Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 143 of 196
Found at i:42371486 original size:15 final size:14
Alignment explanation
Indices: 42371462--42371510 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
42371452 TAAAAACCTT
42371462 AAACCTTAAACTTTA
1 AAACC-TAAACTTTA
*
42371477 AAATCCTAAACCTTA
1 AAA-CCTAAACTTTA
* *
42371492 AAACCTTAACTTAA
1 AAACCTAAACTTTA
42371506 AAACC
1 AAACC
42371511 CTAACCCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 13 0.45
15 14 0.48
16 2 0.07
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
AAACCTAAACTTTA
Found at i:42371495 original size:8 final size:8
Alignment explanation
Indices: 42371447--42371500 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
42371437 CATGAACCCT
*
42371447 AAACCTAA
1 AAACCTTA
42371455 AAACCTT-
1 AAACCTTA
42371462 AAACCTT-
1 AAACCTTA
*
42371469 AAACTTTA
1 AAACCTTA
42371477 AAATCC-T-
1 AAA-CCTTA
42371484 AAACCTTA
1 AAACCTTA
42371492 AAACCTTA
1 AAACCTTA
42371500 A
1 A
42371501 CTTAAAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 2 0.05
7 17 0.44
8 19 0.49
9 1 0.03
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (8 bp):
AAACCTTA
Found at i:42371502 original size:29 final size:30
Alignment explanation
Indices: 42371455--42371521 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
42371445 CTAAACCTAA
* *
42371455 AAACCTT-AAACCTTAAACTTTAAAATCCT
1 AAACCTTAAAACCTTAAACTTAAAAACCCT
42371484 AAACCTTAAAACCTT-AACTTAAAAACCCT
1 AAACCTTAAAACCTTAAACTTAAAAACCCT
*
42371513 AACCCTTAA
1 AAACCTTAA
42371522 GTTAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (30 bp):
AAACCTTAAAACCTTAAACTTAAAAACCCT
Found at i:42374982 original size:126 final size:125
Alignment explanation
Indices: 42374700--42375266 Score: 651
Period size: 125 Copynumber: 4.5 Consensus size: 125
42374690 CCCAAACATG
* * * *
42374700 CTACTGTAACAAAAGCGCGTCCACGTGTGCGCGATTTCACAAATTATCCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
* *
42374765 TAGAAGCG-ATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTTCAGGAC
66 TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAA-TATTTCTTCCAGGAC
* * * *
42374825 CAACTGTAGCAAAAGCGCGTCTACGAT-GGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGCGCGATTTCACAAATTATTCTCATAA-AGCATCCT
* * * * *
42374888 GCTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATATTTTTTTCAGAAC
64 GCTAGAAGCG-TATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATATTTCTTCCAGGAC
42374951 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTAG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCT-G
* *
42375016 -TAGAAGC-AATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTC-AAAATATTTCTTCCAGGAC
** * * * * * * * *
42375076 AAATTGTAGCAAAAGTGCGTCCAGGAGAGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
* ** * * * *
42375141 TTGAAGTATTTTTTATACTATTTTCTCGGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
66 TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTC-AAAATATTTCTTCCAGGAC
* * * * ** * *
42375201 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTGCAAAAATCCTTCTAATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
42375266 T
66 T
42375267 TTGATTTTAT
Statistics
Matches: 376, Mismatches: 56, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
124 34 0.09
125 192 0.51
126 113 0.30
127 37 0.10
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTGC
TAGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATATTTCTTCCAGGAC
Found at i:42375143 original size:251 final size:250
Alignment explanation
Indices: 42374700--42375234 Score: 815
Period size: 251 Copynumber: 2.1 Consensus size: 250
42374690 CCCAAACATG
* * *
42374700 CTACTGTAACAAAAGCGCGTCCACGTGTGCGCGATTTCACAAATTATCCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
* * * *
42374765 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTTCAGGACCAACT
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACAAACT
* * *
42374830 GTAGCAAAAGCGCGTCTACGATGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAA
131 GTAGCAAAAGCGCGTCCACGATGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAA
*
42374895 GCGT-TTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAA-TATTTTTTTCAGAAC
