAATTTCTTATTAAT
22000154 AAAATTT
1 AAAATTT
22000161 TAATATAAAT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (16 bp):
AAAATTTCTTATTAAT
Found at i:22005295 original size:34 final size:34
Alignment explanation
Indices: 22005190--22005303 Score: 104
Period size: 34 Copynumber: 3.4 Consensus size: 34
22005180 TGCACTGATT
* * * *
22005190 TGTTATAAGCATATTAATTGCCATCGTATTGATC
1 TGTTATAAGCATATTAATTGCTACCATATTAATC
* * * * * * *
22005224 CGTTAAAACCATATTATTTGTTACCACATCGAA-C
1 TGTTATAAGCATATTAATTGCTACCATAT-TAATC
*
22005258 TGTTATGAGCATATTAATTGCTACCATATTAATC
1 TGTTATAAGCATATTAATTGCTACCATATTAATC
22005292 TGTTATAAGCAT
1 TGTTATAAGCAT
22005304 GTCATATCGC
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
33 2 0.03
34 55 0.95
35 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (34 bp):
TGTTATAAGCATATTAATTGCTACCATATTAATC
Found at i:22006666 original size:56 final size:53
Alignment explanation
Indices: 22006575--22006767 Score: 227
Period size: 50 Copynumber: 3.7 Consensus size: 53
22006565 GAGGAGGAGA
22006575 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-TTGAGA-TATGAGAGG
* * *
22006631 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC-CGAG--ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTTGAGATATGAGAGG
* * * **
22006681 TCCCCTGTAAGACCATGTCTGAGACATGGCATGGGCACTT---ATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTTGAGATATGAGAGG
* *
22006731 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22006768 GTACAAGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
50 79 0.67
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (53 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTTGAGATATGAGAGG
Found at i:22006760 original size:100 final size:104
Alignment explanation
Indices: 22006575--22006767 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 104
22006565 GAGGAGGAGA
* * ** *
22006575 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCTCATGTA
1 TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCATCATT--GATTATGAGAACTCCCATGTA
* *
22006640 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
64 AGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
22006681 TCCCCTGTAAGACCATGTCTGAGACATGGCATGGGCA-C-TT-A-TATGAGAACTCCCATGTAAG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCATCATTGATTATGAGAACTCCCATGTAAG
*
22006742 ACCATATCTGGGATATGGCATTGGCA
66 ACCATATCTGGGACATGGCATTGGCA
22006768 GTACAAGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 40 0.51
101 1 0.01
104 2 0.03
105 1 0.01
106 34 0.44
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (104 bp):
TCCCATGTAAGACCATGTCTGAGACATGGCATGGGCATCATTGATTATGAGAACTCCCATGTAAG
ACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:22009763 original size:27 final size:27
Alignment explanation
Indices: 22009725--22009998 Score: 345
Period size: 27 Copynumber: 10.2 Consensus size: 27
22009715 TTACACTGTT
*
22009725 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
22009752 ATGATCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
22009779 ATGACCGAAATA-CCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
22009805 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
22009832 ATGACC-AAAAACCCCTCATAGGGTAAA
1 ATGACCGAAATACCCC-CATAGGGTAAA
* *
22009859 ATGACCGAAATACCCACATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * * *
22009886 ATAACTGAAATATCCCTATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
22009913 ATGATCAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
22009940 ATCACCAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
22009967 ATGACTGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
22009994 ATGAC
1 ATGAC
22009999 TGTTATACCC
Statistics
Matches: 215, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 32 0.15
27 176 0.82
28 7 0.03
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:22022373 original size:26 final size:26
Alignment explanation
Indices: 22022343--22022395 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
22022333 CACCAATATC
* *
22022343 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
*
22022369 GCAGCAGAGTTGCCAGTAGTAAGAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
22022395 G
1 G
22022396 GCTAAGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (26 bp):
GCAGCAGAGCTGCCAGTAGTAAGAAT
Found at i:22022547 original size:32 final size:32
Alignment explanation
Indices: 22022465--22022679 Score: 206
Period size: 32 Copynumber: 6.7 Consensus size: 32
22022455 TACAATAATG
* * * * *
22022465 TGATTGGCAGAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCATAAAGCCATCAGTAACAGTAACA
* *
22022497 TGA-CTGGCACATAA-CCATCAGTAACGGTAACA
1 TGATC-GGCATA-AAGCCATCAGTAACAGTAACA
*
22022529 TGATCGACATAAAGCCATCAGTAAC-GATAACA
1 TGATCGGCATAAAGCCATCAGTAACAG-TAACA
22022561 TGATCGGCATAAAGCCATCAGTAACAGTGAA-A
1 TGATCGGCATAAAGCCATCAGTAACAGT-AACA
* * * *
22022593 TGATCGGCACACAGCCATCGGTAACAGTAATA
1 TGATCGGCATAAAGCCATCAGTAACAGTAACA
* *
22022625 TGATCGGCACAAAGCTATCAGTAACAGT-ACTA
1 TGATCGGCATAAAGCCATCAGTAACAGTAAC-A
**
22022657 TGATCAACATAAAGCCATCAGTA
1 TGATCGGCATAAAGCCATCAGTA
22022680 CTATAAACAG
Statistics
Matches: 154, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
31 6 0.04
32 142 0.92
33 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
TGATCGGCATAAAGCCATCAGTAACAGTAACA
Found at i:22022639 original size:96 final size:96
Alignment explanation
Indices: 22022465--22022746 Score: 256
Period size: 96 Copynumber: 3.0 Consensus size: 96
22022455 TACAATAATG
* * * * * *
22022465 TGATTGGCAGAAAGCCATCAGTAGCAGTGATATGACTGGCACATAACCATCAGTAACGGTAACAT
1 TGATCGGCATAAAGCCATCAGTAACAGTGAAATGACTGGCACACAACCATCAGTAACAGTAACAT
*
22022530 GATCGACATAAAGCCATCAGTAAC-GATAAC-A
66 GATCGACACAAAGCCATCAGTAACAG-T-ACTA
* * *
22022561 TGATCGGCATAAAGCCATCAGTAACAGTGAAATGA-TCGGCACACAGCCATCGGTAACAGTAATA
1 TGATCGGCATAAAGCCATCAGTAACAGTGAAATGACT-GGCACACAACCATCAGTAACAGTAACA
* *
22022625 TGATCGGCACAAAGCTATCAGTAACAGTACTA
65 TGATCGACACAAAGCCATCAGTAACAGTACTA
** * * * * * *
22022657 TGATCAACATAAAGCCATCAGT-ACTA-T-AAACAGAATGGC-TACAACCATAAGT-ACAATAAT
1 TGATCGGCATAAAGCCATCAGTAAC-AGTGAAA-TGACTGGCACACAACCATCAGTAACAGTAAC
* * *
22022717 GTGATTGGCACAAAGCCATCAGTAACAGTA
64 ATGATCGACACAAAGCCATCAGTAACAGTA
22022747 ATACCTTGAA
Statistics
Matches: 157, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
93 34 0.22
94 12 0.08
95 11 0.07
96 99 0.63
97 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (96 bp):
TGATCGGCATAAAGCCATCAGTAACAGTGAAATGACTGGCACACAACCATCAGTAACAGTAACAT
GATCGACACAAAGCCATCAGTAACAGTACTA
Found at i:22030430 original size:17 final size:16
Alignment explanation
Indices: 22030406--22030457 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
22030396 AGGCAGTTCG
22030406 CATA-AAATAACAGTT
1 CATACAAATAACAGTT
*
22030421 CATACGAAATAATAGTT
1 CATAC-AAATAACAGTT
*
22030438 CATTCAATATAACAGTT
1 CATACAA-ATAACAGTT
22030455 CAT
1 CAT
22030458 TCAATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 4 0.13
16 2 0.06
17 25 0.81
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (16 bp):
CATACAAATAACAGTT
Found at i:22030458 original size:17 final size:17
Alignment explanation
Indices: 22030412--22030466 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
22030402 TTCGCATAAA
*
22030412 ATAACAGTTCATACGAA-
1 ATAACAGTTCATTC-AAT
*
22030429 ATAATAGTTCATTCAAT
1 ATAACAGTTCATTCAAT
22030446 ATAACAGTTCATTCAAT
1 ATAACAGTTCATTCAAT
22030463 ATAA
1 ATAA
22030467 TAATTCATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (17 bp):
ATAACAGTTCATTCAAT
Found at i:22030473 original size:17 final size:17
Alignment explanation
Indices: 22030429--22030474 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
22030419 TTCATACGAA
22030429 ATAATAGTTCATTCAAT
1 ATAATAGTTCATTCAAT
*
22030446 ATAACAGTTCATTCAAT
1 ATAATAGTTCATTCAAT
*
22030463 ATAATAATTCAT
