Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 137 of 322
Found at i:44782364 original size:29 final size:30
Alignment explanation
Indices: 44782316--44782372 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
44782306 AAATTGAATC
44782316 AAATCAAAATATTATATATAAAATTACACA
1 AAATCAAAATATTATATATAAAATTACACA
* * *
44782346 AAATTAAAAT-TTATGTATAATATTACA
1 AAATCAAAATATTATATATAAAATTACA
44782373 GGTTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (30 bp):
AAATCAAAATATTATATATAAAATTACACA
Found at i:44783859 original size:30 final size:28
Alignment explanation
Indices: 44783825--44783886 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
44783815 TTAACAATAA
*
44783825 GAGTTTATTTTTAATTTTATTTA-TGAAAAT
1 GAGTTTATTTTT--TATTATTTACT-AAAAT
44783855 GAG-TTATTTTTTATTATTTACTAAAAT
1 GAGTTTATTTTTTATTATTTACTAAAAT
44783882 GAGTT
1 GAGTT
44783887 GAAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 16 0.55
28 2 0.07
29 8 0.28
30 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (28 bp):
GAGTTTATTTTTTATTATTTACTAAAAT
Found at i:44784274 original size:34 final size:34
Alignment explanation
Indices: 44784171--44784276 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
44784161 AATAAATCGA
*
44784171 GGTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
1 GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
* *
44784205 GTTTTAAGAG-TTTTAAATAAATTAATTAAATTAG
1 G-GTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
*
44784239 GGTTCAGAGTTTTTAAAAAAATTAATTAAATTAG
1 GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
44784273 GGTT
1 GGTT
44784277 TTTTTTCAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
33 6 0.09
34 52 0.81
35 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
Found at i:44784656 original size:127 final size:127
Alignment explanation
Indices: 44784391--44784889 Score: 655
Period size: 127 Copynumber: 4.0 Consensus size: 127
44784381 TCAGAATAAT
* ** * * *
44784391 TAATTTTGAGAAGACGGTTCTGAAATGATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAA
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * *
44784456 CAAAATTTCT-AAAAAAA-CTCTCACATGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* * *
44784516 TAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCATTGTCAG
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* *
44784581 CAAAATTACTGAAAAAAAGTTCCCATGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* *
44784643 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAG
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * *
44784708 CAAAATTACTGAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTTCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* ** * ** *
44784770 TAATTTTAAGAAGAC-AGTAATGAAAAAATAGTGTCAAAAATACTTCAAGTAGGATGCACTGTCA
1 TAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCA
* * * * * * * *
44784834 ACCAATTTATTG-GAAAAAGCTCTCACGTGAACGTTCTTTTTCTACAGTAGTTCCTG
65 ACAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTG
44784890 CTTGGCCTTA
Statistics
Matches: 331, Mismatches: 40, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 65 0.20
126 45 0.14
127 221 0.67
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (127 bp):
TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
Found at i:44786652 original size:21 final size:21
Alignment explanation
Indices: 44786611--44786652 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44786601 AAGAAAGGAA
* **
44786611 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
44786632 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
44786653 GGTTATCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:44789030 original size:47 final size:47
Alignment explanation
Indices: 44788976--44789921 Score: 1811
Period size: 47 Copynumber: 20.1 Consensus size: 47
44788966 TTAGGATTTT
** * *
44788976 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789023 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789070 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789117 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789164 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789211 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789258 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789305 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789352 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789399 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789446 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789493 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789540 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789587 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789634 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789681 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789728 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789775 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789822 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
44789869 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44789916 ATGTGA
1 ATGTGA
44789922 AATATGTATG
Statistics
Matches: 889, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 889 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44789955 original size:48 final size:48
Alignment explanation
Indices: 44789892--44790027 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
44789882 GAACATGCAT
44789892 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
44789940 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
44789990 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44790028 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:44790042 original size:50 final size:50
Alignment explanation
Indices: 44789040--44790048 Score: 246
Period size: 47 Copynumber: 21.3 Consensus size: 50
44789030 GAATGTGAAC
* * * * * *
44789040 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789087 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789134 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789181 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789228 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789275 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789322 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789369 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789416 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789463 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789510 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789557 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789604 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789651 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789698 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789745 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * *
44789792 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGAT
* * * * * * *
44789839 ATGCATATATGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAGAT
*
44789886 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
44789936 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
44789986 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
44790034 GTGCGTATATCGTGG
1 ATGCGTATAT-GTGG
44790049 CCGAACGACC
Statistics
Matches: 931, Mismatches: 14, Indels: 30
0.95 0.01 0.03
Matches are distributed among these distances:
46 1 0.00
47 825 0.89
48 39 0.04
49 10 0.01
50 51 0.05
51 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:44790281 original size:37 final size:37
Alignment explanation
Indices: 44790175--44790281 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
44790165 AAATATATTT
*
44790175 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
44790212 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
44790249 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
44790282 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:44794835 original size:200 final size:200
Alignment explanation
Indices: 44794492--44794891 Score: 728
Period size: 200 Copynumber: 2.0 Consensus size: 200
44794482 GAGTACTTAT
*
44794492 CTTGATAATAGCCCTCAAATCCTTGTTGGCTTTGAAGAAATCGGAGCTTAAATAAGGATTGTGAG
1 CTTGATAATAGCCCTCAAATCCTTGTTGGCTTTGAAGAAATCAGAGCTTAAATAAGGATTGTGAG
* * *
44794557 GTCTAGGAATGGTAGCACTTTCAGATTCATGGACGAGTAGGGTCGATTAGCCTTCGTGTGACGAT
66 GTCTAGGAATGGTAGCACTTTCAGATTCACGGACGAGTAGGGTCGATTAGCCTTCGTGCGACAAT
* *
44794622 CGTCTACAGAAAACGGACGCAAAACAACGGTTGAATGATGCTTTAAGTTCTGCCGAATGAAGAAG
131 CGTCTACAGAAAACGGAAGCAAAACAACGGTTGAAGGATGCTTTAAGTTCTGCCGAATGAAGAAG
44794687 AGAGA
196 AGAGA
44794692 CTTGATAATAGCCCTCAAATCCTTGTTGGCTTTGAAGAAATCAGAGCTTAAATAAGGATTGTGAG
1 CTTGATAATAGCCCTCAAATCCTTGTTGGCTTTGAAGAAATCAGAGCTTAAATAAGGATTGTGAG
*
44794757 GTCTAGGAATGGTAGCACTTTCAGATTTACGGACGAGTAGGGTCGATTAGCCTTCGTGCGACAAT
66 GTCTAGGAATGGTAGCACTTTCAGATTCACGGACGAGTAGGGTCGATTAGCCTTCGTGCGACAAT
*
44794822 CGTCTGCAGAAAACGGAAGCAAAACAACGGTTGAAGGATGCTTTAAGTTCTGCCGAATGAAGAAG
131 CGTCTACAGAAAACGGAAGCAAAACAACGGTTGAAGGATGCTTTAAGTTCTGCCGAATGAAGAAG
44794887 AGAGA
196 AGAGA
44794892 TAGGCTTTAG
Statistics
Matches: 192, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 192 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.26
Consensus pattern (200 bp):
CTTGATAATAGCCCTCAAATCCTTGTTGGCTTTGAAGAAATCAGAGCTTAAATAAGGATTGTGAG
GTCTAGGAATGGTAGCACTTTCAGATTCACGGACGAGTAGGGTCGATTAGCCTTCGTGCGACAAT
CGTCTACAGAAAACGGAAGCAAAACAACGGTTGAAGGATGCTTTAAGTTCTGCCGAATGAAGAAG
AGAGA
Found at i:44795598 original size:24 final size:24
Alignment explanation
Indices: 44795571--44795618 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
44795561 TTATTAATTT
44795571 TATG-TTATTT-TAATTTCTTTTAAA
1 TATGTTTATTTGT-ATTT-TTTTAAA
44795595 TATGTTTATTTGTATTTTTTTAAA
1 TATGTTTATTTGTATTTTTTTAAA
44795619 CAATTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 10 0.45
26 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TATGTTTATTTGTATTTTTTTAAA
Found at i:44800194 original size:14 final size:13
Alignment explanation
Indices: 44800175--44800230 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 13
44800165 TTGAGACCTT
44800175 GAAAAAAATCAAAA
1 GAAAAAAAT-AAAA
44800189 GAAAAAAATAAAA
1 GAAAAAAATAAAA
*
44800202 -AAAAAAGA-AGAA
1 GAAAAAA-ATAAAA
44800214 GAAAAAAATAAAA
1 GAAAAAAATAAAA
44800227 -AAAA
1 GAAAA
44800231 GAAGAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 14 0.38
13 14 0.38
14 9 0.24
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (13 bp):
GAAAAAAATAAAA
Found at i:44800195 original size:13 final size:12
Alignment explanation