196 --GTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTTTTCCAGAAC
*
42374951 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATTCTCATAAAGCATCCTAG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
* *
42375016 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACAAATT
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACAAACT
* * *
42375081 GTAGCAAAAGTGCGTCCAGGA-GAGCGCGATTTCACAAATTCTTCGCATATAGCATCCTGCTTGA
131 GTAGCAAAAGCGCGTCCACGATG-GCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGA
* * * *
42375145 AGTATTTTTTATACTATTTTCTCGGAAACGTCAACTCGAAATTATTTTTCCAGGAC
195 AGTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGAAC
*
42375201 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGA
42375235 CTGCAAAAAT
Statistics
Matches: 259, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
249 2 0.01
250 78 0.30
251 179 0.69
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTATCCTCATAAAGCATCCTAG
TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACAAACT
GTAGCAAAAGCGCGTCCACGATGGCGCGATTTCACAAATTCTTCGCAAATAGCATCCTGCTTGAA
GTATTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGAAC
Found at i:42379199 original size:30 final size:31
Alignment explanation
Indices: 42379157--42379221 Score: 123
Period size: 30 Copynumber: 2.1 Consensus size: 31
42379147 AGATGAAAAT
42379157 TAAGCTTTTCATGTATCAAGCAATTAAAGCC
1 TAAGCTTTTCATGTATCAAGCAATTAAAGCC
42379188 TAAGC-TTTCATGTATCAAGCAATTAAAGCC
1 TAAGCTTTTCATGTATCAAGCAATTAAAGCC
42379218 TAAG
1 TAAG
42379222 ATTGGTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (31 bp):
TAAGCTTTTCATGTATCAAGCAATTAAAGCC
Found at i:42379854 original size:8 final size:8
Alignment explanation
Indices: 42379837--42379875 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
42379827 ATACACATTA
42379837 AAAAATAT
1 AAAAATAT
*
42379845 AAATATAT
1 AAAAATAT
*
42379853 AAAAAAAT
1 AAAAATAT
42379861 AAAAATAT
1 AAAAATAT
42379869 ATAAAAT
1 A-AAAAT
42379876 CTAGAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 21 0.81
9 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:42379857 original size:18 final size:18
Alignment explanation
Indices: 42379836--42379874 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
42379826 TATACACATT
*
42379836 AAAAAATATAAATATATA
1 AAAAAATAAAAATATATA
42379854 AAAAAATAAAAATATATA
1 AAAAAATAAAAATATATA
42379872 AAA
1 AAA
42379875 TCTAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATAAAAATATATA
Found at i:42380116 original size:5 final size:6
Alignment explanation
Indices: 42380102--42380163 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
42380092 ATATAAATAC
* * *
42380102 TTTTAT TTTTAT TTTTAT TTTT-T TATAAT TTTTCAAT TTTTAT ATATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT--AT TTTTAT -TTTTAT
42380152 TTTTAAT TTTTA
1 TTTT-AT TTTTA
42380164 AAATTTATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.07
6 25 0.56
7 11 0.24
8 6 0.13
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:42380140 original size:19 final size:20
Alignment explanation
Indices: 42380112--42380163 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
42380102 TTTTATTTTT
42380112 ATTTTT-ATTTTT-T-TATA
1 ATTTTTAATTTTTATATATA
*
42380129 ATTTTTCAATTTTTATATATT
1 ATTTTT-AATTTTTATATATA
42380150 ATTTTTAATTTTTA
1 ATTTTTAATTTTTA
42380164 AAATTTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.20
19 6 0.20
20 9 0.30
21 9 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTAATTTTTATATATA
Found at i:42380163 original size:20 final size:19
Alignment explanation
Indices: 42380102--42380163 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 19
42380092 ATATAAATAC
*
42380102 TTTTATTTTTATTTTT-AT
1 TTTTATTATTATTTTTAAT
*
42380120 TTTT-TTATAATTTTTCAAT
1 TTTTATTATTATTTTT-AAT
42380139 TTTTATATATTATTTTTAAT
1 TTTTAT-TATTATTTTTAAT
42380159 TTTTA
1 TTTTA
42380164 AAATTTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.24
18 4 0.11
19 6 0.16
20 9 0.24
21 9 0.24
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTATTATTTTTAAT
Found at i:42382524 original size:99 final size:101
Alignment explanation
Indices: 42382353--42382552 Score: 386