1 ATAATAGTTCAT
22030475 CCATACAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (17 bp):
ATAATAGTTCATTCAAT
Found at i:22031184 original size:18 final size:18
Alignment explanation
Indices: 22031142--22031190 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
22031132 CACAATTTCG
**
22031142 CAAATTAATACAGTTCAC
1 CAAATTAATACAAATCAC
*
22031160 CATATTAATACAAATCAC
1 CAAATTAATACAAATCAC
* *
22031178 TAAATTAACACAA
1 CAAATTAATACAA
22031191 TTGGCGATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAAATCAC
Found at i:22031530 original size:32 final size:31
Alignment explanation
Indices: 22031445--22031573 Score: 127
Period size: 31 Copynumber: 4.0 Consensus size: 31
22031435 CGCAAGCATT
*
22031445 ACAAAACCCGTATACATATATATTATATA-A-A
1 ACAAAACCC--ATGCATATATATTATATATATA
22031476 ACAAAACCCATATATGCATATATATTATATATATA
1 ACAAAACCC----ATGCATATATATTATATATATA
* *
22031511 ATCAAGACCCATGCATATATATTATGTATATA
1 A-CAAAACCCATGCATATATATTATATATATA
* * *
22031543 ACAAAACCCAAGAATATATATTGTATATATA
1 ACAAAACCCATGCATATATATTATATATATA
22031574 CACATACCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
31 34 0.40
32 22 0.26
33 18 0.21
34 1 0.01
35 2 0.02
36 7 0.08
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (31 bp):
ACAAAACCCATGCATATATATTATATATATA
Found at i:22034671 original size:21 final size:21
Alignment explanation
Indices: 22034645--22034689 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22034635 TTTTGGACTA
22034645 AATTGAATGAAATTATGTTTG
1 AATTGAATGAAATTATGTTTG
22034666 AATTGAATGAAATTATGTTTG
1 AATTGAATGAAATTATGTTTG
22034687 AAT
1 AAT
22034690 GAGTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (21 bp):
AATTGAATGAAATTATGTTTG
Found at i:22035043 original size:42 final size:41
Alignment explanation
Indices: 22034995--22035076 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
22034985 CTATATGAAT
* * * *
22034995 GGCACTAAGTGTGTGAAATTAAAATGATGATGTTGAATAACA
1 GGCACTAAGTGTGCGAAACTAAAATGACGATG-GGAATAACA
22035037 GGCACTAAGTGTGCGAAACTAAAATGACGATGGGAATAAC
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGGGAATAAC
22035077 TTCATTATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGGGAATAACA
Found at i:22041730 original size:23 final size:24
Alignment explanation
Indices: 22041687--22041736 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
22041677 TTAAGTAAAT
*
22041687 ATTTAAAAATAATAATTAAA-TTC
1 ATTTAAAAATAATAATGAAATTTC
*
22041710 ATTTAAACATAA-AATAGAAATTTC
1 ATTTAAAAATAATAAT-GAAATTTC
22041734 ATT
1 ATT
22041737 CAGTCGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 14 0.61
24 6 0.26
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTAAAAATAATAATGAAATTTC
Found at i:22044649 original size:23 final size:25
Alignment explanation
Indices: 22044605--22044650 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
22044595 AAGCTTTCTC
22044605 ATACCTATGTTATATTGTGAATAAA
1 ATACCTATGTTATATTGTGAATAAA
*
22044630 ATACTTATG-TAT-TTGTGAATA
1 ATACCTATGTTATATTGTGAATA
22044651 TGTTAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (25 bp):
ATACCTATGTTATATTGTGAATAAA
Found at i:22046373 original size:27 final size:27
Alignment explanation
Indices: 22046342--22046892 Score: 485
Period size: 27 Copynumber: 20.4 Consensus size: 27
22046332 AAAAATTATT
* * *
22046342 GAAATACCCTCGAATGGTAAAATTACC
1 GAAATACCCCCGAAAGGTAAAATGACC
* * *
22046369 AAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCCCGAAAGGTAAAATGACC
*
22046396 GAAATACCCCCGAATGGGTAAAATGACC
1 GAAATACCCCCGAA-AGGTAAAATGACC
* *
22046424 GAAATACCCCTGAAGGGTAAAATGACC
1 GAAATACCCCCGAAAGGTAAAATGACC
**
22046451 GAAATACCCCCGATGGGTAAAATGACC
1 GAAATACCCCCGAAAGGTAAAATGACC
** * *
22046478 GAAATACCCCTAAAAGATAAAATGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* * *
22046505 GAATTACCCCCGAACGGTAAAATGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* * * *
22046532 GAATTACCCCCAAAAGGTAAAACGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* * *
22046559 GAATTACCCCTGAAGGGTAAAATGACC
1 GAAATACCCCCGAAAGGTAAAATGACC
* **
22046586 GAATTACCCCTAAAAGGTAAAATGACC
1 GAAATACCCCCGAAAGGTAAAATGACC
* * * *
22046613 GAATTACCCCTGAAGGGTAAAATTACC
1 GAAATACCCCCGAAAGGTAAAATGACC
* * * *
22046640 GAATTACCCCCAAAAGGTAGAATGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* ** * *
22046667 GAATTACCATCGAAGGGTAAAATGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* *
22046694 GAATTACCCCCTAAAGGTAAAATGACC
1 GAAATACCCCCGAAAGGTAAAATGACC
** *
22046721 GAAATACCCTTGAAAGGTAAAATGACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* ** * *
22046748 GAAATAGCCCTAAAAGGTAAAATAACT
1 GAAATACCCCCGAAAGGTAAAATGACC
* * **
22046775 GAAATACCCTCGAAGGGTAAAATGATT
1 GAAATACCCCCGAAAGGTAAAATGACC
* * *
22046802 GAAATACCCTCGAAGGGTAAAATTACC
1 GAAATACCCCCGAAAGGTAAAATGACC
* *
22046829 AAAATACCCCTG-AAGGATAAAATGACC
1 GAAATACCCCCGAAAGG-TAAAATGACC
* * *
22046856 GAAACACCCCC-ATAGGGTAAAATGACT
1 GAAATACCCCCGA-AAGGTAAAATGACC
*
22046883 GATATACCCC
1 GAAATACCCC
22046893 TAGGAGTAGA
Statistics
Matches: 439, Mismatches: 81, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.01
27 408 0.93
28 28 0.06
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
GAAATACCCCCGAAAGGTAAAATGACC
Found at i:22046892 original size:54 final size:54
Alignment explanation
Indices: 22046341--22046893 Score: 556
Period size: 54 Copynumber: 10.2 Consensus size: 54
22046331 GAAAAATTAT
* * * * *
22046341 TGAAATA-CCCTCGAATGGTAAAATTACCAAAATACCCCCGAAGGGTAAAATGA-
1 TGAAATACCCCT-GAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* ** *
22046394 TCGAAATACCCCCGAATGGGTAAAATGACCGAAATACCCCTGAAGGGTAAAATGAC
1 T-GAAATACCCCTGAA-GGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * * * *
22046450 CGAAATACCCCCGATGGGTAAAATGACCGAAATACCCCTAAAAGATAAAATGAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * * * * *
22046504 TGAATTACCCCCGAACGGTAAAATGACTGAATTACCCCCAAAAGGTAAAACGAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * *
22046558 TGAATTACCCCTGAAGGGTAAAATGACCGAATTACCCCTAAAAGGTAAAATGAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * * * *
22046612 CGAATTACCCCTGAAGGGTAAAATTACCGAATTACCCCCAAAAGGTAGAATGAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * * * *
22046666 TGAATTA-CCATCGAAGGGTAAAATGACTGAATTACCCCCTAAAGGTAAAATGAC
1 TGAAATACCCCT-GAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
* * * * * * *
22046720 CGAAATACCCTTGAAAGGTAAAATGACTGAAATAGCCCTAAAAGGTAAAATAAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
** * * * *
22046774 TGAAATA-CCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTAAAATTAC
1 TGAAATACCCCT-GAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
** * * * *
22046828 CAAAATACCCCTGAAGGATAAAATGACCGAAACACCCCCATAGGGTAAAATGAC
1 TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
*
22046882 TGATATACCCCT
1 TGAAATACCCCT
22046894 AGGAGTAGAA
Statistics
Matches: 426, Mismatches: 66, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
53 7 0.02
54 362 0.85
55 57 0.13
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (54 bp):
TGAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCCAAAAGGTAAAATGAC
Found at i:22047300 original size:28 final size:28
Alignment explanation
Indices: 22047256--22047338 Score: 148
Period size: 28 Copynumber: 3.0 Consensus size: 28
22047246 TGCAATGTAT
*
22047256 TGTTACTGTATTAGGCTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
22047284 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
*
22047312 TGTTACTATATTGGGCTAAGGCCCACA
1 TGTTACTGTATTGGGCTAAGGCCCACA
22047339 TTCCACTGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:22054900 original size:30 final size:29
Alignment explanation
Indices: 22054839--22054944 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
22054829 TTGTTGACAC
* * *
22054839 ATCCCTTTCCTTTATTCGATAATCGAGGCT
1 ATCCCTTTCCATAATTCGAT-ATCGAAGCT