Indices: 44800177--44800248 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 12
44800167 GAGACCTTGA
44800177 AAAAAATCAAAAG
1 AAAAAAT-AAAAG
44800190 AAAAAAATAAAA-
1 -AAAAAATAAAAG
*
44800202 AAAAAAGAAGAAG
1 AAAAAATAA-AAG
44800215 AAAAAAATAAAA-
1 -AAAAAATAAAAG
* *
44800227 AAAAGA-AGAAG
1 AAAAAATAAAAG
*
44800238 AAAAATTAAAA
1 AAAAAATAAAA
44800249 AAATACAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.07
11 17 0.37
12 5 0.11
13 6 0.13
14 15 0.33
ACGTcount: A:0.82, C:0.01, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAATAAAAG
Found at i:44800204 original size:22 final size:22
Alignment explanation
Indices: 44800176--44800258 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 22
44800166 TGAGACCTTG
44800176 AAAAAAATCAAAAGAAAAAAAT
1 AAAAAAATCAAAAGAAAAAAAT
**
44800198 AAAAAAAAAAGAAGAAGAAAAAAAT
1 --AAAAAAATCAA-AAGAAAAAAAT
*
44800223 AAAAAAA--AGAAGAAGAAAAATT
1 AAAAAAATCAAAAGAA-AAAAA-T
44800245 AAAAAAATACAAAA
1 AAAAAAAT-CAAAA
44800259 CTTGAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
20 5 0.10
21 6 0.12
22 8 0.16
23 7 0.14
24 9 0.18
25 14 0.29
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.07
Consensus pattern (22 bp):
AAAAAAATCAAAAGAAAAAAAT
Found at i:44800207 original size:25 final size:25
Alignment explanation
Indices: 44800176--44800251 Score: 88
Period size: 23 Copynumber: 3.2 Consensus size: 25
44800166 TGAGACCTTG
*
44800176 AAAAAAATCAA-AAGAAAAAAATAA
1 AAAAAAAACAAGAAGAAAAAAATAA
*
44800200 AAAAAAAAGAAGAAGAAAAAAAT--
1 AAAAAAAACAAGAAGAAAAAAATAA
* *
44800223 AAAAAAAAGAAGAAG-AAAAATTAA
1 AAAAAAAACAAGAAGAAAAAAATAA
44800247 AAAAA
1 AAAAA
44800252 TACAAAACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.13
23 15 0.33
24 14 0.30
25 11 0.24
ACGTcount: A:0.83, C:0.01, G:0.09, T:0.07
Consensus pattern (25 bp):
AAAAAAAACAAGAAGAAAAAAATAA
Found at i:44800219 original size:26 final size:23
Alignment explanation
Indices: 44800187--44800251 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
44800177 AAAAAATCAA
44800187 AAGAAAAAAATAAAAAAAAAAGAAG
1 AAGAAAAAAAT--AAAAAAAAGAAG
44800212 AAGAAAAAAATAAAAAAAAGAAG
1 AAGAAAAAAATAAAAAAAAGAAG
*
44800235 AAG-AAAAATTAAAAAAA
1 AAGAAAAAAATAAAAAAA
44800252 TACAAAACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 13 0.33
23 15 0.38
25 11 0.28
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (23 bp):
AAGAAAAAAATAAAAAAAAGAAG
Found at i:44800248 original size:20 final size:22
Alignment explanation
Indices: 44800187--44800251 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
44800177 AAAAAATCAA
*
44800187 AAGAA-AAAAATAAAAAAAAAAG
1 AAGAAGAAAAA-ATAAAAAAAAG
44800209 AAGAAGAAAAAAATAAAAAAAAG
1 AAGAAG-AAAAAATAAAAAAAAG
*
44800232 AAGAAGAAAAATTAAAAAAA
1 AAGAAGAAAAAATAAAAAAA
44800252 TACAAAACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.46
23 16 0.41
24 5 0.13
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (22 bp):
AAGAAGAAAAAATAAAAAAAAG
Found at i:44801548 original size:66 final size:66
Alignment explanation
Indices: 44801359--44801558 Score: 269
Period size: 66 Copynumber: 3.0 Consensus size: 66
44801349 AGATCATTCT
44801359 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTTGATCATAGCATCCTAATTATTTGACATA
1 CATAACACATCTAGTTAGGAGCATTTGATTCA-TTTTGATCATAGCATCCTAATTATTTGACATA
44801424 AA
65 AA
* * * *
44801426 CAT--CACATCTAGTTAGGTGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATCA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
*
44801489 G
66 A
* * * * * * *
44801490 CATAATACATCTAGTTAGGAGTATTTGATTTATTTTGATCATAACATCTTAATCATTTGGCATAA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
44801555 A
66 A
44801556 CAT
1 CAT
44801559 GATACATGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
64 34 0.30
65 25 0.22
66 52 0.46
67 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (66 bp):
CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
A
Found at i:44802653 original size:131 final size:130
Alignment explanation
Indices: 44802490--44802742 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 130
44802480 TAAGCCTCAA
*
44802490 AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAAT-GAGTCTTATCTTCCTAAGATAG
1 AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTAAAG-ATGGAGTCTTATCTTCCTAAGATAG
* * *
44802554 CAAGGAAACAGACTGAGATTTGAAGATCTTATTTCACTAAGACAGTAGTGGAGCAGATTTTATTA
65 CAAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAA-ACAGTAGCGGAGCAGATTTTATTA
44802619 CT
129 CT
* * * *
44802621 AGCCTCATTTCTCTGAGGTAGCAAGA-AGGCAGGTTAAAGATGGAGTCTTATCTTCCTGAGGTAG
1 AGCCTCATCTCTCTAAGGTAGCAAGAGA-GCAGGTTAAAGATGGAGTCTTATCTTCCTAAGATAG
* *
44802685 CAAGGAAACAGACTGAGAATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATT
65 CAAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATT
44802743 GAAGATGGTG
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
130 20 0.18
131 90 0.82
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (130 bp):
AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTAAAGATGGAGTCTTATCTTCCTAAGATAGC
AAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATTTTATTACT
Found at i:44804631 original size:24 final size:24
Alignment explanation
Indices: 44804604--44804651 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
44804594 TTATTAATTT
44804604 TATG-TTATTT-TAATTTCTTTTAAA
1 TATGTTTATTTGT-ATTT-TTTTAAA
44804628 TATGTTTATTTGTATTTTTTTAAA
1 TATGTTTATTTGTATTTTTTTAAA
44804652 CAATTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.50
25 10 0.45
26 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TATGTTTATTTGTATTTTTTTAAA
Found at i:44808094 original size:12 final size:12
Alignment explanation
Indices: 44808062--44808087 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44808052 TTTAAAATCT
44808062 AAAATTAAAAAA
1 AAAATTAAAAAA
44808074 AAAATTAAAAAA
1 AAAATTAAAAAA
44808086 AA
1 AA
44808088 TTTTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATTAAAAAA
Found at i:44814873 original size:28 final size:28
Alignment explanation
Indices: 44814812--44814934 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
44814802 ATATTAAGTC
*
44814812 CGCACACTCAGTGCTATATAAT-AAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44814839 CGCACACTTGGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44814867 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44814895 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44814924 CGCACACTTAG
1 CGCACACTTAG
44814935 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.24
28 49 0.58
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44820186 original size:19 final size:21
Alignment explanation
Indices: 44820146--44820186 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
44820136 TTTTTCAATG
44820146 AAATATTAAAAATATTACTTA
1 AAATATTAAAAATATTACTTA
*
44820167 AAAT-TTAAAATTATTA-TTA
1 AAATATTAAAAATATTACTTA
44820186 A
1 A
44820187 TGTTAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATTAAAAATATTACTTA
Found at i:44820712 original size:38 final size:38
Alignment explanation
Indices: 44820670--44820744 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
44820660 ATGAAAGGTT
* * *
44820670 TAGTCAATGCCAACCAT-TAAAAAAGGTTGGGATAGACC
1 TAGTCAAGGCCAACC-TCTAAAAAAGGTCGAGATAGACC
*
44820708 TAGTCAAGGCCAACCTCTGAAAAAGGTCGAGATAGAC
1 TAGTCAAGGCCAACCTCTAAAAAAGGTCGAGATAGAC
44820745 TCGTCTAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (38 bp):
TAGTCAAGGCCAACCTCTAAAAAAGGTCGAGATAGACC
Found at i:44821087 original size:149 final size:148
Alignment explanation
Indices: 44820786--44821126 Score: 363
Period size: 149 Copynumber: 2.3 Consensus size: 148
44820776 AGATAACCTT
* * * * * * *
44820786 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACATTTAAAAAAAGTTATGATAAACCTTGTCT
1 TTAAAAAAGGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTCT
* * *
44820851 AAAGCAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACCTTAAATAGGTTGGTATAGA
66 AAAGCAACCTTTAAAAAAGATTAGAATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGGTATAGA
* *
44820916 CCTTGTCTAAGGTAACTT
131 CCTTGTCTAAGGCAACTC
* * * *
44820934 TTAAAAAATGGTGGGATAGACCTTATCTAACGCAACCTTTTAAAATAGTTGGGATAGACATTGTC
1 TTAAAAAA-GGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTC
* * *
44820999 TAAAGCAACCTTT-AAAAAGGTTAGAATAGACCTA-TCTAAGGCAACCTTTTAAAAATGTTAGG-
65 TAAAGCAACCTTTAAAAAAGATTAGAATAGA-ATAGTCTAAGGCAACC--TTAAAAAGGTT-GGT
*
44821061 ATAGGCCTTGT-TAAAGGCAAC-C
126 ATAGACCTTGTCT-AAGGCAACTC
* *
44821083 TTAAAAAAAGGTTGAGATAGA-CTTATCTAATGCAACC-TTAAAAA
1 TT-AAAAAAGG-TGGGATAGACCTTATCTAACGCAACCTTTAAAAA
44821127 GGTTGGCATA
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
148 40 0.25
149 80 0.49
150 40 0.25
151 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (148 bp):
TTAAAAAAGGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTCT
AAAGCAACCTTTAAAAAAGATTAGAATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGGTATAGA
CCTTGTCTAAGGCAACTC
Found at i:44821220 original size:108 final size:107
Alignment explanation
Indices: 44820837--44821396 Score: 422
Period size: 108 Copynumber: 5.1 Consensus size: 107
44820827 AAAAAGTTAT
* * * *
44820837 GATAAACCTTGTCTAAAGCAACCTTTAAAAAAGATTGGGATAGA-ATAGTCTAAGGCAACCTTAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCT-GTCTAAGGCAACCTTAA
* * * *
44820901 ATAGGTTGGTATAGA-CCTTGTCTAAGGTAACTTTTAAAAAATGG-TGG
65 AAAGGTTGG-ATAGATCC--ATCTAAGGCAAC-CTT-AAAAA-GGTTGG
* * * * *
44820948 GATAGACCTTATCTAACGCAACCTTTTAAAATA-GTTGGGATAGACATTGTCTAAAGCAACCTTT
1 GATAGACCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGGGATAGAC-CTGTCTAAGGCAACC-TT
* * *
44821012 AAAAAGGTTAGAATAGA-CCTATCTAAGGCAACCTTTTAAAAATGTTAG
63 AAAAAGGTT-GGATAGATCC-ATCTAAGGCAACC--TTAAAAAGGTTGG
* * * * * *
44821060 GATAGGCCTTGT-TAAAGGCAACCTTAAAAAAAGGTTGAGATAGACTTATCTAATGCAACCTTAA
1 GATAGACCTTGTCT-AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAA
* *
44821124 AAAGGTTGGCATAGATTCATCTAAGGTAACCTTAAAAAGGTTGG
65 AAAGGTTGG-ATAGATCCATCTAAGGCAACCTTAAAAAGGTTGG
** * * * * *
44821168 GATAGATATTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACGTTAAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
* * * * *
44821233 AATGTTAGGATA-AACCAGTTTACA-GCAACCCTAAAAAGGTTAG
66 AAGGTT-GGATAGATCCA-TCTA-AGGCAACCTTAAAAAGGTTGG
* * * * * *
44821276 GATAGACCTTTTCGAAGGCAA-C-TTAAAAAAAGTTGGGATAAACCCGTCTAAGGAAACCTTAAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
* * * *
44821339 AAGGTTAGGGTA-AACACGTCTAAGGCAAACTTAAAAAGGTTGG
66 AAGGTT-GGATAGATC-CATCTAAGGCAACCTTAAAAAGGTTGG
*
44821382 GATAGATCTTTGTCT
1 GATAGA-CCTTGTCT
44821397 CATGTTTAAT
Statistics
Matches: 360, Mismatches: 70, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