Period size: 99 Copynumber: 2.0 Consensus size: 101
42382343 AAAGTGCTTT
42382353 CGATTGGGGCATACAGTGCCAACAAAGAAAGCCATATAGCATTTATTTTAACAGCACCGTGACTT
1 CGATTGGGGCATACAGTGCCAACAAAGAAAGCCATATAGCATTTATTTTAACAGCACCGTGACTT
42382418 AAATG-AAAC-TTTGAATAGTTCAGTGATCATATTG
66 AAATGAAAACTTTTGAATAGTTCAGTGATCATATTG
42382452 CGATTGGGGCATACAGTGCCAACAAAGAAAGCCATATAGCATTTATTTTAACAGCACCGTGACTT
1 CGATTGGGGCATACAGTGCCAACAAAGAAAGCCATATAGCATTTATTTTAACAGCACCGTGACTT
42382517 AAATGAAAACTTTTGAATAGTTCAGTGATCATATTG
66 AAATGAAAACTTTTGAATAGTTCAGTGATCATATTG
42382553 TAACTTCTTT
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 70 0.71
100 4 0.04
101 25 0.25
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (101 bp):
CGATTGGGGCATACAGTGCCAACAAAGAAAGCCATATAGCATTTATTTTAACAGCACCGTGACTT
AAATGAAAACTTTTGAATAGTTCAGTGATCATATTG
Found at i:42390226 original size:18 final size:15
Alignment explanation
Indices: 42390195--42390235 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
42390185 TTGAGTAAAT
42390195 AAATATATTTTATACTA
1 AAATATATTTTATA--A
42390212 AAATATATATTTATAA
1 AAATATAT-TTTATAA
42390228 AAATATAT
1 AAATATAT
42390236 CAAAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATATTTTATAA
Found at i:42390558 original size:214 final size:213
Alignment explanation
Indices: 42390221--42390662 Score: 712
Period size: 214 Copynumber: 2.1 Consensus size: 213
42390211 AAAATATATA
* * * *
42390221 TTTATAAAAATATATCAAAAATTATTATTAGTGGAATTAAGGGTAAAGCCAAAAAAATTTTTTTG
1 TTTAT-AAATTATATCAAAAATTATTATTAGTGAAATCAAGGGTAAAGCAAAAAAAATTTTTTTG
* * * *
42390286 GGTAAAATTAATTTATGTATTTTTTACTATGTTAAAAATACAATTTCATCATTTTAATAGCCTAA
65 AGTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCCTAA
*
42390351 ATTTTTATAATTTTTAAATAA-TTAAATTAAAATTTTATCAT-TCTTAAGGGTTAAAGTGTAATT
130 ATTTTTATAA-TTTTAAAAAATTTAAATTAAAATTTTATCATCT-TTAAGGGTTAAAGTGTAATT
42390414 TTACCAATACAAATTTAAAAT
193 TTACCAATACAAATTTAAAAT
*
42390435 TTTATAAATTATATCAACAAATTATTCTTAGTGAAATCAAGGGTAAAGACAAAAAAAAATTTTTT
1 TTTATAAATTATATCAA-AAATTATTATTAGTGAAATCAAGGGTAAAG-C-AAAAAAAATTTTTT
42390500 TGAGTAAAATTAATTTATGTA-TTTTTACGATATTAAAAATACAAATT-ATCATTTTAATAGCCT
63 TGAGTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCCT
42390563 AAATTTTTATAATTTTAAAAAATTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAATT
128 AAATTTTTATAATTTTAAAAAATTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAATT
42390628 TTACCAATACAAATTTAAAAT
193 TTACCAATACAAATTTAAAAT
42390649 TTTATAAATTATAT
1 TTTATAAATTATAT
42390663 AGGGACTTAA
Statistics
Matches: 213, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
213 20 0.09
214 135 0.63
215 25 0.12
216 33 0.15
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.42
Consensus pattern (213 bp):
TTTATAAATTATATCAAAAATTATTATTAGTGAAATCAAGGGTAAAGCAAAAAAAATTTTTTTGA
GTAAAATTAATTTATGTATTTTTTACGATATTAAAAATACAAATTCATCATTTTAATAGCCTAAA
TTTTTATAATTTTAAAAAATTTAAATTAAAATTTTATCATCTTTAAGGGTTAAAGTGTAATTTTA
CCAATACAAATTTAAAAT
Found at i:42396389 original size:17 final size:17
Alignment explanation
Indices: 42396367--42396402 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
42396357 CTAAACCATG
42396367 CTTCAAAGTTGACTCTT
1 CTTCAAAGTTGACTCTT
*
42396384 CTTCAAAGTTTACTCTT
1 CTTCAAAGTTGACTCTT
42396401 CT
1 CT
42396403 AAACCCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.44
Consensus pattern (17 bp):
CTTCAAAGTTGACTCTT
Found at i:42396685 original size:41 final size:41
Alignment explanation
Indices: 42396623--42396941 Score: 417
Period size: 41 Copynumber: 7.8 Consensus size: 41
42396613 TTTTGAGGCA
* *
42396623 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTGGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
42396664 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
* *
42396705 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATTCTCGGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
* *
42396746 TTTAACGAG-TTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCG-GCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
* * *
42396787 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
* * * * *
42396828 TTTAGCGACGTTTTTGAGAAAGTGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