22054869 ATCCCTTTCCATAATTCGATATCTGAAGCT
1 ATCCCTTTCCATAATTCGATATC-GAAGCT
* * *
22054899 ATCACTATT-CATAATTCGATAGCCAAGGCT
1 ATCCCT-TTCCATAATTCGATATCGAA-GCT
*
22054929 ATCCCTTTTCATAATT
1 ATCCCTTTCCATAATT
22054945 TAGTGGTCGT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 7 0.11
30 56 0.86
31 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.38
Consensus pattern (29 bp):
ATCCCTTTCCATAATTCGATATCGAAGCT
Found at i:22054968 original size:30 final size:30
Alignment explanation
Indices: 22054929--22055002 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
22054919 AGCCAAGGCT
* *
22054929 ATCCCTTTTCATAATTTAGTGGTCGTCACC
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
* * *
22054959 ATCCGTTTTCATTATTCAATGGTCGTCATC
1 ATCCCTTTTCATAATTCAATGGTCGTCACC
22054989 ATCCCTTTTCATAA
1 ATCCCTTTTCATAA
22055003 CCAATAGCCG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAATGGTCGTCACC
Found at i:22058057 original size:147 final size:147
Alignment explanation
Indices: 22057845--22058190 Score: 514
Period size: 147 Copynumber: 2.4 Consensus size: 147
22057835 TTACCATTAT
* * * * ** * *
22057845 GGATGGCTCAACAATGATGGT-TTGCACTATTTCAATGTTCTACCATCCCGAATGACTCAACAAT
1 GGATAGCTCGACAATGATGGTATT-CAATATCTCAACATTCTACCATCTCGGATGACTCAACAAT
* *
22057909 GATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCGACAACGATGGTTCTCATAGTT
65 GATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCAACAACGATGGTTCTCACAGTT
22057974 TACTTATTCTACCATCCC
130 TACTTATTCTACCATCCC
*
22057992 GGATAGCTCGACAATGATGGTATTCAATATCTCAACATTCTACCATCTCGGATGACTCAGCAATG
1 GGATAGCTCGACAATGATGGTATTCAATATCTCAACATTCTACCATCTCGGATGACTCAACAATG
* *
22058057 ATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCAACAATGATTGTTCTCACAGTTT
66 ATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCAACAACGATGGTTCTCACAGTTT
22058122 ACTTATTCTACCATCCC
131 ACTTATTCTACCATCCC
* * * * *
22058139 GAATAGCTTGACAATGATGGCATTCAATATCTGAACATTATACCATCTCGGA
1 GGATAGCTCGACAATGATGGTATTCAATATCTCAACATTCTACCATCTCGGA
22058191 AGGCCCGAAA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
147 178 0.99
148 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (147 bp):
GGATAGCTCGACAATGATGGTATTCAATATCTCAACATTCTACCATCTCGGATGACTCAACAATG
ATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCAACAACGATGGTTCTCACAGTTT
ACTTATTCTACCATCCC
Found at i:22058088 original size:49 final size:49
Alignment explanation
Indices: 22057882--22058088 Score: 144
Period size: 49 Copynumber: 4.2 Consensus size: 49
22057872 TATTTCAATG
* *
22057882 TTCTACCATCCCGAATGACTCA-ACAATGATGCCTTTCATTATTCCTACA
1 TTCTACCATCTCGGATGACTCAGACAATGATG-CTTTCATTATTCCTACA
* * * * * * *
22057931 TTTTACCATCTTGGGTG-GTCCGACAACGATGGTTCTCA-TAGTT--TACTTA
1 TTCTACCATCTCGGATGACTCAGACAATGATGCTT-TCATTA-TTCCTAC--A
* * * *
22057980 TTCTACCATCCCGGAT-AGCTC-GACAATGATGGTATTCAATA-TCTCAACA
1 TTCTACCATCTCGGATGA-CTCAGACAATGATGCT-TTCATTATTC-CTACA
22058029 TTCTACCATCTCGGATGACTCAG-CAATGATGCCTTTCATTATTCCTACA
1 TTCTACCATCTCGGATGACTCAGACAATGATG-CTTTCATTATTCCTACA
*
22058078 TTTTACCATCT
1 TTCTACCATCT
22058089 TGGGTGGTCC
Statistics
Matches: 121, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
47 3 0.02
48 7 0.06
49 99 0.82
50 10 0.08
51 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.35
Consensus pattern (49 bp):
TTCTACCATCTCGGATGACTCAGACAATGATGCTTTCATTATTCCTACA
Found at i:22058105 original size:49 final size:49
Alignment explanation
Indices: 22057845--22058107 Score: 141
Period size: 49 Copynumber: 5.4 Consensus size: 49
22057835 TTACCATTAT
* * * * ** *
22057845 GGATGG-CTCAACAATGATGGTTTGCACTATTTCAATGTTCTACCATCCC
1 GGATGGTCTCAACAATGATGCTTT-CATTATTCCTACATTCTACCATCTC
* * * *
22057894 GAAT-GACTCAACAATGATGCCTTTCATTATTCCTACATTTTACCATCTT
1 GGATGGTCTCAACAATGATG-CTTTCATTATTCCTACATTCTACCATCTC
* * * * *
22057943 GGGTGGTC-CGACAACGATGGTTCTCA-TAGTT--TACTTATTCTACCATCCC
1 GGATGGTCTCAACAATGATGCTT-TCATTA-TTCCTAC--ATTCTACCATCTC
* * * * *
22057992 GGATAG-CTCGACAATGATGGTATTCAATA-TCTCAACATTCTACCATCTC
1 GGATGGTCTCAACAATGATGCT-TTCATTATTC-CTACATTCTACCATCTC
* * * *
22058041 GGAT-GACTCAGCAATGATGCCTTTCATTATTCCTACATTTTACCATCTT
1 GGATGGTCTCAACAATGATG-CTTTCATTATTCCTACATTCTACCATCTC
*
22058090 GGGTGGTC-CAACAATGAT
1 GGATGGTCTCAACAATGAT
22058108 TGTTCTCACA
Statistics
Matches: 163, Mismatches: 34, Indels: 34
0.71 0.15 0.15
Matches are distributed among these distances:
47 3 0.02
48 8 0.05
49 137 0.84
50 13 0.08
51 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (49 bp):
GGATGGTCTCAACAATGATGCTTTCATTATTCCTACATTCTACCATCTC
Found at i:22058251 original size:147 final size:147
Alignment explanation
Indices: 22057909--22058255 Score: 385
Period size: 147 Copynumber: 2.4 Consensus size: 147
22057899 ACTCAACAAT
* * * ** * *
22057909 GATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCGACAACGATGGTTCTCATAGTT
1 GATGACTTTCACTATTACTACATTCAACCATCTTGGGTGGTCCGACAATGATGGTTCTCACAGTT
* * *
22057974 TACTTATTCTACCATCCCGGATAGCTCGACAATGATGGTATTCAATATCTCAACATTCTACCATC
66 TACTTATTCTACCATCCCGAATAGCTCGACAATGATGGCATTCAATATCTCAACATTATACCATC
* * * *
22058039 TCGGATGACTCAGCAAT
131 TCGGAAGACCCAGAAAC
* * * ** * *
22058056 GATGCCTTTCATTATTCCTACATTTTACCATCTTGGGTGGTCCAACAATGATTGTTCTCACAGTT
1 GATGACTTTCACTATTACTACATTCAACCATCTTGGGTGGTCCGACAATGATGGTTCTCACAGTT
* *
22058121 TACTTATTCTACCATCCCGAATAGCTTGACAATGATGGCATTCAATATCTGAACATTATACCATC
66 TACTTATTCTACCATCCCGAATAGCTCGACAATGATGGCATTCAATATCTCAACATTATACCATC
*
22058186 TCGGAAGGCCC-GAAAAC
131 TCGGAAGACCCAG-AAAC
* ** * *
22058203 GATGATTTTTGCTATATAC-ACATTCAACCATCCTGGATGG-CCTGACAATGATG
1 GATGACTTTCACTAT-TACTACATTCAACCATCTTGGGTGGTCC-GACAATGATG
22058256 ATTTTCAACC
Statistics
Matches: 171, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
146 3 0.02
147 166 0.97
148 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (147 bp):
GATGACTTTCACTATTACTACATTCAACCATCTTGGGTGGTCCGACAATGATGGTTCTCACAGTT
TACTTATTCTACCATCCCGAATAGCTCGACAATGATGGCATTCAATATCTCAACATTATACCATC
TCGGAAGACCCAGAAAC
Found at i:22060962 original size:57 final size:58
Alignment explanation
Indices: 22060894--22061013 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 58
22060884 AGGGCATTTT
* * *
22060894 CATTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTT-C-ATTTCTC
1 CATTTTCATTTTAATTTTGGAAAAAACCACAATCATTTCCAAATG-TTTCCTATTTCTC
* * *
22060951 CATTTTTATTTTAATTTTGGAAAAAACCATAATCATTTCTAAATGTTTCCTATTTCTC
1 CATTTTCATTTTAATTTTGGAAAAAACCACAATCATTTCCAAATGTTTCCTATTTCTC
*
22061009 TATTT
1 CATTT
22061014 CACCATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 3 0.06
57 40 0.74
58 11 0.20
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (58 bp):
CATTTTCATTTTAATTTTGGAAAAAACCACAATCATTTCCAAATGTTTCCTATTTCTC
Found at i:22064856 original size:30 final size:30
Alignment explanation
Indices: 22064792--22064857 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
22064782 TTCACTACTG
* *
22064792 AATTTAACTTATACACTATCTTTATAAATA
1 AATTTAACTTATACACAAACTTTATAAATA
*
22064822 AATTTAACTTATACACAAACTTTTATCAAT-
1 AATTTAACTTATACACAAAC-TTTATAAATA
22064852 AATTTA
1 AATTTA
22064858 TACATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (30 bp):
AATTTAACTTATACACAAACTTTATAAATA
Found at i:22065933 original size:22 final size:22
Alignment explanation
Indices: 22065887--22065931 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
22065877 CACTTTCAAA
*
22065887 TTAAAATTTAAAATAATTATTT
1 TTAAAATTAAAAATAATTATTT
*
22065909 TTAAAATTAAAAAT-TTTATTT
1 TTAAAATTAAAAATAATTATTT
22065930 TT
1 TT
22065932 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAAATTAAAAATAATTATTT
Found at i:22070838 original size:18 final size:18
Alignment explanation
Indices: 22070797--22070831 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22070787 AAATATCTCT
*
22070797 AATATTTTAATCAAATAA
1 AATAATTTAATCAAATAA
*
22070815 AATAATTTAATCTAATA