105 1 0.00
106 71 0.20
107 9 0.03
108 105 0.29
109 5 0.01
110 28 0.08
111 53 0.15
112 67 0.19
113 20 0.06
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (107 bp):
GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
AAGGTTGGATAGATCCATCTAAGGCAACCTTAAAAAGGTTGG
Found at i:44821303 original size:35 final size:36
Alignment explanation
Indices: 44820786--44821396 Score: 358
Period size: 35 Copynumber: 16.8 Consensus size: 36
44820776 AGATAACCTT
* * * * * *
44820786 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACAT
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAAC-C
* * * *
44820823 TTAAAAAAAGTTATGATAAACCTTGTCTAAAGCAACC
1 TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * *
44820860 TTTAAAAAAGATTGGGATAGA-ATAGTCTAAGGCAACC
1 -TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
44820897 TTAAATAGGTT-GGTATAGACCTTGTCTAAGGTAACTT
1 TTAAAAAGGTTAGG-ATAGACCTTGTCTAAGGCAAC-C
* * *
44820934 TTAAAAAATGG-TGGGATAGACCTTATCTAACGCAACC
1 TT-AAAAA-GGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
44820971 TTTTAAAATA-GTTGGGATAGACATTGTCTAAAGCAACC
1 --TTAAAA-AGGTTAGGATAGACCTTGTCTAAGGCAACC
* *
44821009 TTTAAAAAGGTTAGAATAGACC-TATCTAAGGCAACC
1 -TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* *
44821045 TTTTAAAAATGTTAGGATAGGCCTTGT-TAAAGGCAACC
1 --TTAAAAAGGTTAGGATAGACCTTGTCT-AAGGCAACC
* *
44821083 TTAAAAAAAGGTT-GAGATAGA-CTTATCTAATGCAACC
1 TT--AAAAAGGTTAG-GATAGACCTTGTCTAAGGCAACC
* *
44821120 TTAAAAAGGTT-GGCATAGA--TTCATCTAAGGTAACC
1 TTAAAAAGGTTAGG-ATAGACCTT-GTCTAAGGCAACC
* ** *
44821155 TTAAAAAGGTTGGGATAGATATTGTCTAAGGCAACTT
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAAC-C
* * * *
44821192 TTAGAAAAGGTTGGGATTGACC-TGTCTAAGACAACG
1 TTA-AAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * *
44821228 TTAAAAATGTTAGGATAAACC-AGTTTACA-GCAACC
1 TTAAAAAGGTTAGGATAGACCTTGTCTA-AGGCAACC
* * *
44821263 CTAAAAAGGTTAGGATAGACCTTTTCGAAGGCAA-C
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * * *
44821298 TTAAAAAAAGTTGGGATAAACC-CGTCTAAGGAAACC
1 TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
44821334 TTAAAAAGGTTAGGGTAAACAC--GTCTAAGGCAAAC
1 TTAAAAAGGTTAGGATAGAC-CTTGTCTAAGGCAACC
* *
44821369 TTAAAAAGGTTGGGATAGATCTTTGTCT
1 TTAAAAAGGTTAGGATAGA-CCTTGTCT
44821397 CATGTTTAAT
Statistics
Matches: 453, Mismatches: 85, Indels: 72
0.74 0.14 0.12
Matches are distributed among these distances:
34 5 0.01
35 147 0.32
36 72 0.16
37 91 0.20
38 131 0.29
39 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
Found at i:44821340 original size:71 final size:72
Alignment explanation
Indices: 44820786--44821385 Score: 293
Period size: 73 Copynumber: 8.2 Consensus size: 72
44820776 AGATAACCTT
* * * * * * * * *
44820786 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACATTTAAAAAAAGTTATGATAAACCTT-GTC
1 TTAAAAAAGTTGGGATAAAC-CTGTCTAAGGCAAC-CTT-AAAAAGGTTAGGATAGACCTTCTTC
*
44820850 TAAAGCAACC
63 TAAGGCAACC
* *
44820860 TTTAAAAAAGATTGGGATAGAA--TAGTCTAAGGCAACCTTAAATAGGTT-GGTATAGACCTT-G
1 -TTAAAAAAG-TTGGGATA-AACCT-GTCTAAGGCAACCTTAAAAAGGTTAGG-ATAGACCTTCT
* *
44820921 TCTAAGGTAACTT
61 TCTAAGGCAAC-C
* * * * * * *
44820934 TTAAAAAATGGTGGGATAGACCTTATCTAACGCAACCTTTTAAAATA-GTTGGGATAGACATT-G
1 TTAAAAAA-GTTGGGATAAACC-TGTCTAAGGCAACC--TTAAAA-AGGTTAGGATAGACCTTCT
*
44820997 TCTAAAGCAACC
61 TCTAAGGCAACC
* * * * * * * *
44821009 TTTAAAAAGGTTAGAATAGACCTATCTAAGGCAACCTTTTAAAAATGTTAGGATAGGCCTTGTT-
1 -TTAAAAAAGTTGGGATAAACCTGTCTAAGGCAACC--TTAAAAAGGTTAGGATAGACCTTCTTC
*
44821073 AAAGGCAACC
63 TAAGGCAACC
* * * * * *
44821083 TTAAAAAAAGGTTGAGATAGACTTATCTAATGCAACCTTAAAAAGGTT-GGCATAGA--TTCATC
1 TT-AAAAAA-GTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGG-ATAGACCTTCTTC
*
44821145 TAAGGTAACC
63 TAAGGCAACC
* * * * * *
44821155 TTAAAAAGGTTGGGATAGATA-TTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACC-T-GT
1 TTAAAAAAGTTGGGATA-A-ACCTGTCTAAGGCAAC-CTTA-AAAAGGTTAGGATAGACCTTCTT
* *
44821217 CTAAGACAACG
62 CTAAGGCAACC
* * * * * *
44821228 TTAAAAATGTTAGGATAAACCAGTTTACA-GCAACCCTAAAAAGGTTAGGATAGACCTT-TTCGA
1 TTAAAAAAGTTGGGATAAACCTGTCTA-AGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTA
44821291 AGGCAA-C
65 AGGCAACC
* * * * * *
44821298 TTAAAAAAAGTTGGGATAAACCCGTCTAAGGAAACCTTAAAAAGGTTAGGGTA-AAC-ACGTCTA
1 TT-AAAAAAGTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTA
*
44821361 AGGCAAAC
65 AGGCAACC
*
44821369 TTAAAAAGGTTGGGATA
1 TTAAAAAAGTTGGGATA
44821386 GATCTTTGTC
Statistics
Matches: 412, Mismatches: 79, Indels: 73
0.73 0.14 0.13
Matches are distributed among these distances:
70 52 0.13
71 76 0.18
72 28 0.07
73 94 0.23
74 64 0.16
75 53 0.13
76 41 0.10
77 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (72 bp):
TTAAAAAAGTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTAA
GGCAACC
Found at i:44822877 original size:16 final size:16
Alignment explanation
Indices: 44822856--44822887 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44822846 TTAATATGTA
44822856 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
44822872 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
44822888 CATTGAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ATACTTACAAACTGTG
Found at i:44824441 original size:323 final size:323
Alignment explanation
Indices: 44823853--44824446 Score: 1109
Period size: 323 Copynumber: 1.8 Consensus size: 323
44823843 AAGCTTTAAC
44823853 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* * *
44823918 ATACTGGATTACACAATGACCATTCAAGTCCTTCGACAATGTAACAGCTCCAATGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
44823983 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
44824048 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
196 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
44824113 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
261 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
44824176 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* *
44824241 ATACGGGATTACACGATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAGTGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
44824306 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
* *
44824371 TTATCACC-AATTGAAAATATATTTGTATTTTATTTATTGAACACAAAACAACTTCTTAACCAGA
196 CTATCACCGAA-TGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGA
44824435 AACAAAAAAAAA
260 AACAAAAAAAAA
44824447 ACTGATTCAA
Statistics
Matches: 263, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
322 2 0.01
323 261 0.99
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (323 bp):
TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
Found at i:44825872 original size:31 final size:31
Alignment explanation
Indices: 44825812--44825879 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
44825802 AATAATAATG
* *
44825812 ATTTAACTTTTTTTAAAAGGATAATAATTAA
1 ATTTAACTCTTTTTAAAAGGATAAGAATTAA
* *
44825843 ATTTCACTCTTTTTAAAA-GACTAAGAATTAG
1 ATTTAACTCTTTTTAAAAGGA-TAAGAATTAA
44825874 ATTTAA
1 ATTTAA
44825880 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTTAACTCTTTTTAAAAGGATAAGAATTAA
Found at i:44827404 original size:266 final size:266
Alignment explanation
Indices: 44826887--44827643 Score: 945
Period size: 266 Copynumber: 2.8 Consensus size: 266
44826877 ATCCTAAACC
* * * *
44826887 CCTTAGGAATGCATATACCAACACTTATACAAAGAGTTGGCCAAAGTGTATGTTCG-CAAGTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTT-GACAAGTCTA
* * * * * *
44826951 TCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTAGGCATAGCG-TTGGACAAAA-CCAACTCT
65 TCCCAACACTTAGGAAA-TGTCGCCCCAAAAGTGTCGTCTTAG-GACTAGACAAAAGCCAACTCT
* * * * *
44827014 TATTTAAGCGTTACCTTAAGTATGCATATCCCAACCCTTATACAAAAAGTTGACCAAAGCGTATG
128 TATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATG
* * * * * **
44827079 TCGGCAAGTTTGTCCCAACACTTAGGAAATTATTGTCTTAGAACTGGACAAAGCCAACTCTTATT
193 TTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATT
*
44827144 TAAGCGTTG
258 CAAGCGTTG
* *
44827153 CCTTAGGCATGCATA-CCTCAAC-CTTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCC
1 CCTTAGGCATACATATCC-CAACTC-TTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCT
**
44827216 ATCCCAACACTTAGGAAA-GTCGCCCCAAAACAGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
64 ATCCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* ** * * **
44827280 ATTTAAGCATTGTTTTAGGCATACATATCTCAACCCTTACGCAAAGAGTTGGCCAAAGCGTATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
** * *
44827345 TGGCAAGTCTATCCCAACACTTACAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATT
194 TGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACAC-AAAGCCAACTCTTATT
*
44827410 CAAGTGTTG
258 CAAGCGTTG
* * *
44827419 CCTTAGGCATATATATCCCAACTCTTATACAAAGAGTTGGCCAAA-TCGTATGTTCACAACTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGT-GTATGTTGACAAGTCTA
*
44827483 TCCCAACACTTAGGAAAATGTCTCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTT
65 TCCCAACACTTAGG-AAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* * * * *
44827547 ATGTAAGTGTTGCCTTAGTCACGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
*
44827612 TGGCCAGTCTATCCCAACACTTAGGAAAGTGT
194 TGGCAAGTCTATCCCAACACTTAGGAAAGTGT
44827644 CGCCCCATAA
Statistics
Matches: 421, Mismatches: 59, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
263 1 0.00
264 26 0.06
265 104 0.25
266 160 0.38
267 101 0.24
268 29 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (266 bp):
CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCTAT
CCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT
TTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTG
GCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATTCAA
GCGTTG
Found at i:44827426 original size:127 final size:126
Alignment explanation
Indices: 44827248--44827645 Score: 429
Period size: 127 Copynumber: 3.0 Consensus size: 126
44827238 CCCCAAAACA
** ** *
44827248 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCATTGTTTTAGGCATACATATCTCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATACATATCCCAA
**
44827313 CCCTTACGCAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
* * * *
44827375 GTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATATATCCCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATT-AAGTGTTGCCTTAGGCATACATATCCCAA
* * ** *
44827440 CTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGAAAATGTC
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTT------A----
44827505 TCCCCAAAAGT
120 ----CAAAAGT
* **
44827516 GTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGTAAGTGTTGCCTTAGTCACGCATATCCCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT-TAAGTGTTGCCTTAGGCATACATATCCCAA