* * * * * *
42396869 TTCAGTGGCGTTTTTGAGAATGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
*
42396910 TTTAGCGGCGTTTTT-GAAAATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAAA-GCGCCGCTAAT
42396942 AATAAAATCT
Statistics
Matches: 246, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.01
41 242 0.98
42 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCGGGGC
Found at i:42402686 original size:43 final size:43
Alignment explanation
Indices: 42402623--42402863 Score: 153
Period size: 43 Copynumber: 5.6 Consensus size: 43
42402613 TAAGTTTTTT
* * * * *
42402623 TAAAGGTTATG-TTTTTAGTGGCGTTTTTGCTAGAAGCGCCGT
1 TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGAAGCGCCGC
* *
42402665 TAAAGGTCATGATCTTTAGTGGCGTTTGTAATA-ATAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGA-AGCGCCGC
* * ** *
42402708 TAAAGGTCATGATCTTTAGCGGCGATTATGGGAGAAGCGCTGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGAAGCGCCGC
* * * * * * ** * **
42402751 TAAAGGTCGTGGTCTATAGCGGTGTTTGTGGGAAAAGCGTTGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGAAGCGCCGC
* * * ** * **
42402794 TAAAGGTCGTGATCTATAGTGGCGTTTGTGGGAAAAGCGTTGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGAAGCGCCGC
* * *
42402837 TAAAGGTCGTGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGATCTTTAGTGGCGTTT
42402864 GTGCGAATGT
Statistics
Matches: 169, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
42 11 0.07
43 157 0.93
44 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGTGGCGTTTATGATAGAAGCGCCGC
Found at i:42402864 original size:43 final size:43
Alignment explanation
Indices: 42402665--42402940 Score: 284
Period size: 43 Copynumber: 6.4 Consensus size: 43
42402655 GAAGCGCCGT
* * *** * **
42402665 TAAAGGTCATGATCTTTAGTGGCGTTTGTAATAATAGCGCCGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* * * * *
42402708 TAAAGGTCATGATCTTTAGCGGCGATTATGGGAGAAGCGCTGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* * *
42402751 TAAAGGTCGTGGTCTATAGCGGTGTTTGTGGGAAAAGCGTTGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* *
42402794 TAAAGGTCGTGATCTATAGTGGCGTTTGTGGGAAAAGCGTTGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* * * *
42402837 TAAAGGTCGTGGTCTTTAGCGGCGTTTGTGCG-AATGTGTTGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* * * * *
42402879 TAAAGGTTGTGATCTATAGCAGCGTTTGTGGGAAAAGTGTCGC
1 TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
* *
42402922 TAAAGGTCTTGGTCTTTAG
1 TAAAGGTCGTGATCTTTAG
42402941 TGACGTTTTT
Statistics
Matches: 195, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 35 0.18
43 160 0.82
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.32
Consensus pattern (43 bp):
TAAAGGTCGTGATCTTTAGCGGCGTTTGTGGGAAAAGCGTTGC
Found at i:42402948 original size:85 final size:85
Alignment explanation
Indices: 42402706--42402948 Score: 281
Period size: 85 Copynumber: 2.8 Consensus size: 85
42402696 TAATAGCGCC
* * * * * * *
42402706 GCTAAAGGTCATGATCTTTAGCGGCGATTATGGGAGAAGCG-CTGCTAAAGGTCGTGGTCTATAG
1 GCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGCGTC-GCTAAAGGTCGTGGTCTTTAG
** * * *
42402770 CGGTGTTTGTGGGAAAAGCGTT
65 CGACGTTTGTGCG-AATGTGTT
** *
42402792 GCTAAAGGTCGTGATCTATAGTGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCGTGGTCTTTAGC
1 GCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGC
*
42402857 GGCGTTTGTGCGAATGTGTT
66 GACGTTTGTGCGAATGTGTT
* * * *
42402877 GCTAAAGGTTGTGATCTATAGCAGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCTTGGTCTTTAGT
1 GCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGC
42402942 GACGTTT
66 GACGTTT
42402949 TTAGAAAAAA
Statistics
Matches: 136, Mismatches: 20, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
85 70 0.51
86 66 0.49
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (85 bp):
GCTAAAGGTCGTGATCTATAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGC
GACGTTTGTGCGAATGTGTT
Found at i:42403074 original size:22 final size:22
Alignment explanation
Indices: 42403042--42403084 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
42403032 TAATGGCGCT
* *
42403042 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
42403064 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