1 AATAATTTAATCAAATA
22070832 TTATAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTTAATCAAATAA
Found at i:22090800 original size:38 final size:37
Alignment explanation
Indices: 22090737--22090818 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
22090727 ATAAAAATAA
22090737 ATAATTTAATCATACTTTAATATAATTATTATTAAAT
1 ATAATTTAATCATACTTTAATATAATTATTATTAAAT
* * *
22090774 ATAATTTAATAACATTC-TTAATATAATTATTTTTATAT
1 ATAATTTAAT--CATACTTTAATATAATTATTATTAAAT
22090812 -TAATTTA
1 ATAATTTA
22090819 TATTAAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 17 0.43
38 19 0.47
39 4 0.10
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (37 bp):
ATAATTTAATCATACTTTAATATAATTATTATTAAAT
Found at i:22091219 original size:28 final size:28
Alignment explanation
Indices: 22091188--22091244 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22091178 AGAAACAAAT
22091188 AAAAATGTTTGTTTATCTACATTATAAA
1 AAAAATGTTTGTTTATCTACATTATAAA
22091216 AAAAATGTTTGTTTATCTACATTATAAA
1 AAAAATGTTTGTTTATCTACATTATAAA
22091244 A
1 A
22091245 TTGGAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AAAAATGTTTGTTTATCTACATTATAAA
Found at i:22091813 original size:4 final size:4
Alignment explanation
Indices: 22091804--22091854 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
22091794 TTACCAAACT
22091804 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22091852 ATA
1 ATA
22091855 TGTTACCTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:22109433 original size:67 final size:67
Alignment explanation
Indices: 22109267--22109433 Score: 190
Period size: 67 Copynumber: 2.5 Consensus size: 67
22109257 GTCTTCTGGT
* * * *** * *
22109267 TTACACATGTCACCCCATGTTTAATGTCTTGGTGGACTCCTCATGTGGTCATAATCGAACTAAGG
1 TTACACATGTAACCCTATGTTTAATGTCCTGGCAAACACCTCATGTGGCCATAATCGAACTAAGG
22109332 TC
66 TC
* * * * * * * *
22109334 TTAAATATGTAACCCTATGTTTAATATTCTGGCAAACACCTCATGTTGCCATAGTTGAGCTAAGG
1 TTACACATGTAACCCTATGTTTAATGTCCTGGCAAACACCTCATGTGGCCATAATCGAACTAAGG
22109399 TC
66 TC
22109401 TTACACATGTAACCCTATGTTTAATGTCCTGGC
1 TTACACATGTAACCCTATGTTTAATGTCCTGGC
22109434 GGACTACCCC
Statistics
Matches: 80, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (67 bp):
TTACACATGTAACCCTATGTTTAATGTCCTGGCAAACACCTCATGTGGCCATAATCGAACTAAGG
TC
Found at i:22109531 original size:14 final size:14
Alignment explanation
Indices: 22109512--22109538 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22109502 TGTGACCCCA
22109512 TGCTTAATGTCTTT
1 TGCTTAATGTCTTT
22109526 TGCTTAATGTCTT
1 TGCTTAATGTCTT
22109539 GATGATCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (14 bp):
TGCTTAATGTCTTT
Found at i:22112265 original size:15 final size:17
Alignment explanation
Indices: 22112245--22112285 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22112235 TGGTTGTGTT
22112245 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
22112260 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
22112277 TATATATAT
1 TATATATAT
22112286 ATATATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:22112320 original size:31 final size:31
Alignment explanation
Indices: 22112282--22112348 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
22112272 TGTAATATAT
22112282 ATATATATATATGTGGATCGAACAAGCTTGC
1 ATATATATATATGTGGATCGAACAAGCTTGC
22112313 ATATATATATATGTGGATCGAACAAGCTTGC
1 ATATATATATATGTGGATCGAACAAGCTTGC
22112344 ATATA
1 ATATA
22112349 CATGTATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (31 bp):
ATATATATATATGTGGATCGAACAAGCTTGC
Found at i:22112603 original size:41 final size:41
Alignment explanation
Indices: 22112548--22112716 Score: 284
Period size: 41 Copynumber: 4.1 Consensus size: 41
22112538 ATTGGTGAAT
*
22112548 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
* *
22112589 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
22112630 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
22112671 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
*
22112712 CGAAT
1 TGAAT
22112717 ATGATGAATT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
TGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
Found at i:22112670 original size:82 final size:82
Alignment explanation
Indices: 22112548--22112710 Score: 326
Period size: 82 Copynumber: 2.0 Consensus size: 82
22112538 ATTGGTGAAT
22112548 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
22112613 GCTAAGTGCCGGTGATA
66 GCTAAGTGCCGGTGATA
22112630 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
22112695 GCTAAGTGCCGGTGAT
66 GCTAAGTGCCGGTGAT
22112711 CCGAATATGA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (82 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAG
GCTAAGTGCCGGTGATA
Found at i:22112945 original size:31 final size:35
Alignment explanation
Indices: 22112909--22112993 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 35
22112899 GCATATTTAG
22112909 GCATTCGGCATAGGTGGATAT-A-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAAGTATATATGTAT
* * *
22112940 GCATTCGACATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATATAA--GTATATATGTAT
22112977 GCATTCGGCATAGGTGG
1 GCATTCGGCATAGGTGG
22112994 GTTATAGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
31 18 0.43
32 1 0.02
35 3 0.07
36 1 0.02
37 19 0.45
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (35 bp):
GCATTCGGCATAGGTGGATATAAGTATATATGTAT
Found at i:22114906 original size:43 final size:43
Alignment explanation
Indices: 22114838--22114920 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
22114828 AGGAAGGTTA
** * *
22114838 TTTCCTAATTGTGGTTCTCTGTGTGTCCTAGGATGATGAGGGG
1 TTTCCTAATTACGGTTCTCTATGTGTCCTAGGACGATGAGGGG
* *
22114881 TTTCCTAATTACGGTTTTCTATGTGTTCTAGGACGATGAG
1 TTTCCTAATTACGGTTCTCTATGTGTCCTAGGACGATGAG
22114921 AGGCATCACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (43 bp):
TTTCCTAATTACGGTTCTCTATGTGTCCTAGGACGATGAGGGG
Found at i:22115047 original size:32 final size:28
Alignment explanation
Indices: 22114978--22115061 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 28
22114968 CCAGGAGAAT
22114978 GAAAGCCTTTGTGGTAATACTTTAAACTG
1 GAAAGCCTTTGTGGTAATACTTTAAAC-G
22115007 GAAAGCCTTTGTGGTGAATACTAGATGTAAA-G
1 GAAAGCCTTTGTGGT-AATACT---T-TAAACG
*
22115039 GAAAGCCTTTGTGGCAATACTTT
1 GAAAGCCTTTGTGGTAATACTTT
22115062 GGACAAGAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 15 0.31
30 6 0.12
31 6 0.12
32 15 0.31
33 1 0.02
34 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (28 bp):
GAAAGCCTTTGTGGTAATACTTTAAACG
Found at i:22115148 original size:61 final size:60
Alignment explanation
Indices: 22114975--22115181 Score: 186
Period size: 61 Copynumber: 3.4 Consensus size: 60
22114965 TCACCAGGAG
* * * ** *
22114975 AATGA-AAGCCTTTGTGGTAATACTTTAAACTGGAAAGCCTTTGTGGTGAATACTAGATGTA
1 AATGACAA-CCTTTGTGGCAATACTCTAGACAAGAAAGCCTTT-TGGTGAGTACTAGATGTA
* * * *
22115036 AAGGA-AAGCCTTTGTGGCAATACTTTGGACAAGAAAGACCTTTTGGCGAGTACTAGATGTA
1 AATGACAA-CCTTTGTGGCAATACTCTAGACAAGAAAG-CCTTTTGGTGAGTACTAGATGTA
* * ** *
22115097 AATGACAACCTTTGTGGCAATACTCTAGATACGAAAGCCTTTATATTGAGTA-TAGGATATA
1 AATGACAACCTTTGTGGCAATACTCTAGACAAGAAAGCCTTT-TGGTGAGTACTA-GATGTA
* *
22115158 AATGACAACCTTTTTGGTAATACT
1 AATGACAACCTTTGTGGCAATACT
22115182 GGATGTAAAG
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
60 7 0.06
61 109 0.89
62 7 0.06
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (60 bp):
AATGACAACCTTTGTGGCAATACTCTAGACAAGAAAGCCTTTTGGTGAGTACTAGATGTA
Found at i:22127319 original size:28 final size:28
Alignment explanation
Indices: 22127218--22127325 Score: 126
Period size: 30 Copynumber: 3.7 Consensus size: 28
22127208 CATGCAGAAT
* * * *
22127218 CAGTCTGGGCCTGAGCCCTATACAGTAG
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
*
22127246 CAGTGTGTGGGCCATAGCCCAATACAGTAA
1 CA--GTGTGGGCCTTAGCCCAATACAGTAA
*