* * **
44827580 CCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAACACTTAGGAAAGT
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
44827642 GTCG
1 GTCG
44827646 CCCCATAAAT
Statistics
Matches: 223, Mismatches: 32, Indels: 33
0.77 0.11 0.11
Matches are distributed among these distances:
126 11 0.05
127 100 0.45
133 1 0.00
134 1 0.00
140 86 0.39
141 24 0.11
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (126 bp):
GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTAAGTGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
Found at i:44827623 original size:140 final size:141
Alignment explanation
Indices: 44827368--44827665 Score: 404
Period size: 140 Copynumber: 2.1 Consensus size: 141
44827358 CCAACACTTA
* * * *
44827368 CAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATAT
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
* * *
44827433 ATCCCAACTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGA
66 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGGA
*
44827498 AAATGTCTCCC
131 AAATGTCGCCC
* * *
44827509 CAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGT-AAGTGTTGCCTTAGTCACGCA
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTAT-TCAAGTGTTGCCTTAGGCACACA
** * *
44827572 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAACACTTAGG
65 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGG
*
44827637 AAAGTGTCGCCC
130 AAAATGTCGCCC
*
44827649 CATAAA-TGTCGTTTTAG
1 CA-AAAGTGTCGTCTTAG
44827666 CACTGTTTTG
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
140 111 0.80
141 27 0.20
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (141 bp):
CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGGA
AAATGTCGCCC
Found at i:44829035 original size:31 final size:31
Alignment explanation
Indices: 44828997--44829092 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 31
44828987 TCTTTTTTTC
*
44828997 TATTTTTTAATTTTTTTATTTATTTGTTTAT
1 TATTTTTTAAATTTTTTATTTATTTGTTTAT
* *
44829028 TATTTTTTAAAATTATTTA-TTATTTATTTTAT
1 TATTTTTT-AAATTTTTTATTTATTT-GTTTAT
* * * *
44829060 AATATTTTAAATGTTTTATAATATTTGTTTAT
1 TATTTTTTAAATTTTTTAT-TTATTTGTTTAT
44829092 T
1 T
44829093 TATACGTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
31 22 0.43
32 24 0.47
33 5 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (31 bp):
TATTTTTTAAATTTTTTATTTATTTGTTTAT
Found at i:44829047 original size:32 final size:30
Alignment explanation
Indices: 44828997--44829092 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 30
44828987 TCTTTTTTTC
*
44828997 TATTTTTTAATTTTTTTATTTATTTGTTTAT
1 TATTTTTTAA-ATTTTTATTTATTTGTTTAT
*
44829028 TATTTTTTAAAATTATTTA-TTATTTATTTTAT
1 TATTTTTT-AAATT-TTTATTTATTT-GTTTAT
* * *
44829060 AATATTTTAAATGTTTTATAATATTTGTTTAT
1 TATTTTTTAAAT-TTTTAT-TTATTTGTTTAT
44829092 T
1 T
44829093 TATACGTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
31 24 0.46
32 23 0.44
33 5 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (30 bp):
TATTTTTTAAATTTTTATTTATTTGTTTAT
Found at i:44829076 original size:9 final size:10
Alignment explanation
Indices: 44829052--44829085 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
44829042 ATTTATTATT
44829052 TATTTTATAA
1 TATTTTATAA
44829062 TATTTTA-AA
1 TATTTTATAA
*
44829071 TGTTTTATAA
1 TATTTTATAA
44829081 TATTT
1 TATTT
44829086 GTTTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:44835138 original size:14 final size:14
Alignment explanation
Indices: 44835119--44835148 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44835109 TTATATCGAG
44835119 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
44835133 ACCAATCCAATTCA
1 ACCAATCCAAATCA
44835147 AC
1 AC
44835149 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:44839670 original size:176 final size:176
Alignment explanation
Indices: 44839432--44839854 Score: 561
Period size: 176 Copynumber: 2.4 Consensus size: 176
44839422 CTTAAATTTG
* * * * *
44839432 CTCCATTGCCAATACATGGACATAAGATT-AAC-TCTTTCGATCTGCTCTGCTACTGTTTAGGGA
1 CTCCATTGCCAATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCGCTAATGCTTAGGGA
* **
44839495 GATAAGATCTTCAAT-TCTCAGTCTGCTTCCTTGCTAACTTAGGAAGATAAGACT-CAATCTTCA
65 GATAAGATCTTCAATCT-TCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCA
* **
44839558 ACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTA
129 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGG-TAAAATCTA
* * *
44839607 CTCCATTACCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAGGGAG
1 CTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTAATGCTTAGGGAG
* * *
44839672 ATAAGATCTTTAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATCACCAAC
66 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCAAC
*
44839737 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTG
131 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTA
* * *
44839783 TTCCATTGCCGATACATGGAGATAAGA-TCTACCATCTTTGATCTGCTCCGCTGCAAT-CTTAGG
1 CTCCATTGCCAATACATGGAGATAAGATTC-ACCATCTTCGATCTGCTCCGCT--AATGCTTAGG
44839846 GAGATAAGA
63 GAGATAAGA
44839855 CTTGTATATT
Statistics
Matches: 218, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
175 29 0.13
176 126 0.58
177 61 0.28
178 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
CTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTAATGCTTAGGGAG
ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCAAC
CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTA
Found at i:44840222 original size:64 final size:64
Alignment explanation
Indices: 44840109--44840417 Score: 485
Period size: 64 Copynumber: 4.8 Consensus size: 64
44840099 ATACTTATGC
* ** * *
44840109 CAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGCTAATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* * *
44840173 CAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTGATGCTTATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
*
44840237 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCT-ACTAGATGTAATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* *
44840300 CAAATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* * *
44840364 CAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGTG
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
44840418 TTATGAATGA
Statistics
Matches: 227, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
63 59 0.26
64 168 0.74
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (64 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
Found at i:44840329 original size:127 final size:127
Alignment explanation
Indices: 44840102--44840416 Score: 486
Period size: 127 Copynumber: 2.5 Consensus size: 127
44840092 ATGTATCATA
* * * * *
44840102 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGC
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACT-CCTACTAGATGTAATGC
* *
44840167 TAATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTGATG
65 TAATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
*
44840230 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTACTAGATGTAATGCT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
* * *
44840295 GATGTCAAATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATG
66 AATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
* * *
44840357 CTGATGTCAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCT-ACTAGATGT
44840417 GTTATGAATG
Statistics
Matches: 171, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 120 0.70
128 51 0.30
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (127 bp):
CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
AATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
Found at i:44843149 original size:27 final size:27
Alignment explanation
Indices: 44843091--44843171 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
44843081 GAGGAAGCGT
* * *
44843091 TCTGGTAGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
44843119 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* **
44843146 TCTGGTGACTCTGTTACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
44843172 TTTGGCAGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 32 0.68
28 15 0.32
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:44844394 original size:13 final size:12
Alignment explanation
Indices: 44844377--44844419 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
44844367 CTTCTTTTTA
44844377 TTTTTTTAATTT
1 TTTTTTTAATTT
44844389 TCTTTTTTAATTCT
1 T-TTTTTTAATT-T
*
44844403 TTTTTTTTATTT
1 TTTTTTTAATTT
44844415 TTTTT
1 TTTTT
44844420 GGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 7 0.25
13 19 0.68
14 2 0.07
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTAATTT
Found at i:44855114 original size:18 final size:19
Alignment explanation
Indices: 44855079--44855119 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
44855069 TTCATACTTT
*
44855079 CAAAAGTAAAAACTAAAAA
1 CAAAAGTAAAAACGAAAAA
*
44855098 CAAAA-TAAAACCGAAAAA
1 CAAAAGTAAAAACGAAAAA
44855116 -AAAA
1 CAAAA
44855120 CTGAGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (19 bp):
CAAAAGTAAAAACGAAAAA
Found at i:44856539 original size:27 final size:26
Alignment explanation
Indices: 44856500--44856550 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
44856490 AACAGACGGT
44856500 TGAACTTGAGGAAACTTTGAAGGCTGG
1 TGAACTTGAGGAAACTTTG-AGGCTGG
* * *
44856527 TGAATTTGTGGAAATTTTGAGGCT
1 TGAACTTGAGGAAACTTTGAGGCT
44856551 CAAAAATCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.33
Consensus pattern (26 bp):
TGAACTTGAGGAAACTTTGAGGCTGG
Found at i:44862120 original size:35 final size:35
Alignment explanation
Indices: 44862081--44862151 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
44862071 TCTAGGATCA
*
44862081 CATATCTTTGAAGA-TCCTCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACT-TTCCATATTTGCCAAG
44862116 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
44862151 C
1 C
44862152 TCTGGAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
Found at i:44862747 original size:29 final size:29
Alignment explanation
Indices: 44862705--44862762 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44862695 CCCGTATATC
44862705 GCAACATCAAATGTAGTTTGGCAAGGACT
1 GCAACATCAAATGTAGTTTGGCAAGGACT
44862734 GCAACATCAAATGTAGTTTGGCAAGGACT
1 GCAACATCAAATGTAGTTTGGCAAGGACT
44862763 AAGTCCCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (29 bp):
GCAACATCAAATGTAGTTTGGCAAGGACT
Found at i:44867282 original size:35 final size:35
Alignment explanation
Indices: 44867243--44867313 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
44867233 TCTAGGATCA
*