42403085 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:42405203 original size:28 final size:29
Alignment explanation
Indices: 42405152--42405209 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
42405142 GTAGCGACAT
*
42405152 AATAATGAAATGGTAACAAAATAGTGAAAA
1 AATAATGAAATGGTAAAAAAATAGT-AAAA
42405182 AATAA-GAAATGG-AAAAAAATAGTAAAA
1 AATAATGAAATGGTAAAAAAATAGTAAAA
42405209 A
1 A
42405210 CAACAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 7 0.26
30 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.17
Consensus pattern (29 bp):
AATAATGAAATGGTAAAAAAATAGTAAAA
Found at i:42405977 original size:25 final size:25
Alignment explanation
Indices: 42405933--42405992 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
42405923 TATTCTCTCA
42405933 AATTATTTTCCCCAAATCCCTAACTT
1 AATT-TTTTCCCCAAATCCCTAACTT
* * *
42405959 AGTTTTTTCCTCAATTCCCTAACTT
1 AATTTTTTCCCCAAATCCCTAACTT
42405984 AATTTTTTC
1 AATTTTTTC
42405993 TTTCCCATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTTTTTCCCCAAATCCCTAACTT
Found at i:42408596 original size:64 final size:64
Alignment explanation
Indices: 42408491--42408616 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
42408481 AGGTAAGATG
*
42408491 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTT
1 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTTTT
* * *
42408555 GTCGATAGTTTTGGGAATTGATTGTTGTAAGTAATTTAGATTAAGTGACTAAGATTGAGTTT
1 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTT
42408617 CCAATTGTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.41
Consensus pattern (64 bp):
GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTTTT
Found at i:42415013 original size:7 final size:7
Alignment explanation
Indices: 42415001--42415025 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42414991 AAACCACCAC
42415001 TATCTCA
1 TATCTCA
42415008 TATCTCA
1 TATCTCA
42415015 TATCTCA
1 TATCTCA
42415022 TATC
1 TATC
42415026 AATGCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TATCTCA
Found at i:42419304 original size:13 final size:14
Alignment explanation
Indices: 42419270--42419306 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
42419260 TATTTATAAA
*
42419270 AAATATATTATTTT
1 AAATATATTATATT
42419284 AAAT-TATT-TATT
1 AAATATATTATATT
42419296 AAATATATTAT
1 AAATATATTAT
42419307 TTTGTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.35
13 8 0.40
14 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AAATATATTATATT
Found at i:42421362 original size:26 final size:26
Alignment explanation
Indices: 42421310--42421362 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
42421300 GTCTCGATAT
* *
42421310 AAGGCTCTTCGTAAGCTTCCCGCTTA
1 AAGGCACTTCGTAAGCTTCCCGATTA
* *
42421336 AAGGCACTTTGTAAGCTTCCTGATTA
1 AAGGCACTTCGTAAGCTTCCCGATTA
42421362 A
1 A
42421363 TGGATCTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (26 bp):
AAGGCACTTCGTAAGCTTCCCGATTA
Found at i:42439902 original size:23 final size:21
Alignment explanation
Indices: 42439876--42439921 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
42439866 CATACTTTGT
*
42439876 TTATAGCATTTTATTATATATTA
1 TTATA-CATATTATT-TATATTA
42439899 TTATACATATTATTTATATTA
1 TTATACATATTATTTATATTA
42439920 TT
1 TT
42439922 GTTAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATACATATTATTTATATTA
Found at i:42446449 original size:28 final size:30
Alignment explanation
Indices: 42446389--42446449 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
42446379 CAAAATTATT
* *
42446389 AAAAATATGTAAATTTATAAATTTATTTAA
1 AAAAATATGTAAATATATAAATTTATATAA
42446419 AAAAATAT-TAAA-ATATAAATTTATAATAA
1 AAAAATATGTAAATATATAAATTTAT-ATAA
42446448 AA
1 AA
42446450 TATTTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.39
29 9 0.32
30 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAAATATGTAAATATATAAATTTATATAA
Found at i:42449091 original size:23 final size:21
Alignment explanation
Indices: 42449065--42449105 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
42449055 AATTAAATTA
42449065 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
42449086 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