22127276 CAGAGTGTGGGCCTTAGCCCAATTCAGTAA
1 C--AGTGTGGGCCTTAGCCCAATACAGTAA
22127306 CAGTGTGGGCCTTAGCCCAA
1 CAGTGTGGGCCTTAGCCCAA
22127326 AATAGTAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
28 21 0.30
30 47 0.68
32 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAA
Found at i:22127332 original size:28 final size:29
Alignment explanation
Indices: 22127250--22127333 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 29
22127240 CAGTAGCAGT
* * *
22127250 GTGTGGGCCATAGCCCAATACAGTAACAGA
1 GTGTGGGCCTTAGCCCAAAATAGTAACA-A
*
22127280 GTGTGGGCCTTAGCCC-AATTCAGTAAC-A
1 GTGTGGGCCTTAGCCCAAAAT-AGTAACAA
22127308 GTGTGGGCCTTAGCCCAAAATAGTAA
1 GTGTGGGCCTTAGCCCAAAATAGTAA
22127334 TCACTACAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 22 0.47
29 4 0.09
30 21 0.45
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (29 bp):
GTGTGGGCCTTAGCCCAAAATAGTAACAA
Found at i:22127475 original size:26 final size:27
Alignment explanation
Indices: 22127446--22127521 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
22127436 CACCAATATC
*
22127446 GCAGTAAAGCTGCCAGTAACAGTAA-A
1 GCAGCAAAGCTGCCAGTAACAGTAACA
* * * *
22127472 GCAGCAGAGCTACCAGTATCAATAACA
1 GCAGCAAAGCTGCCAGTAACAGTAACA
22127499 -CAGCAAAGCTGCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
22127522 TTTGTGGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 39 0.98
27 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (27 bp):
GCAGCAAAGCTGCCAGTAACAGTAACA
Found at i:22127752 original size:27 final size:26
Alignment explanation
Indices: 22127705--22127898 Score: 194
Period size: 27 Copynumber: 7.2 Consensus size: 26
22127695 TATAACAGTT
*
22127705 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTTGAGGGTATTTC-GTA
22127732 ATTTTACCCTTT-AGGGTTATTTCGATA
1 ATTTTACCCTTTGAGGG-TATTTCG-TA
* *
22127759 ATTTTA-CCTTTCGAAGGTATTTTGGTA
1 ATTTTACCCTTT-GAGGGTA-TTTCGTA
*
22127786 ATTTTACCCTTTGAGGGTATTTTAGTA
1 ATTTTACCCTTTGAGGGTA-TTTCGTA
* *
22127813 ATTTTACCATTCGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
*
22127840 ATTTTACCATTTGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTCG-TA
* * * *
22127867 ATTTTACACTTCGAGAGTATTTCAATA
1 ATTTTACCCTTTGAGGGTATTTC-GTA
22127894 ATTTT
1 ATTTT
22127899 CTGGCCTAAG
Statistics
Matches: 145, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
26 14 0.10
27 119 0.82
28 12 0.08
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTTGAGGGTATTTCGTA
Found at i:22127772 original size:54 final size:53
Alignment explanation
Indices: 22127705--22127898 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 53
22127695 TATAACAGTT
22127705 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTT-AGGGTTATTTCGATA
1 ATTTTA-CCTTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGG-TATTTCGATA
* ** *
22127759 ATTTTACCTTTCGAAGGTATTTTGGTAATTTTACCCTTTGAGGGTATTT-TAGTA
1 ATTTTACC-TTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGA-TA
*
22127813 ATTTTACCATTCGAGGGTATTTC-GATAATTTTACCATTTGAGGGTATTTCGATA
1 ATTTTACC-TTCGAGGGTATTTCAG-TAATTTTACCCTTTGAGGGTATTTCGATA
* *
22127867 ATTTTACACTTCGAGAGTATTTCAATAATTTT
1 ATTTTAC-CTTCGAGGGTATTTCAGTAATTTT
22127899 CTGGCCTAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
53 4 0.03
54 112 0.92
55 6 0.05
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (53 bp):
ATTTTACCTTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATA
Found at i:22127834 original size:81 final size:81
Alignment explanation
Indices: 22127705--22127898 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 81
22127695 TATAACAGTT
* *
22127705 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAGGGTTATTTCGATAATTTTACC-TT
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCATTGAGGGTTATTTCGATAATTTTACCATT
* *
22127769 TCGAAGGTATTTTGGTA
66 T-GAAGGTATTTCGATA
* *
22127786 ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCATTCGAGGG-TATTTCGATAATTTTACCAT
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCATT-GAGGGTTATTTCGATAATTTTACCAT
*
22127850 TTGAGGGTATTTCGATA
65 TTGAAGGTATTTCGATA
* * *
22127867 ATTTTACACTTCGAGAGTATTTCAATAATTTT
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTT
22127899 CTGGCCTAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
81 92 0.93
82 7 0.07
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCATTGAGGGTTATTTCGATAATTTTACCATT
TGAAGGTATTTCGATA
Found at i:22131727 original size:63 final size:63
Alignment explanation
Indices: 22131649--22131823 Score: 210
Period size: 63 Copynumber: 2.8 Consensus size: 63
22131639 CATGCCCATT
* * * *
22131649 TCTCTAGCTCGTGTGAACCTAATTCCAAAATAGTGAGTTATATGACCT-GAAAACACGCCCGTG
1 TCTCTAGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACCTAG-AAACACGCCCGTG
* * * **
22131712 TCTCTAGCCCTTGTG-ACTCTAATTCCAAAACAGTGAGTTACACGACCTAGACATACGTTCGTG
1 TCTCTAGCCCGTGTGAAC-CTAATTCCAAAACAGTGAGTTACACGACCTAGAAACACGCCCGTG
* * *
22131775 TCTCTGGCCCGTGTGAACCTAATTCTAAAACAATGAGTTACACGACCTA
1 TCTCTAGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACCTA
22131824 ACACACGGCC
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
62 2 0.02
63 91 0.95
64 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (63 bp):
TCTCTAGCCCGTGTGAACCTAATTCCAAAACAGTGAGTTACACGACCTAGAAACACGCCCGTG
Found at i:22133315 original size:2 final size:2
Alignment explanation
Indices: 22133308--22133356 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
22133298 AAGAATCTAG
22133308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22133350 TA TA TA T
1 TA TA TA T
22133357 GAAATCTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22146986 original size:3 final size:3
Alignment explanation
Indices: 22146978--22147037 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
22146968 TTAATTTTCC
* *
22146978 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
22147024 TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT T
22147038 TTCATTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:22147027 original size:13 final size:14
Alignment explanation
Indices: 22146965--22147034 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
22146955 AAAAAAAAAC
* *
22146965 ATTTTAATTTTCCT
1 ATTTTATTTTTACT
* *
22146979 ATTATTATTATTATT
1 ATT-TTATTTTTACT
* *
22146994 ATTATTATTATTATT
1 ATT-TTATTTTTACT
22147009 ATTATTTATTTTTACT
1 A-T-TTTATTTTTACT
22147025 ATTTTATTTT
1 ATTTTATTTT
22147035 ATTTTCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.23
15 24 0.51
16 11 0.23
17 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTACT
Found at i:22147050 original size:6 final size:6
Alignment explanation
Indices: 22146978--22147052 Score: 62
Period size: 6 Copynumber: 12.2 Consensus size: 6
22146968 TTAATTTTCC
* * * * *
22146978 TATTAT TATTAT TATTAT TATTAT TATTAT TATTATT TATTTT TACTATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT TA-T-TTT
*
22147029 TA-TTT TATTTT CATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
22147053 GCAGGAAACA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
5 5 0.08
6 46 0.74
7 6 0.10
8 5 0.08
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:22149810 original size:9 final size:8
Alignment explanation
Indices: 22149775--22149822 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 8
22149765 TAGTTTATTT
22149775 TTATTATA
1 TTATTATA
*
22149783 TTGTTTATA
1 TT-ATTATA
*
22149792 TTGTT-TA
1 TTATTATA
22149799 TTATTATAA
1 TTATTAT-A
22149808 TTATTATA
1 TTATTATA
22149816 TTATTAT
1 TTATTAT
22149823 TATTGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.18
8 13 0.38
9 15 0.44
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TTATTATA
Found at i:22156237 original size:17 final size:17
Alignment explanation
Indices: 22156196--22156230 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22156186 CTAGTTTTCG
* *
22156196 TATAAAGTAATTTATTT
1 TATAAAATAATTCATTT
22156213 TATAAAATAATTCATTT