44867243 CATATCTTCGAAGA-TCCTCTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACT-TTCCATATTTGCCAAG
*
44867278 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
44867313 C
1 C
44867314 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
Found at i:44868680 original size:13 final size:14
Alignment explanation
Indices: 44868655--44868683 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44868645 TGATATGTTT
44868655 TAAACTAAATTTAC
1 TAAACTAAATTTAC
44868669 TAAACT-AATTTAC
1 TAAACTAAATTTAC
44868682 TA
1 TA
44868684 GGAACTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTAAATTTAC
Found at i:44871309 original size:6 final size:6
Alignment explanation
Indices: 44871300--44871347 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
44871290 GTCTAAGAAG
44871300 ATAAAA ATAAAA ATAAAA ACTAAAA GA-AAAA AT-AAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA A-TAAAA -ATAAAA ATAAAA ATAAAA ATAAAA
44871348 TCAACGGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.16
6 26 0.68
7 5 0.13
8 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:44871312 original size:26 final size:25
Alignment explanation
Indices: 44871248--44871336 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 25
44871238 AGAAACAACC
*
44871248 ATAAAAGTAAAAATATAGT-TCAAAAG
1 ATAAAAATAAAAATA-AGTCT-AAAAG
*
44871274 ATAATAAA-CAAAATAAGTCTAAGAAG
1 ATAA-AAATAAAAATAAGTCTAA-AAG
**
44871300 ATAAAAATAAAAATAAAAACTAAAAG
1 ATAAAAATAAAAAT-AAGTCTAAAAG
44871326 A-AAAAATAAAA
1 ATAAAAATAAAA
44871337 TAAAAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 18 0.34
26 27 0.51
27 8 0.15
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (25 bp):
ATAAAAATAAAAATAAGTCTAAAAG
Found at i:44876767 original size:22 final size:22
Alignment explanation
Indices: 44876739--44876785 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
44876729 ACAAAAGAAA
44876739 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
44876761 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
44876783 AAA
1 AAA
44876786 CTAAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAAAATTAGAATGTAAAAATT
Found at i:44887246 original size:48 final size:48
Alignment explanation
Indices: 44887175--44887278 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
44887165 TCTCTAAATC
* *
44887175 TGTTTCATCCCCTACTGCTGATGAC-TTTCTTTCTTCAGCCATTGAAGA
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTT-TTCAGCCATTGAAGA
** * *
44887223 TGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCATTGAAGG
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
*
44887271 CGTTTCTT
1 TGTTTCTT
44887279 TTTCAGCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 42 0.88
49 6 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (48 bp):
TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
Found at i:44887328 original size:72 final size:73
Alignment explanation
Indices: 44887200--44887337 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 73
44887190 TGCTGATGAC
* * ** *
44887200 TTTCTTTCTTCAGCCATTGAAGATGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCAT
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
44887265 TGAAGGCG
66 TGAAGGCG
*
44887273 TTTCTTT-TTCAGCCATTGAAGTTGTTTCTGCCCCTATTGCTGATGA-GTCCCCTTTTTCAGCCA
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACG-CCCCTTTTTCAGCCA
44887336 TT
65 TT
44887338 TAAGAAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.02
72 50 0.86
73 7 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (73 bp):
TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
TGAAGGCG
Found at i:44892035 original size:18 final size:18
Alignment explanation
Indices: 44892012--44892070 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
44892002 CTATGGCCAA
44892012 ATCATTTTGGTAGCGAAG
1 ATCATTTTGGTAGCGAAG
* *
44892030 ATCA--TTGGTTTGGCCAA-
1 ATCATTTTGG--TAGCGAAG
*
44892047 ATCATTTTGGTAGTGAAG
1 ATCATTTTGGTAGCGAAG
44892065 ATCATT
1 ATCATT
44892071 GGTTTCCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 15 0.48
19 4 0.13
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (18 bp):
ATCATTTTGGTAGCGAAG
Found at i:44892051 original size:35 final size:35
Alignment explanation
Indices: 44892005--44892075 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
44891995 AAGCAAACTA
44892005 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
*
44892040 TGGCCAAATCATTTTGGTAGTGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
44892075 T
1 T
44892076 CCCATGTCAT
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:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (35 bp):
TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
Found at i:44895486 original size:25 final size:24
Alignment explanation
Indices: 44895458--44895504 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
44895448 TAAAATTATT
*
44895458 TTATATTCATATTAAATAAAAATAA
1 TTATATTAATATTAAA-AAAAATAA
*
44895483 TTATATTAATATTTAAAAAAAT
1 TTATATTAATATTAAAAAAAAT
44895505 CCCTCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAAAAAAATAA
Found at i:44895612 original size:21 final size:23
Alignment explanation
Indices: 44895587--44895630 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44895577 GAAAAATGTA
44895587 TTTTT-TTAAATATTAATATAAT
1 TTTTTATTAAATATTAATATAAT
*
44895609 TTTTTATTTAATATTAATATAA
1 TTTTTATTAAATATTAATATAA
44895631 AATAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTATTAAATATTAATATAAT
Found at i:44898015 original size:23 final size:23
Alignment explanation
Indices: 44897989--44898040 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
44897979 TTTAAATAAT
44897989 TAATATTTATATATTT-ATATTTA
1 TAATATTTATAT-TTTAATATTTA
**
44898012 TAATGGTTATATTTTAATATTTA
1 TAATATTTATATTTTAATATTTA
*
44898035 AAATAT
1 TAATAT
44898041 AATTTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TAATATTTATATTTTAATATTTA
Found at i:44898046 original size:19 final size:20
Alignment explanation
Indices: 44898019--44898057 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44898009 TTATAATGGT
* *
44898019 TATATTTTA-ATATTTAAAA
1 TATAATTTATATATTCAAAA
44898038 TATAATTTATATATTCAAAA
1 TATAATTTATATATTCAAAA
44898058 CAAAATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTTATATATTCAAAA
Found at i:44905169 original size:84 final size:84
Alignment explanation
Indices: 44905025--44905195 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
44905015 AATAAATAGG
*
44905025 ATAGTCAGATACTGGTTTCTGATGTTGTATGGATATCAACAAATAAAAACATAATTAATACACAA
1 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATTAATACACAA
44905090 ATCATGAAATATAACTATA
66 ATCATGAAATATAACTATA
44905109 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACAT-ATTCAATACACA
1 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATT-AATACACA
44905173 AATCATGAAATATAACTATA
65 AATCATGAAATATAACTATA
44905193 ATA
1 ATA
44905196 CAGGGGTTCC
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
83 3 0.04
84 82 0.96
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (84 bp):
ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATTAATACACAA
ATCATGAAATATAACTATA
Found at i:44907923 original size:23 final size:23
Alignment explanation
Indices: 44907893--44907940 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
44907883 CTCTTCAATA
44907893 ATGATAAAATC-ATAATTTAACAT
1 ATGATAAAATCTAT-ATTTAACAT
*
44907916 ATGATAAAATCTATATTTGACAT
1 ATGATAAAATCTATATTTAACAT
44907939 AT
1 AT
44907941 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (23 bp):
ATGATAAAATCTATATTTAACAT
Found at i:44908307 original size:21 final size:22
Alignment explanation
Indices: 44908267--44908308 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44908257 AAAAACAGAA
*
44908267 ATAAATAATTGTCATCTTAATC
1 ATAAACAATTGTCATCTTAATC
*
44908289 ATAAACAATTG-CGTCTTAAT
1 ATAAACAATTGTCATCTTAAT
44908309 TCCTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAAACAATTGTCATCTTAATC
Found at i:44910857 original size:3 final size:3
Alignment explanation
Indices: 44910849--44910889 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
44910839 TTATTTCCTT
44910849 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44910890 TTGGCTTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44911213 original size:27 final size:27
Alignment explanation
Indices: 44911183--44911241 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
44911173 ATATACCTTG
44911183 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
44911210 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
44911237 CAACC
1 CAACC
44911242 CAATAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (27 bp):
CAACCTATTTACTTTACATCACATTGA
Found at i:44911550 original size:17 final size:18
Alignment explanation
Indices: 44911528--44911561 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
44911518 AGTCAAATTG
44911528 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
44911545 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
44911562 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:44912317 original size:10 final size:10
Alignment explanation
Indices: 44912290--44912339 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
44912280 TTAAATTCTA
44912290 AAAGATAAAT
1 AAAGATAAAT
*
44912300 ACAA-ATAATT
1 A-AAGATAAAT
*
44912310 AAAGATAATT
1 AAAGATAAAT
44912320 AAAGATAAAT
1 AAAGATAAAT
44912330 AAAGATAAAT
1 AAAGATAAAT
44912340 GAAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:44912349 original size:20 final size:19
Alignment explanation
Indices: 44912290--44912349 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
44912280 TTAAATTCTA
*
44912290 AAAGATAAATACAAATAATT
1 AAAGATAAATA-AAATAAAT
*
44912310 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAA-ATAAAT
*
44912330 AAAGATAAATGAAAAAAAAT
1 AAAGATAAAT-AAAATAAAT
44912350 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:44915663 original size:37 final size:37
Alignment explanation
Indices: 44915617--44915720 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
44915607 GAACTTGTCT
*
44915617 TCATGTTTCAAGTTATGATGTTCCGCTGGACTTGCCC
1 TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
* * *
44915654 TCATTTTTCAAGTTATGATGATCTGCTAGACTTGCCC
1 TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
* * * * *
44915691 ACATGTTTCGAGTTATAATGGTCCGTTGGA
1 TCATGTTTCAAGTTATGATGATCCGCTGGA
44915721 TGTGTCCTCA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (37 bp):
TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
Found at i:44915968 original size:26 final size:26
Alignment explanation
Indices: 44915898--44916034 Score: 112
Period size: 26 Copynumber: 5.2 Consensus size: 26