42449106 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:42449259 original size:38 final size:37
Alignment explanation
Indices: 42449217--42449374 Score: 99
Period size: 38 Copynumber: 4.5 Consensus size: 37
42449207 ATATCTTATG
42449217 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
* * * *
42449255 ATTTTATTAAATTATATTTAATAATAATT-AT-TTTA-A
1 ATTTTAGTAAATTATA--TAAGAATATTTAATATTAAGA
* *
42449291 A--TTA-TATATTATAT-----TA-TTATATATTATG-
1 ATTTTAGTAAATTATATAAGAATATTTA-ATATTAAGA
* *
42449319 ATTTTAGTAAATTCATATAAGAAGATTTAATATGAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
*
42449357 ATTTTATTAAATTATATA
1 ATTTTAGTAAATTATATA
42449375 TTTTTTATTA
Statistics
Matches: 91, Mismatches: 12, Indels: 35
0.66 0.09 0.25
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 2 0.02
28 3 0.03
30 3 0.03
31 6 0.07
32 4 0.04
33 8 0.09
34 3 0.03
36 2 0.02
37 18 0.20
38 29 0.32
39 9 0.10
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (37 bp):
ATTTTAGTAAATTATATAAGAATATTTAATATTAAGA
Found at i:42449260 original size:102 final size:102
Alignment explanation
Indices: 42449154--42449373 Score: 361
Period size: 102 Copynumber: 2.2 Consensus size: 102
42449144 AATTATATAT
* * *
42449154 TTTTATCT-AATTATATTTAATAATAATAATTTTAAATTATATTTTGTAGTATTATATCTTATGA
1 TTTTAT-TAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGA
* *
42449218 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
65 TTTTAGTAAATTCATATAAGAAGATTTAATATGAAGAA
* *
42449256 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGAT
42449321 TTTAGTAAATTCATATAAGAAGATTTAATATGAAGAA
66 TTTAGTAAATTCATATAAGAAGATTTAATATGAAGAA
42449358 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
42449374 ATTTTTTATT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 1 0.01
102 109 0.99
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAAGATTTAATATGAAGAA
Found at i:42449391 original size:121 final size:118
Alignment explanation
Indices: 42449256--42449548 Score: 408
Period size: 121 Copynumber: 2.4 Consensus size: 118
42449246 ATATTAAGAA
*
42449256 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
1 TTTTATT-AATTATATTTAATAATAATAATTTTAAA-TATATATTATATTATTATATATTATGAT
* *
42449321 TTTAGTAAATTCATATAAGAAGATTTAATATGAAGAATTTTATTAAATTATATATT
64 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA-T
* * *
42449377 TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATATTATTATATATTATAAT
1 TTTTATT-AATTATATTTAATAATAATAATTTTAAA-TATATATTATATTATTATATATTATGAT
*
42449442 TTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATAT
64 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
42449497 TTTAATTAAAATATATTTAATAATAATTATGTTAAA-ATATGATTAAATTATT
1 TTTTATT-AATTATATTTAATAATAATAATTTTAAATATAT-ATTATATTATT
42449549 TATTATTGAT
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
118 4 0.03
119 9 0.06
120 32 0.20
121 112 0.71
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (118 bp):
TTTTATTAATTATATTTAATAATAATAATTTTAAATATATATTATATTATTATATATTATGATTT
TAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:42449467 original size:223 final size:222
Alignment explanation
Indices: 42449083--42449494 Score: 727
Period size: 223 Copynumber: 1.9 Consensus size: 222
42449073 ATGATTTTAG
* *
42449083 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATT
1 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATGAAGAATTTTATTAAATT
* * *
42449148 ATATATTTTTATCTAATTATATTTAATAATAATAATTTTAAATTATATTTTGTAGTATTATATCT
66 ATATATTTTTATCTAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATAT
* *
42449213 TATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
131 TATAATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
42449278 ATAATTATTTTAAATTATATATTATAT
196 ATAATTATTTTAAATTATATATTATAT
42449305 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATGAAGAATTTTATTAAATT
1 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATGAAGAATTTTATTAAATT
*
42449370 ATATATTTTTTAT-TAAATTATATTTAATAATAATAACTTTAAATTATATTTTATATTATTATAT
66 ATATA-TTTTTATCT-AATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATAT
42449434 ATTATAATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATAT
129 ATTATAATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATAT
42449495 ATTTTAATTA
Statistics
Matches: 180, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
222 69 0.38
223 111 0.62
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (222 bp):
TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATGAAGAATTTTATTAAATT
ATATATTTTTATCTAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATAT
TATAATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
ATAATTATTTTAAATTATATATTATAT
Found at i:42449504 original size:18 final size:17
Alignment explanation
Indices: 42449478--42449512 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42449468 AATATTAAGA
*
42449478 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42449495 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42449513 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42452919 original size:12 final size:11
Alignment explanation
Indices: 42452904--42452934 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
42452894 TTTTTATTGT
42452904 TTATTATTATAA
1 TTATTATTAT-A
42452916 TTATTATTATA
1 TTATTATTATA
42452927 TTATTATT
1 TTATTATT
42452935 GTATGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:42457646 original size:7 final size:7
Alignment explanation
Indices: 42457625--42457661 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
42457615 AGATGTGAAA
42457625 AAAAT-G
1 AAAATGG
42457631 AAAAT-G
1 AAAATGG
42457637 AAAATGG
1 AAAATGG
*
42457644 AAAATGA
1 AAAATGG
42457651 AAAATGG
1 AAAATGG
42457658 AAAA
1 AAAA
42457662 AGTAAAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (7 bp):
AAAATGG
Found at i:42457646 original size:13 final size:14
Alignment explanation
Indices: 42457624--42457661 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
42457614 GAGATGTGAA
42457624 AAAAAT-GAAAATG
1 AAAAATGGAAAATG
42457637 -AAAATGGAAAATG
1 AAAAATGGAAAATG
42457650 AAAAATGGAAAA
1 AAAAATGGAAAA
42457662 AGTAAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (14 bp):
AAAAATGGAAAATG
Found at i:42457668 original size:15 final size:14
Alignment explanation
Indices: 42457624--42457673 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
42457614 GAGATGTGAA
*
42457624 AAAAAT-GAAAATG
1 AAAAATGGAAAAAG
*
42457637 -AAAATGGAAAATG
1 AAAAATGGAAAAAG
42457650 AAAAATGGAAAAAG
1 AAAAATGGAAAAAG
*
42457664 TAAAAGTGGA
1 -AAAAATGGA
42457674 GAGGCTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 5 0.16
13 7 0.22
14 12 0.38
15 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (14 bp):
AAAAATGGAAAAAG
Found at i:42458995 original size:40 final size:43
Alignment explanation
Indices: 42458910--42459782 Score: 156
Period size: 43 Copynumber: 20.7 Consensus size: 43
42458900 AAACCAATCC
* * **
42458910 TATCTCCCTGAAGTTACAGTGGAGCGGATTAACATTCAAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGA-TCGCATTCAAGATCT
** * *
42458954 TATCTTTCTGAGGTTGCAG-AGAGCAGATCGCATT-AAG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* * * *
42458994 TATCTCCCTGAAGTTACAGTAGAGCAGA-CTGAAGATCTA-ATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATC-GCA-TTCAAGATCT
* * * * * * * *
42459037 TATCTCCCAGAGGTTGCAGTGGAGCGGATTGACATAC-GGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCG-CATTCAAGATCT
* * * *
42459080 TATCTCTCTGAAGTTGCAG-AGAGCATATCACA-TCAAG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* * *** * *
42459120 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAG-AAGAAACTAATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATC-GCATTCAA--GATCT
* * * * ** *
42459164 TATCTTCCTGAAGTTGCAGTGGAGCGGATTAACA-TCCAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGA-TCGCATTCAAGATCT
** * * *
42459207 TATCTTTCTGAGGTTGCAG-AGAGCAGATCACA-TCAAG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* ** * * *** * *
42459247 TATCCCCCTGAAGTTGTAGTGGAGCAGATAG-AAGAAACTAATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAA--GATCT
* * * * ** *
42459291 TATCTTCCTGAAGTTGCAGTGGAGCGGATTAACA-TCCAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGA-TCGCATTCAAGATCT
** * *
42459334 TATCTTTCTGAGGTTGCAG-AGAGCAGATCGCATTC-AG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* * *** *