1 TATAAAATAATTCATTT
22156230 T
1 T
22156231 CAAAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TATAAAATAATTCATTT
Found at i:22162170 original size:13 final size:13
Alignment explanation
Indices: 22162152--22162176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22162142 ACTTCTGTCT
22162152 AAAATAATAACAC
1 AAAATAATAACAC
22162165 AAAATAATAACA
1 AAAATAATAACA
22162177 GTGTTCACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAATAACAC
Found at i:22166150 original size:15 final size:15
Alignment explanation
Indices: 22166130--22166160 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22166120 ATGAGGTATG
*
22166130 ACGAAAGTGATGGTT
1 ACGAAAGGGATGGTT
22166145 ACGAAAGGGATGGTT
1 ACGAAAGGGATGGTT
22166160 A
1 A
22166161 TGAGGTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (15 bp):
ACGAAAGGGATGGTT
Found at i:22169311 original size:43 final size:43
Alignment explanation
Indices: 22169261--22169346 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
22169251 TCATATCTCA
*
22169261 TTTCTCATATTATAATCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
* * * * **
22169304 TTTCTCATCTCATATTCATTTCTCATCTTTTTCATTTCAATAT
1 TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
22169347 CAATCACATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:22169339 original size:16 final size:17
Alignment explanation
Indices: 22169304--22169341 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
22169294 ATTTCAATAT
22169304 TTTCTCATCTCATATTCA
1 TTTCTCATCT-ATATTCA
*
22169322 TTTCTCATCT-TTTTCA
1 TTTCTCATCTATATTCA
22169338 TTTC
1 TTTC
22169342 AATATCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTCATCTATATTCA
Found at i:22171995 original size:12 final size:11
Alignment explanation
Indices: 22171966--22171996 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
22171956 CACAAAATAC
22171966 AAGAAAAATCA
1 AAGAAAAATCA
22171977 AAGAAAAATCA
1 AAGAAAAATCA
22171988 AAGAAAAAT
1 AAGAAAAAT
22171997 GTAGAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (11 bp):
AAGAAAAATCA
Found at i:22184824 original size:21 final size:21
Alignment explanation
Indices: 22184795--22184842 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
22184785 TCCTTCTGTT
*
22184795 GCAATAAGCTACTTGGATGTC
1 GCAACAAGCTACTTGGATGTC
22184816 GCAACAAGCTACTTGGATGTC
1 GCAACAAGCTACTTGGATGTC
22184837 GCAACA
1 GCAACA
22184843 CGACTTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GCAACAAGCTACTTGGATGTC
Found at i:22196549 original size:27 final size:28
Alignment explanation
Indices: 22196509--22196562 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
22196499 ACTGAATATA
*
22196509 AAGGTGGTTACTAAGTGTTGATTCCCCC
1 AAGGTGGTTACTAAGTGCTGATTCCCCC
*
22196537 AAGG-GGTTGCTAAGTGCTGATTCCCC
1 AAGGTGGTTACTAAGTGCTGATTCCCC
22196563 GAATCATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (28 bp):
AAGGTGGTTACTAAGTGCTGATTCCCCC
Found at i:22196583 original size:33 final size:33
Alignment explanation
Indices: 22196541--22196815 Score: 147
Period size: 33 Copynumber: 7.5 Consensus size: 33
22196531 TCCCCCAAGG
22196541 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
*
22196574 GGTTGCTAAGTGCTGATTCCACC-ATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC----AT-T---AGT
* *
22196616 GGTTGCTAAGTGCTGATTCCTCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
* * * *
22196649 GCTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-T---AGT
* *
22196691 GGTTGCTAAGTGCTGATTCCCCTAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
* * *
22196724 GGTTGCTAAGTGCTGATTCCATCGTATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC-----AT-T---AGT
* *
22196767 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
*
22196800 GGTTGCTATGTGCTGA
1 GGTTGCTAAGTGCTGA
22196816 ATCCATCGAT
Statistics
Matches: 185, Mismatches: 27, Indels: 60
0.68 0.10 0.22
Matches are distributed among these distances:
33 77 0.42
34 14 0.08
36 3 0.02
37 5 0.03
38 4 0.02
39 4 0.02
40 1 0.01
41 9 0.05
42 47 0.25
43 21 0.11
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTAGT
Found at i:22196633 original size:42 final size:41
Alignment explanation
Indices: 22196574--22196786 Score: 181
Period size: 33 Copynumber: 5.5 Consensus size: 41
22196564 AATCATTAGT
22196574 GGTTGCTAAGTGCTGATTCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTT-AATGTGAAAGG
* * *
22196616 GGTTGCTAAGTGCTGATTCCTCGA-ATC---AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCATATCTTAATGTGAAAGG
* * *
22196649 GCTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTT-AATGTGAAAGG
*
22196691 GGTTGCTAAGTGCTGATTCC-CC-TAATC---AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCAT-ATCTTAATGTGAAAGG
* *
22196724 GGTTGCTAAGTGCTGATTCCATCGTATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATC-TT-AATGTGAAAGG
22196767 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
22196787 CCGAATCACT
Statistics
Matches: 136, Mismatches: 14, Indels: 41
0.71 0.07 0.21
Matches are distributed among these distances:
33 41 0.30
34 7 0.05
35 1 0.01
36 4 0.03
37 4 0.03
38 2 0.01
39 4 0.03
40 3 0.02
41 8 0.06
42 41 0.30
43 21 0.15
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCATATCTTAATGTGAAAGG
Found at i:22196794 original size:76 final size:75
Alignment explanation
Indices: 22196537--22196820 Score: 460
Period size: 75 Copynumber: 3.8 Consensus size: 75
22196527 TGATTCCCCC
* *
22196537 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTAGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
22196602 TTAAATGTGA
66 TTAAATGTGA
* * *
22196612 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGTGCTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
22196677 TTAAATGTGA
66 TTAAATGTGA
* *
22196687 AAGGGGTTGCTAAGTGCTGATTCCCCTAATCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
22196752 TTTGAATGTGA
66 -TTAAATGTGA
* * *
22196763 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTATGTGCTGAATCCA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCA
22196821 TCGATAACGG
Statistics
Matches: 193, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
75 130 0.67
76 63 0.33
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:22198411 original size:13 final size:13
Alignment explanation
Indices: 22198393--22198418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22198383 ACCTTCAAAG
22198393 GATATAAATGAAC
1 GATATAAATGAAC
22198406 GATATAAATGAAC
1 GATATAAATGAAC
22198419 TACCCGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
GATATAAATGAAC
Found at i:22198656 original size:42 final size:43
Alignment explanation
Indices: 22198597--22198689 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 43
22198587 AAGATAGTCC
22198597 GCAACAAATGCTAGACTTTGTTATATTCAGTGAATAGAAACA-
1 GCAACAAATGCTAGACTTTGTTATATTCAGTGAATAGAAACAT
22198639 GCAACAAATGCTAGACTTTGTTATATTCAGTGAATAGAAACAT
1 GCAACAAATGCTAGACTTTGTTATATTCAGTGAATAGAAACAT
22198682 GTCAACAA
1 G-CAACAA
22198690 TCATCATCTC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.86
43 1 0.02
44 6 0.12
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (43 bp):
GCAACAAATGCTAGACTTTGTTATATTCAGTGAATAGAAACAT
Found at i:22208678 original size:41 final size:42
Alignment explanation
Indices: 22208613--22208719 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 42
22208603 ATGGCCTAGC
* ** * * *
22208613 ACACGGCCTGGTACATAGGTGTGTGAGGCCATTT-TAGAGGT
1 ACACGGCCTGGCACACGGGCGTGTGAGGCCATTTCGAAAGGT
22208654 ACACGGCCTGGCACACGGGCGTGTGAGGCCATTTCGAAAGGT
1 ACACGGCCTGGCACACGGGCGTGTGAGGCCATTTCGAAAGGT
* *
22208696 ACACGGCCTGGCTCACGAGCGTGT
1 ACACGGCCTGGCACACGGGCGTGT
22208720 ATCTTGGCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 30 0.53
42 27 0.47
ACGTcount: A:0.21, C:0.24, G:0.35, T:0.21
Consensus pattern (42 bp):
ACACGGCCTGGCACACGGGCGTGTGAGGCCATTTCGAAAGGT