44915888 CTTTATACAA
* * * *
44915898 GAGTCTGCAATGACTATCTTTTAAGCAA
1 GAGTCTGCAAGGACTA--TTTCAAGTAT
* *
44915926 GAGTCTGTAAGGGCTATTTCAAGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
44915952 GAGTCTGCAATGACTATTCCATGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
44915978 GACTCAGCAAGGACTATTTCAAGCAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
** *
44916004 GAGTCCACAAGGACTAATATCAAGTAT
1 GAGTCTGCAAGGACT-ATTTCAAGTAT
44916031 GAGT
1 GAGT
44916035 TCGTAAGATT
Statistics
Matches: 86, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
26 60 0.70
27 13 0.15
28 13 0.15
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (26 bp):
GAGTCTGCAAGGACTATTTCAAGTAT
Found at i:44923373 original size:3 final size:3
Alignment explanation
Indices: 44923358--44923389 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
44923348 TTTTCAATTT
*
44923358 TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
44923390 TTTTTACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:44928181 original size:169 final size:170
Alignment explanation
Indices: 44927890--44928285 Score: 562
Period size: 169 Copynumber: 2.3 Consensus size: 170
44927880 ATTAAAAAAC
* * * *
44927890 ATATATAAAGTGTTTAAGATAACATATCAATGGTTAAATTTTGATATTTTGATTTGATATATAAA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
* * * * ** * *
44927955 ACCATTTGATCAAGTCTTGTCTCTTATTCATGATGAATTGGTTGAGGATGGCCAAAATAACATGG
66 ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
* *
44928020 CTTTAATGTAATCGATTAATTTGCTTTATTTACCA-ATAT
131 CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
*
44928059 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTTATTTGATATATAAA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
* * * * *
44928124 ACTATCTGATTATGTCTTGTCTCTTGCTCATGATGACTTGATCGAACATGACCAAAATAACACGG
66 ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
* *
44928189 TTTTAATGTAATGGATTAATTTACTTTATTTACAATATAT
131 CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
*
44928229 ATATATAAAGTCTTTAAGAAAGCATATAAAT-AGTTAAATTTTGATATTTTGATTTGA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGA-TTAAATTTTGATATTTTGATTTGA
44928286 AGAATGAAGT
Statistics
Matches: 201, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
169 144 0.72
170 57 0.28
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (170 bp):
ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
Found at i:44931769 original size:11 final size:11
Alignment explanation
Indices: 44931755--44931793 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44931745 ATACAAAGTC
44931755 CAAGATATTTT
1 CAAGATATTTT
44931766 CAAGATA--TT
1 CAAGATATTTT
44931775 CAAGATATTTT
1 CAAGATATTTT
*
44931786 TAAGATAT
1 CAAGATAT
44931794 ATAAGATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (11 bp):
CAAGATATTTT
Found at i:44931801 original size:20 final size:20
Alignment explanation
Indices: 44931755--44931793 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44931745 ATACAAAGTC
44931755 CAAGATATTTTCAAGATATT
1 CAAGATATTTTCAAGATATT
*
44931775 CAAGATATTTTTAAGATAT
1 CAAGATATTTTCAAGATAT
44931794 ATAAGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
CAAGATATTTTCAAGATATT
Found at i:44934312 original size:2 final size:2
Alignment explanation
Indices: 44934301--44934336 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
44934291 GATATCATTT
*
44934301 TA TA -A TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44934337 CATAGAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:44940134 original size:30 final size:30
Alignment explanation
Indices: 44940069--44940145 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
44940059 TTGGTACATT
* * *
44940069 GGTGCTGCTCCATATCCAGGTTGGTGGAGT
1 GGTGCAGCTCCATATCCAGGTTGGTGAAGA
* *
44940099 TGTGCAGCTCTATATCC-GAGTTGGTGAAGA
1 GGTGCAGCTCCATATCCAG-GTTGGTGAAGA
* *
44940129 GGTGCAACCCCATATCC
1 GGTGCAGCTCCATATCC
44940146 TGAATGGTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.27
Consensus pattern (30 bp):
GGTGCAGCTCCATATCCAGGTTGGTGAAGA
Found at i:44940233 original size:30 final size:30
Alignment explanation
Indices: 44940163--44940311 Score: 97
Period size: 30 Copynumber: 5.0 Consensus size: 30
44940153 TGTGCTAATG
* *
44940163 CAGCCCCGTATCCGGCTTGGTGTGACGGTG
1 CAGCCCCATATCCGGCTTGGTGTGACGGTA
* * * *
44940193 TAACCACATATCCGGGTTGGTGT-AGCGGTA
1 CAGCCCCATATCCGGCTTGGTGTGA-CGGTA
* * *
44940223 CAGCCCCATATCCAGCTTAGG-GCGATGGTA
1 CAGCCCCATATCCGGCTT-GGTGTGACGGTA
* * * *
44940253 CAGCTCTA-AACTCGGCTTGGTGTGACGGTG
1 CAGCCCCATATC-CGGCTTGGTGTGACGGTA
* * * *
44940283 CAACTCCATATTCGGCTTGGTGCGACGGT
1 CAGCCCCATATCCGGCTTGGTGTGACGGT
44940312 GGGGCCCTAT
Statistics
Matches: 88, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
29 5 0.06
30 79 0.90
31 4 0.05
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (30 bp):
CAGCCCCATATCCGGCTTGGTGTGACGGTA
Found at i:44940552 original size:30 final size:30
Alignment explanation
Indices: 44940431--44940552 Score: 95
Period size: 30 Copynumber: 4.1 Consensus size: 30
44940421 GGTGCATGTC
* * *
44940431 TGCAGCATCATATCC-GAGTTGGTGCGGTGG
1 TGCAGCACCATATCCAG-GTTGGTACGGCGG
* **
44940461 GGCAGCACCATATCCAGGTTGGTGA-GGCAA
1 TGCAGCACCATATCCAGGTTGGT-ACGGCGG
* * * * **
44940491 TGCAGCAGCATATCCTGGCTGGTGCATCGG
1 TGCAGCACCATATCCAGGTTGGTACGGCGG
*
44940521 TGCAGCACCATGTCCAGGTTGGTACGGCGG
1 TGCAGCACCATATCCAGGTTGGTACGGCGG
44940551 TG
1 TG
44940553 TAAAGTCATT
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
30 66 0.99
31 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.22
Consensus pattern (30 bp):
TGCAGCACCATATCCAGGTTGGTACGGCGG
Found at i:44946476 original size:31 final size:32
Alignment explanation
Indices: 44946441--44946507 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 32
44946431 ATAAAAATAT
44946441 TTTTTTATAATTTTTAAA-AGATTAAA-T-TAA
1 TTTTTTATAA-TTTTAAAGAGATTAAAGTATAA
* *
44946471 ATTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTTATAATTTTAAA-GAGATTAAAGTATAA
44946504 TTTT
1 TTTT
44946508 ACTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 8 0.27
31 8 0.27
32 1 0.03
33 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (32 bp):
TTTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:44946478 original size:30 final size:31
Alignment explanation
Indices: 44946442--44946507 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
44946432 TAAAAATATT
*
44946442 TTTTTATAATTTTTAAA-AGATTAAATTA-AA
1 TTTTTATAA-TTTTAAAGAGATTAAAGTATAA
*
44946472 TTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTATAATTTTAAA-GAGATTAAAGTATAA
44946504 TTTT
1 TTTT
44946508 ACTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 8 0.26
31 10 0.32
32 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:44949381 original size:25 final size:27
Alignment explanation
Indices: 44949353--44949424 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
44949343 CCATTTTTCC
44949353 CCAAAAAG-AAA-AAAAAAGAGGAAAA
1 CCAAAAAGCAAAGAAAAAAGAGGAAAA
*
44949378 CCAAAAAGCAAAGAAAAGAGAGGAAAA
1 CCAAAAAGCAAAGAAAAAAGAGGAAAA
*
44949405 ACAAAAATG-AGAAGAAAAAA
1 CCAAAAA-GCA-AAGAAAAAA
44949425 AAGTCCAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 8 0.20
26 3 0.08
27 20 0.50
28 9 0.22
ACGTcount: A:0.72, C:0.08, G:0.18, T:0.01
Consensus pattern (27 bp):
CCAAAAAGCAAAGAAAAAAGAGGAAAA
Found at i:44966234 original size:41 final size:40
Alignment explanation
Indices: 44966155--44966234 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
44966145 GACCGTGTGA
* * *
44966155 CACACATGGCCTCCACATGGCCTATCACATTGTCGTATGT
1 CACACATGGCCTCCACACGGCCTAGCACATTGACGTATGT
44966195 CACACATGGCCTACCACACGGCCTAGCACA-TGACTGTATG
1 CACACATGGCCT-CCACACGGCCTAGCACATTGAC-GTATG
44966235 GTGTCGATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (40 bp):
CACACATGGCCTCCACACGGCCTAGCACATTGACGTATGT
Found at i:44968180 original size:58 final size:59
Alignment explanation
Indices: 44968062--44968182 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 59
44968052 GTCACCCAAT
* * *
44968062 TATGAAAAGTTATAAAATGGTCACTCAACTATTAATAATTTTCTTTTTAGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATT-ATAATTTTCTTTTTAGGCCACTCAAC
*
44968122 TATGAAAAATTACAAAAAGGTCACTCAACTATT-TAATTTAT-TTTTTTGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTT-TCTTTTTAGGCCACTCAAC
44968180 TAT
1 TAT
44968183 CTTAGATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
58 25 0.45
59 1 0.02
60 30 0.54
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (59 bp):
TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTTTCTTTTTAGGCCACTCAAC
Found at i:44971357 original size:30 final size:30
Alignment explanation
Indices: 44971289--44971358 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
44971279 ATATAAAAAT
* *
44971289 AAATTAAAGTTTCATGTATACATTTGAACC
1 AAATTAAAGTTTCATGTATAAAATTGAACC
* * *
44971319 ACAATTAAAGTTTCGTGTGTAAAATTGCACC
1 A-AATTAAAGTTTCATGTATAAAATTGAACC
44971350 AAATTAAAG
1 AAATTAAAG
44971359 CTCTTGTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATAAAATTGAACC
Found at i:44975869 original size:74 final size:74
Alignment explanation
Indices: 44975791--44975958 Score: 196
Period size: 74 Copynumber: 2.3 Consensus size: 74
44975781 TTTGTGGAAG
* *
44975791 TCAAATTGTTTAACTTGATTAAAACCCTT-AAGAGATTTAACTTTA-CTGATTAAGTGCAAGCAA
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAG-TTTAACTCTATC-GATTAAATGCAAGCAA
44975854 ATCTATGAAAC
64 ATCTATGAAAC
* * * * **
44975865 TCAAATTGTTTAACTTGATTACATCTCTTAAAGAGTTTAGCTCTATCGATTAAATGGGAGCAAAT
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
* *
44975930 TTATGAAAG
66 CTATGAAAC
* *
44975939 TTAAATTGTTTGACTTGATT
1 TCAAATTGTTTAACTTGATT
44975959 TCATTTCTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
74 74 0.93
75 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (74 bp):
TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
CTATGAAAC
Found at i:44977418 original size:16 final size:17
Alignment explanation
Indices: 44977399--44977431 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44977389 TGATTTCAAG
*
44977399 GTTAAA-TGATTAAATT
1 GTTAAAGTGATAAAATT
44977415 GTTAAAGTGATAAAATT
1 GTTAAAGTGATAAAATT
44977432 TAAACGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (17 bp):
GTTAAAGTGATAAAATT
Found at i:44979816 original size:48 final size:49
Alignment explanation
Indices: 44979745--44980058 Score: 385
Period size: 48 Copynumber: 6.6 Consensus size: 49
44979735 TAAAGTACCA
* * **
44979745 ATGCCATGTCCCAGACATAGTCTTACATGAGTC-CATATATCATCGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
* *
44979793 ATGCCATGTCCCAAACATGGTCTTACA--ATGGCATATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGA-GGCACATATATCATCGCCG
* *
44979841 ATGCCATATCCCAGGCATGGTCTTACAT-AGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
*
44979889 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
* * * *
44979937 ATGCTATGTCCCAGACATGGTCTTACACT--GGTACATATATTATCTCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAGGCACATATATCATCGCCG
* * * * *
44979985 ATGTCATATCCCAGACATGGTCTTACA-CAGGCACATA-ATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
44980032 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
44980059 CAGAATCTCA
Statistics
Matches: 233, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.00
47 34 0.15
48 197 0.85
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
Found at i:44979909 original size:96 final size:96
Alignment explanation
Indices: 44979745--44980058 Score: 429
Period size: 96 Copynumber: 3.3 Consensus size: 96
44979735 TAAAGTACCA
* * ** *
44979745 ATGCCATGTCCCAGACATAGTCTTACATGAGTC-CATATATCATCGCTAATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACAT-AGGCACATATATCATCGCCGATGCCATGTCCCAGAC
*
44979809 ATGGTCTTACA-ATGGCATATATATCATCGCCG
65 ATGGTCTTACACA-GGCACATATATCATCGCCG
* *
44979841 ATGCCATATCCCAGGCATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
44979906 TGGTCTTACACAGGCACATATATCATCGCCG
66 TGGTCTTACACAGGCACATATATCATCGCCG
* * * * * *
44979937 ATGCTATGTCCCAGACATGGTCTTACACT-GGTACATATATTATCTCCGATGTCATATCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACA-TAGGCACATATATCATCGCCGATGCCATGTCCCAGAC
* *
44980001 ATGGTCTTACACAGGCACATA-ATCATCACTG
65 ATGGTCTTACACAGGCACATATATCATCGCCG
44980032 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
44980059 CAGAATCTCA
Statistics
Matches: 196, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
95 37 0.19
96 157 0.80
97 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
TGGTCTTACACAGGCACATATATCATCGCCG
Found at i:44980005 original size:144 final size:142
Alignment explanation
Indices: 44979745--44980061 Score: 454
Period size: 144 Copynumber: 2.2 Consensus size: 142
44979735 TAAAGTACCA
* * * *
44979745 ATGCCATGTCCCAGACATAGTCTTACATGAGTCCATATATCATCGCTAATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCCATATATCATCGCCAATGCCATGTCCCAAACA
* * *
44979810 TGGTCTTACAATGGCATATATATCATCGCCGATGCCATATCCCAGGCATGGTCTTACATAGGCAC
65 TGGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCAC
*
44979875 ATATATCATCGCCG
130 ATA-ATCATCACCG
* * *
44979889 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCTATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGC-CATATATCATCGCCAATGCCATGTCCCAAACA
* * * * *
44979954 TGGTCTTACACTGGTACATATATTATCTCCGATGTCATATCCCAGACATGGTCTTACACAGGCAC
65 TGGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCAC
*
44980019 ATAATCATCACTG
130 ATAATCATCACCG
44980032 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
44980062 AATCTCATTT
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
143 41 0.26
144 114 0.74
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCCATATATCATCGCCAATGCCATGTCCCAAACAT
GGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCACA
TAATCATCACCG
Found at i:44982848 original size:81 final size:81
Alignment explanation
Indices: 44982710--44982868 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 81
44982700 AGTAAGAAAG
* * *
44982710 AACTCACCAGAAAACACAACAAGTCTTTTGCCCTTATCACGAGAACCTTTAAAAGTGTCTTGAGC
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
44982775 TATAATATAAATAAAA
66 TATAATATAAATAAAA
* *
44982791 AACTCACCAGAAAACACAACAAGTCCTTTGCCTTTATCACGAGAACCTTCAAGAGTGTCTTGAGA
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
44982856 TATAATATAAATA
66 TATAATATAAATA
44982869 CTTAAACTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (81 bp):
AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
TATAATATAAATAAAA
Found at i:44984339 original size:26 final size:26
Alignment explanation
Indices: 44984306--44984413 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
44984296 TGATACAAAT
44984306 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
44984332 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44984358 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44984384 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44984410 TGAT
1 TGAT
44984414 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44986446 original size:137 final size:137
Alignment explanation
Indices: 44986200--44986486 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
44986190 GAGTAGTCTC
44986200 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
*
44986265 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44986330 ACTGTTA
131 ACTGTTA
*
44986337 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
44986402 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44986467 ACTGTTA
131 ACTGTTA
**
44986474 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44986487 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44988835 original size:40 final size:40
Alignment explanation
Indices: 44988777--44988914 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
44988767 TGGATGATAA
*
44988777 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
44988817 CCGGGCTAAGTCCCGAAGGC-ATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTATAT
* * * *
44988857 CCGAGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTATAT
* *
44988897 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44988915 TACTTGGCTT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.20
40 67 0.78
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
Found at i:44994784 original size:55 final size:54
Alignment explanation
Indices: 44994721--44994953 Score: 313
Period size: 55 Copynumber: 4.2 Consensus size: 54
44994711 TTCTTAATTT
* * * *
44994721 TTGGAATATTGCTTCTTTTGATTCAATTTTTTATATGTTGAAATCGATTGTCATG
1 TTGGAATATTGCTTCTTTTGAAT-AATTGTTTATATGTTTAAATCAATTGTCATG
* *
44994776 TTGGAATATTGCTGCTTTTGAATAGATTTTTTATATGTTTAAATCAATTGTCATG
1 TTGGAATATTGCTTCTTTTGAATA-ATTGTTTATATGTTTAAATCAATTGTCATG
* * *
44994831 TTGGAATATTGCTTCTTTTGAATTGATTGTTTCTATGTTTAAATCAATTGTTATG
1 TTGGAATATTGCTTCTTTTGAA-TAATTGTTTATATGTTTAAATCAATTGTCATG
* ** *
44994886 TTGGAATATTGCTTCTTTTGAATCAGTTGTTTATATGTTTAAATCGGTTGTTATG
1 TTGGAATATTGCTTCTTTTGAAT-AATTGTTTATATGTTTAAATCAATTGTCATG
44994941 TTGGAATATTGCT
1 TTGGAATATTGCT
44994954 GATAAATCTT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
54 2 0.01
55 158 0.98
56 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.51
Consensus pattern (54 bp):
TTGGAATATTGCTTCTTTTGAATAATTGTTTATATGTTTAAATCAATTGTCATG
Found at i:44999534 original size:20 final size:20
Alignment explanation
Indices: 44999511--44999552 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
44999501 AGCTATATTG
*
44999511 ACTTGTTTAAAAACAATTTA
1 ACTTGATTAAAAACAATTTA
* *
44999531 ACTTGATTGAAATCAATTTA
1 ACTTGATTAAAAACAATTTA
44999551 AC
1 AC
44999553 CATTTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (20 bp):
ACTTGATTAAAAACAATTTA
Found at i:44999677 original size:17 final size:17
Alignment explanation
Indices: 44999651--44999684 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44999641 TAAATATCAT
* *
44999651 TTTTTCAATTTTCTTCA
1 TTTTTAAATTTTATTCA
44999668 TTTTTAAATTTTATTCA
1 TTTTTAAATTTTATTCA
44999685 AAAACACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAATTTTATTCA
Found at i:45001681 original size:37 final size:37
Alignment explanation
Indices: 45001620--45001877 Score: 457
Period size: 37 Copynumber: 7.0 Consensus size: 37
45001610 TACGTATGAT
* *
45001620 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
45001655 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45001692 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45001729 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45001766 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45001803 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
45001840 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45001877 C
1 C
45001878 GAAGCTATCA
Statistics
Matches: 215, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 203 0.94
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:45001919 original size:52 final size:52
Alignment explanation
Indices: 45001840--45002836 Score: 1844
Period size: 52 Copynumber: 19.2 Consensus size: 52
45001830 TAAGTGTAGC
* * *
45001840 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45001893 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45001945 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45001997 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002049 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002101 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002153 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002205 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002257 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002309 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002361 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002413 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002465 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002517 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002569 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
45002621 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002673 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
45002725 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
45002771 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
45002823 CACTTTGTCACTTG
1 CACTTT-TCACTTG
45002837 ATCAGAAGTA
Statistics
Matches: 923, Mismatches: 14, Indels: 14
0.97 0.01 0.01
Matches are distributed among these distances:
46 43 0.05
49 1 0.00
52 864 0.94
53 15 0.02
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:45006799 original size:33 final size:33
Alignment explanation
Indices: 45006750--45006822 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
45006740 GAACAAGAAG
45006750 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
1 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
* * *
45006783 ATAGAAAATGGTGTTCTTGAACAAGACATAGGT
1 ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
*
45006816 AAAGAAA
1 ATAGAAA
45006823 GGTTTAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (33 bp):
ATAGAAAATAGAGTTCTCGAACAAGACATAGGT
Found at i:45008324 original size:27 final size:28
Alignment explanation
Indices: 45008287--45008348 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
45008277 TGAAAAAAAT
*
45008287 AAAAATTTATTCT-AAAA-GAGAATAAA