Found at i:22212571 original size:18 final size:18
Alignment explanation
Indices: 22212550--22212587 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22212540 CTTTCTCATT
**
22212550 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCTTC
22212568 TTCAGCAACAACTTCTTC
1 TTCAGCAACAACTTCTTC
22212586 TT
1 TT
22212588 TTGTAACATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.42
Consensus pattern (18 bp):
TTCAGCAACAACTTCTTC
Found at i:22213376 original size:130 final size:130
Alignment explanation
Indices: 22213138--22213402 Score: 503
Period size: 130 Copynumber: 2.0 Consensus size: 130
22213128 GACTTCAGTG
22213138 GTTGAGCCTTTATTTTCTAGGATTTCCTCACCAGCACGGGGCATGATTCCTCTTTGCTGGCATAA
1 GTTGAGCCTTTATTTTCTAGGATTTCCTCACCAGCACGGGGCATGATTCCTCTTTGCTGGCATAA
22213203 TAACATCACTAGGGATGGGAAAACTAAGATCCCAGACTGCTTTGCAGCGTAGTCAACTATTTTTT
66 TAACATCACTAGGGATGGGAAAACTAAGATCCCAGACTGCTTTGCAGCGTAGTCAACTATTTTTT
22213268 GTTGAGCCTTTATTTTCTAGGATTTCCTCACCAGCACGGGGCATGATTCCTCTTTGCTGGCATAA
1 GTTGAGCCTTTATTTTCTAGGATTTCCTCACCAGCACGGGGCATGATTCCTCTTTGCTGGCATAA
* * *
22213333 TAACATCACTAGGGATGGGAAAACTAAGATCCCAGTCTTCTTTGTAGCGTAGTCAACTATTTTTT
66 TAACATCACTAGGGATGGGAAAACTAAGATCCCAGACTGCTTTGCAGCGTAGTCAACTATTTTTT
22213398 GTTGA
1 GTTGA
22213403 AGAATTATGC
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (130 bp):
GTTGAGCCTTTATTTTCTAGGATTTCCTCACCAGCACGGGGCATGATTCCTCTTTGCTGGCATAA
TAACATCACTAGGGATGGGAAAACTAAGATCCCAGACTGCTTTGCAGCGTAGTCAACTATTTTTT
Found at i:22219275 original size:18 final size:19
Alignment explanation
Indices: 22219248--22219283 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22219238 AATAAAATGT
22219248 AAAAAAAAACA-CAAACAC
1 AAAAAAAAACATCAAACAC
*
22219266 AAAAATAAACATCAAACA
1 AAAAAAAAACATCAAACA
22219284 AACGCCATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.19, G:0.00, T:0.06
Consensus pattern (19 bp):
AAAAAAAAACATCAAACAC
Found at i:22223534 original size:26 final size:26
Alignment explanation
Indices: 22223500--22223568 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
22223490 TTTTTTATAT
* *
22223500 ATATTATTTATTTGAAGCTGTTTTAC
1 ATATTATTTATTTAAAGCTCTTTTAC
** *
22223526 ATATTATTTATTTAAATTTCTTTTAT
1 ATATTATTTATTTAAAGCTCTTTTAC
22223552 ATATTATTTATTATAAA
1 ATATTATTTATT-TAAA
22223569 CTTATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
ATATTATTTATTTAAAGCTCTTTTAC
Found at i:22223537 original size:30 final size:27
Alignment explanation
Indices: 22223478--22223563 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 27
22223468 TTTTATTTTC
* * *
22223478 ATTTATTTTAAGTTTTTTATATATATT
1 ATTTATTTGAAGTGTTTTACATATATT
22223505 ATTTATTTGAAGCTGTTTTAC--ATATT
1 ATTTATTTGAAG-TGTTTTACATATATT
* **
22223531 ATTTATTT-AAAT-TTCTTTTATATATT
1 ATTTATTTGAAGTGTT-TTACATATATT
22223557 ATTTATT
1 ATTTATT
22223564 ATAAACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.04
24 3 0.06
25 2 0.04
26 25 0.51
27 11 0.22
28 6 0.12
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (27 bp):
ATTTATTTGAAGTGTTTTACATATATT
Found at i:22223578 original size:26 final size:24
Alignment explanation
Indices: 22223493--22223579 Score: 79
Period size: 26 Copynumber: 3.5 Consensus size: 24
22223483 TTTTAAGTTT
*
22223493 TTTATATATATTATTTATTTGAAGC
1 TTTATATATATTATTTATTT-AAAC
* *
22223518 TGTTTTACATATTATTTATTTAAATTTC
1 T-TTATATATATTATTTATTTAAA---C
22223546 TTT-TATATATTATTTATTATAAAC
1 TTTATATATATTATTTATT-TAAAC
22223570 -TTATATATAT
1 TTTATATATAT
22223580 CTTTCAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.04
24 8 0.15
25 3 0.06
26 31 0.60
27 6 0.12
28 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTATATATATTATTTATTTAAAC
Found at i:22223654 original size:16 final size:15
Alignment explanation
Indices: 22223619--22223684 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 15
22223609 GTTTTATAAG
*
22223619 TTATTTTTTTATATTAT
1 TTATTTTATT-TATT-T
22223636 TTATTTTAAATTTA-TT
1 TTATTTT--ATTTATTT
22223652 TTATTGTTATTTATTT
1 TTATT-TTATTTATTT
22223668 TTATTTT-TTTATATT
1 TTATTTTATTTAT-TT
22223683 TT
1 TT
22223685 GTTTATTCGG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 5 0.12
15 11 0.26
16 13 0.30
17 10 0.23
18 2 0.05
19 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (15 bp):
TTATTTTATTTATTT
Found at i:22223665 original size:35 final size:33
Alignment explanation
Indices: 22223619--22223691 Score: 78
Period size: 35 Copynumber: 2.2 Consensus size: 33
22223609 GTTTTATAAG
22223619 TTATTTTTTTA-TATTATTTATTTTAAATTTAT-T
1 TTATTTTTTTATTATTATTT-TTTTAAATTT-TGT
* *
22223652 TTATTGTTATTTATTTTTATTTTTTTATATTTTGT
1 TTATT-TT-TTTATTATTATTTTTTTAAATTTTGT
22223687 TTATT
1 TTATT
22223692 CGGAACTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
33 5 0.15
34 3 0.09
35 19 0.56
36 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (33 bp):
TTATTTTTTTATTATTATTTTTTTAAATTTTGT
Found at i:22228334 original size:41 final size:41
Alignment explanation
Indices: 22228276--22228373 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
22228266 GGATACTTGA
22228276 CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACCAAT
1 CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACC-AT
* * *
22228318 -AGCTTATGTGAGCAGCACCGTGTAACTACATTACTACCGT
1 CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACCAT
22228358 CAGCTTGTGTGAGCAG
1 CAGCTTGTGTGAGCAG
22228374 ACCCACTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (41 bp):
CAGCTTGTGTGAGCAGCACCGTGTAACTACATTACGACCAT
Found at i:22230629 original size:11 final size:11
Alignment explanation
Indices: 22230613--22230648 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22230603 ATTAACCAAA
22230613 TAATTCAAACT
1 TAATTCAAACT
22230624 TAATTCAAACT
1 TAATTCAAACT
* *
22230635 TGATTCAAGCT
1 TAATTCAAACT
22230646 TAA
1 TAA
22230649 CTTAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (11 bp):
TAATTCAAACT
Found at i:22231787 original size:51 final size:51
Alignment explanation
Indices: 22231711--22231850 Score: 126
Period size: 51 Copynumber: 2.7 Consensus size: 51
22231701 ATTGATATAA
* *
22231711 TAATAAATTTAGCTCATAAAATTTACACATATC-ATCAATTTAGTCTTAATT
1 TAATAAATTTAGCTCAGAAAATTTACACAT-TCTATCAATTTAGTCATAATT
* * * *
22231762 TAATAAATTTAG-TCCGAAATATTTACACGTTCTGTCAATTTAGTCATGATT
1 TAATAAATTTAGCTCAGAAA-ATTTACACATTCTATCAATTTAGTCATAATT
* * * *
22231813 T-ATCAAATTTAACT-TGCAAAATTTTCACAATCTATCAA
1 TAAT-AAATTTAGCTCAG-AAAATTTACACATTCTATCAA
22231851 CATTCACACA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
50 9 0.12
51 59 0.82
52 4 0.06
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (51 bp):
TAATAAATTTAGCTCAGAAAATTTACACATTCTATCAATTTAGTCATAATT
Found at i:22234661 original size:2 final size:2
Alignment explanation
Indices: 22234654--22234680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22234644 TCATAATGTA
22234654 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
22234681 AATGCAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22239465 original size:25 final size:25
Alignment explanation
Indices: 22239430--22239501 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
22239420 AGGGTTACCG
22239430 ATTTCAGCTCG-AGAGAGCTTACCGTT
1 ATTT-AGCTCGCA-AGAGCTTACCGTT
* *
22239456 ATTTAGCTCGCATGAGCTTACTGTT
1 ATTTAGCTCGCAAGAGCTTACCGTT
* *
22239481 ATTCAGCTCGCACGAGCTTAC
1 ATTTAGCTCGCAAGAGCTTAC
22239502 TGATTACAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 36 0.88
26 5 0.12
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (25 bp):
ATTTAGCTCGCAAGAGCTTACCGTT
Found at i:22239502 original size:25 final size:25
Alignment explanation
Indices: 22239444--22239521 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
22239434 CAGCTCGAGA
* * *
22239444 GAGCTTACCGTTATTTAGCTCGCAT
1 GAGCTTACTGTTATTCAGCTCGCAC
22239469 GAGCTTACTGTTATTCAGCTCGCAC
1 GAGCTTACTGTTATTCAGCTCGCAC
*
22239494 GAGCTTACTG--ATTACAGCTCGTAC
1 GAGCTTACTGTTATT-CAGCTCGCAC
22239518 GAGC
1 GAGC
22239522 ATACAGATTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
23 3 0.06
24 13 0.27
25 32 0.67
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCGCAC
Found at i:22239519 original size:24 final size:25
Alignment explanation
Indices: 22239460--22239539 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
22239450 ACCGTTATTT
*
22239460 AGCTCGCATGAGCTTACTG-TTATTC
1 AGCTCGCACGAGCTTACTGATTA-TC
22239485 AGCTCGCACGAGCTTACTGATTA-C
1 AGCTCGCACGAGCTTACTGATTATC
* * * * *
22239509 AGCTCGTACGAGCATACAGATTCTT
1 AGCTCGCACGAGCTTACTGATTATC
22239534 AGCTCG
1 AGCTCG
22239540 TATGAGCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.43
25 24 0.51
26 3 0.06
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCGCACGAGCTTACTGATTATC
Found at i:22241741 original size:2 final size:2
Alignment explanation
Indices: 22241734--22241763 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22241724 AATGCCTCTT
*
22241734 GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
22241764 ATTTTCGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22256795 original size:35 final size:35
Alignment explanation
Indices: 22256749--22256819 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
22256739 ATTAATCATC
22256749 ATGTTAATCATTTATGAAGCACTTATTAGTACTGA
1 ATGTTAATCATTTATGAAGCACTTATTAGTACTGA
*
22256784 ATGTTAATCATTTTTGAAGCACTTATTAGTACTGA
1 ATGTTAATCATTTATGAAGCACTTATTAGTACTGA
22256819 A
1 A
22256820 AATCATTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (35 bp):
ATGTTAATCATTTATGAAGCACTTATTAGTACTGA
Found at i:22257213 original size:20 final size:20
Alignment explanation
Indices: 22257190--22257231 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
22257180 TAAAGTGTAT
*
22257190 ACAAAGGCACCGAAGTGCAA
1 ACAAAGGCACCGAAGTGAAA
*
22257210 ACAAAGGCACTGAAGTGAAA
1 ACAAAGGCACCGAAGTGAAA
22257230 AC
1 AC
22257232 CCCGTACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.24, T:0.07
Consensus pattern (20 bp):
ACAAAGGCACCGAAGTGAAA
Found at i:22262085 original size:50 final size:50
Alignment explanation
Indices: 22262027--22262132 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
22262017 TTTTGAGGAT
* *
22262027 ATGAGAGGTCCCCCGTAAGA-TCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACT-ATGTCTAGGACATGGCATGGGCACCGAG
* * * *
22262077 ATGAGAGGTCCCCCGTAAGACTATGTTTGGGACATGGCATGGGCTCCGAT
1 ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAG
22262127 ATGAGA
1 ATGAGA
22262133 ATCTCTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 48 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAG
Found at i:22262421 original size:20 final size:20
Alignment explanation
Indices: 22262396--22262434 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22262386 TGAGTTATTT
22262396 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
22262416 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
22262435 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:22264386 original size:17 final size:17
Alignment explanation
Indices: 22264334--22264388 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
22264324 GTAAGGGATT
* * *
22264334 TTGCGGCGGTGATAGGC
1 TTGCGACGGCGATAGGG
*
22264351 TCGCGACGGCGATAGGG
1 TTGCGACGGCGATAGGG
*
22264368 TTGCGACGGCGATATGG
1 TTGCGACGGCGATAGGG
22264385 TTGC
1 TTGC
22264389 TCCGAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.22
Consensus pattern (17 bp):
TTGCGACGGCGATAGGG
Found at i:22265065 original size:130 final size:134
Alignment explanation
Indices: 22264804--22265065 Score: 397
Period size: 130 Copynumber: 2.0 Consensus size: 134
22264794 GACCCCCTTA
22264804 TAAATCATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAAAATAAAAATTTTAAA
1 TAAATCATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTG--AAATAAAAATTTTAAA
* * * *
22264869 ATTAATCAGAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGGAACGGTTGGAGGGGT
64 ATTAATCAAAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGAAAAGGTTGGAGAGGT
22264934 CAATAT
129 CAATAT
* * *
22264940 TAAA-CATAAACAATTAAAGTTAACATTAAATATAGAAGTTAAAGTG-AA-AAAAA-TTTAAAAT
1 TAAATCATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAATAAAAATTTTAAAAT
* *
22265001 TAATCAAAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCTAGAAAAGGTTTGAGAGGTCA
66 TAATCAAAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGAAAAGGTTGGAGAGGTCA
22265066 CAATGGTCCC
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
130 67 0.57
131 5 0.04
132 2 0.02
135 39 0.33
136 4 0.03
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (134 bp):
TAAATCATAAACAATTAAAGTTAACATTAAAAACAGAAATTAAAGTGAAATAAAAATTTTAAAAT
TAATCAAAAAATTTCTTCTCAAAAGATTACATTAAATTAATGCCCAGAAAAGGTTGGAGAGGTCA
ATAT
Found at i:22270284 original size:14 final size:14
Alignment explanation
Indices: 22270265--22270291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22270255 GTGGTCCAGT
22270265 TGAACTGAACCGAG
1 TGAACTGAACCGAG
22270279 TGAACTGAACCGA
1 TGAACTGAACCGA
22270292 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:22277626 original size:22 final size:19
Alignment explanation
Indices: 22277595--22277641 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
22277585 AAAGATGATA
22277595 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
22277618 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
22277637 ATTAT
1 ATTAT
22277642 CAGTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:22277637 original size:16 final size:15
Alignment explanation
Indices: 22277597--22277638 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22277587 AGATGATAAT
22277597 TATTAATATATAATTA
1 TATTAAT-TATAATTA
22277613 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
22277629 TATTAATTAT
1 TATTAATTAT
22277639 TATCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:22285091 original size:27 final size:27
Alignment explanation
Indices: 22285056--22285153 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
22285046 CATTAAACAT
*
22285056 ACAGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAAGGGCATA
*
22285083 ATAGTCATTTTATAACATAAGGGCATA
1 ACAGTCATTTTATAACATAAGGGCATA
22285110 ACAGTCATTTTATAACATAAGGGCATA
1 ACAGTCATTTTATAACATAAGGGCATA
*
22285137 ACCGTCATTTTATAACA
1 ACAGTCATTTTATAACA
22285154 GTTTGGGGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAAGGGCATA
Found at i:22292629 original size:27 final size:27
Alignment explanation
Indices: 22292589--22292717 Score: 190
Period size: 27 Copynumber: 4.8 Consensus size: 27
22292579 ATAACATTAA
* *
22292589 GCATAA-ATTCATTTTCTAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
*
22292615 GCATGATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
22292642 GCATAATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
*
22292669 GCATAACAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
*
22292696 GCATAACCA-TCATTTTATAACA
1 GCATAA-TAGTCATTTTATAACA
22292718 GTTTGGGGGT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.05
27 89 0.93
28 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (27 bp):
GCATAATAGTCATTTTATAACATAGGG
Found at i:22295014 original size:50 final size:50
Alignment explanation
Indices: 22294898--22295141 Score: 353
Period size: 50 Copynumber: 4.9 Consensus size: 50
22294888 GATCATAACA
* ** * **
22294898 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
22294949 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
22294999 TGCCAAGGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22295049 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22295099 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
22295142 TACCCAAATG
Statistics
Matches: 172, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 139 0.81
51 33 0.19
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Done.