1 AAAAATTTATTCTAAAAATAAGAATAAA
45008313 AAAAATTCTATTCTAAAAATAAGAATAAA
1 AAAAATT-TATTCTAAAAATAAGAATAAA
45008342 ATAAAAT
1 A-AAAAT
45008349 AAAAGAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 4 0.13
29 9 0.29
30 5 0.16
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAATTTATTCTAAAAATAAGAATAAA
Found at i:45008342 original size:26 final size:26
Alignment explanation
Indices: 45008284--45008342 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
45008274 AAATGAAAAA
*
45008284 AATAAAAATTTATTCTAAAAGAGAAT
1 AATAAAAATTTATTCTAAAAGAGAAG
* *
45008310 AAAAAAAATTCTATTCTAAAA-ATAAG
1 AATAAAAATT-TATTCTAAAAGAGAAG
45008336 AATAAAA
1 AATAAAA
45008343 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
AATAAAAATTTATTCTAAAAGAGAAG
Found at i:45009832 original size:21 final size:21
Alignment explanation
Indices: 45009788--45009838 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
45009778 ATTGCCTTTC
*
45009788 TCCATCTTCCATCGAATCTTTT
1 TCCATCTTCCATC-AATATTTT
45009810 TCCATCTCTCCAT-AATATTTT
1 TCCATCT-TCCATCAATATTTT
*
45009831 TCTATCTT
1 TCCATCTT
45009839 GATTATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 7 0.27
23 5 0.19
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (21 bp):
TCCATCTTCCATCAATATTTT
Found at i:45022974 original size:2 final size:2
Alignment explanation
Indices: 45022967--45023002 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45022957 CCATTATCTA
45022967 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
45023003 GCCAAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:45030988 original size:16 final size:18
Alignment explanation
Indices: 45030961--45030993 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45030951 TAGAATTTGG
45030961 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
45030978 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
45030994 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:45032162 original size:29 final size:30
Alignment explanation
Indices: 45032101--45032157 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
45032091 TTAATGAAGT
*
45032101 TTAGCAAGTTCAATGGGGTAAACAAAAAGC
1 TTAGCAAGTTCAACGGGGTAAACAAAAAGC
* * *
45032131 TTAGTAAGTTCGACGGGTTAAACAAAA
1 TTAGCAAGTTCAACGGGGTAAACAAAA
45032158 TCTTACCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (30 bp):
TTAGCAAGTTCAACGGGGTAAACAAAAAGC
Found at i:45032444 original size:19 final size:20
Alignment explanation
Indices: 45032417--45032478 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
45032407 CAAATACGCC
45032417 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCGAAGAGCTG
* *
45032436 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTC-GAAGAGCTG
*
45032457 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCG-AAGAGCTG
45032478 A
1 A
45032479 TCCACCCAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 23 0.66
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
AACAGAAGCTCGAAGAGCTG
Found at i:45033958 original size:20 final size:20
Alignment explanation
Indices: 45033933--45033979 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
45033923 AGGGGCACAC
45033933 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
45033953 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
45033973 GCCCGTG
1 GCCCGTG
45033980 AAGGCAGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.40, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:45039566 original size:41 final size:41
Alignment explanation
Indices: 45039521--45039775 Score: 323
Period size: 41 Copynumber: 6.2 Consensus size: 41
45039511 AGCAATTACG
*
45039521 CCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
** *
45039562 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCATTAAAACG
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
* * * * **
45039603 CCACTAAGAGCCAAAGCATTAGCGGCGCTTTCTATAAAACGA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAAC-A
* *
45039645 -CGCTAAAAACCAGAGCATTAGCGACGCTTTAGGTAAAACA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
* * * * *
45039685 CTGCTAAATACCAGAGTATTAGTGGCGCTTTCGGTAAAACG
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
* *
45039726 CCGCTAAAAACCAGAGCATTAGCGGCTCTTTCGGTAAAACG
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
45039767 CCGCTAAAA
1 CCGCTAAAA
45039776 GTCATATAAC
Statistics
Matches: 181, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 180 0.99
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (41 bp):
CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACA
Found at i:45039963 original size:14 final size:14
Alignment explanation
Indices: 45039941--45039992 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
45039931 TTAATTATCA
*
45039941 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
45039955 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
45039969 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
45039983 TTAAGGTTTA
1 TTATGGTTTA
45039993 GGAGTTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:45040050 original size:14 final size:15
Alignment explanation
Indices: 45040025--45040053 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45040015 TTTATGATGA
45040025 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
45040040 ATTAT-GGTTTAGGG
1 ATTATGGGTTTAGGG
45040054 TTGGAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:45040082 original size:7 final size:7
Alignment explanation
Indices: 45040072--45040097 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45040062 TAAGGTGTAA
45040072 GGGTTTG
1 GGGTTTG
45040079 GGGTTTG
1 GGGTTTG
45040086 GGGTTTG
1 GGGTTTG
45040093 GGGTT
1 GGGTT
45040098 AAGGGTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (7 bp):
GGGTTTG
Found at i:45040103 original size:14 final size:14
Alignment explanation
Indices: 45040069--45040104 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
45040059 GTTTAAGGTG
45040069 TAAGGGTTTGGGGT
1 TAAGGGTTTGGGGT
**
45040083 TTGGGGTTTGGGGT
1 TAAGGGTTTGGGGT
45040097 TAAGGGTT
1 TAAGGGTT
45040105 AAGGGTTTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39
Consensus pattern (14 bp):
TAAGGGTTTGGGGT
Found at i:45044673 original size:40 final size:40
Alignment explanation
Indices: 45044603--45044806 Score: 290
Period size: 40 Copynumber: 5.1 Consensus size: 40
45044593 AAGCCAAGTA
* * * * *
45044603 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
45044642 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45044682 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45044722 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45044762 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45044802 CCTTC
1 CCTTC
45044807 ACAAATTCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 140 0.92
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45056523 original size:39 final size:41
Alignment explanation
Indices: 45056428--45056611 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
45056418 TTGAATGATG
*
45056428 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
45056467 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
45056507 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
45056546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
45056586 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45056612 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:45056563 original size:79 final size:81
Alignment explanation
Indices: 45056428--45056611 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
45056418 TTGAATGATG
45056428 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
45056491 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
45056506 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
45056567 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
45056586 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45056612 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:45056633 original size:79 final size:79
Alignment explanation
Indices: 45056480--45056644 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
45056470 GGACTAAGAT
* ** *
45056480 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
45056545 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
45056559 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
45056621 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
45056638 CCGAAGG
1 CCGAAGG
45056645 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:45061865 original size:40 final size:40
Alignment explanation
Indices: 45061821--45061959 Score: 251
Period size: 40 Copynumber: 3.5 Consensus size: 40
45061811 AGCTCGAATA
* *
45061821 CCTTCGGGACATAGCCCGGATACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45061861 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45061901 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45061941 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45061960 TTATCATCCA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45065908 original size:19 final size:19
Alignment explanation
Indices: 45065854--45065908 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
45065844 ATTTAATCTA
45065854 ATTTTTATTATT--TATTTT
1 ATTTTTATT-TTAATATTTT
* *
45065872 AGTTTTGATTCTAA-ATTTT
1 A-TTTTTATTTTAATATTTT
45065891 ATTTTTATTTTAATATTT
1 ATTTTTATTTTAATATTT
45065909 AAGATAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTTAATATTTT
Found at i:45066201 original size:43 final size:43
Alignment explanation
Indices: 45066139--45066238 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
45066129 AATTTATGAC
*
45066139 CTTTAGCGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGAGT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATG-GT
* * *
45066183 -TTTAGTGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGGT
45066225 CTTTAGTGGCGTTT
1 CTTTAGTGGCGTTT
45066239 TTTACAGCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCAGCTAAAGGTCATGGT
Found at i:45068967 original size:46 final size:47
Alignment explanation
Indices: 45068891--45068985 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 47
45068881 ATTGTCACAT
* *
45068891 ATCACACACCGAAGCCATAGCCCCGCTATGGTCTTACACGG-ATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
* * * *
45068937 ATCACACACCGATGTCATATCCCAGATATGGTCTTATACGGAATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
45068984 AT
1 AT
45068986 TATCATGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 35 0.83
47 7 0.17
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.22
Consensus pattern (47 bp):
ATCACACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAATCAC
Done.