42459374 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAG-AAGAAACCAATGC-
1 TATCTCCCTGAAGTTACAGTAGAGCAGATC-GCATTCAA--GAT-CT
* * * * ** *
42459418 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAACA-TCCAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGA-TCGCATTCAAGATCT
** * * *
42459461 TATCTTTCTGAGGTTACAG-AGAGCAGATCGTATTC-AG-TTT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* * * * ** *
42459501 TATCTCTCTGAAGTTGCTGTGGAGTAGACAGA-AG-AAACCA-ATGC-
1 TATCTCCCTGAAGTTACAGT--AG-AG-CAGATCGCATTCAAGAT-CT
* * ** *
42459545 TATCTCCCTAAAGTTACAGT-GAAGCGGATTAACA-TCCAGATCT
1 TATCTCCCTGAAGTTACAGTAG-AGCAGA-TCGCATTCAAGATCT
** *
42459588 TATCTTTCTGAGGTTACAG-AGAGCAGATCGCATTC-AG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* * *** * *
42459628 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAG-AAGAAACCAATCC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATC-GCATTCAA--GATCT
* * * ** *
42459672 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACA-TCCAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGA-TCGCATTCAAGATCT
** * **
42459715 TATCTTTCTGAGGTTGTAG-AGAGCAGATCGCATTC-AG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
* *
42459755 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTACAGTAGAGCAGA
42459783 CAGAAGAAAC
Statistics
Matches: 596, Mismatches: 169, Indels: 131
0.67 0.19 0.15
Matches are distributed among these distances:
40 140 0.23
41 89 0.15
42 55 0.09
43 150 0.25
44 147 0.25
45 11 0.02
46 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATCGCATTCAAGATCT
Found at i:42459857 original size:127 final size:127
Alignment explanation
Indices: 42458896--42459822 Score: 1437
Period size: 127 Copynumber: 7.3 Consensus size: 127
42458886 AGAACAAACT
* *
42458896 GAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAACATTCAAGATCTTATCTTT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACA-TCCAGATCTTATCTTT
* * * *
42458961 CTGAGGTTGCAGAGAGCAGATCGCATTAAGTCTTATCTCCCTGAAGTTACAGTAGAGCAGACT
65 CTGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * * * * * * *
42459024 GAAG-ATCTAATCCTATCTCCCAGAGGTTGCAGTGGAGCGGATTGACATACGGATCTTATCTCTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
* * *
42459088 TGAAGTTGCAGAGAGCATATCACA-TCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
66 TGAGGTTGCAGAGAGCAGATCGCATTC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
42459150 GAAGAAACTAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
* * * *
42459215 TGAGGTTGCAGAGAGCAGATCACA-TCAAGTCTTATCCCCCTGAAGTTGTAGTGGAGCAGATA
66 TGAGGTTGCAGAGAGCAGATCGCATTC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
42459277 GAAGAAACTAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
42459342 TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
66 TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
42459404 GAAGAAACCAATGCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
* * * * * *
42459469 TGAGGTTACAGAGAGCAGATCGTATTCAGTTTTATCTCTCTGAAGTTGCTGTGGAGTAGACA
66 TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * * *
42459531 GAAGAAACCAATGCTATCTCCCTAAAGTTACAGTGAAGCGGATTAACATCCAGATCTTATCTTTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
*
42459596 TGAGGTTACAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
66 TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
42459658 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
*
42459723 TGAGGTTGTAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
66 TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
42459785 GAAGAAACTAATCCTATCTCCCTGAAGTTACAGTGGAG
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
42459823 TAGACTGAAG
Statistics
Matches: 737, Mismatches: 59, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
125 1 0.00
126 70 0.09
127 660 0.90
128 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (127 bp):
GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTC
TGAGGTTGCAGAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
Found at i:42459909 original size:169 final size:171
Alignment explanation
Indices: 42459111--42459992 Score: 558
Period size: 169 Copynumber: 5.2 Consensus size: 171
42459101 AGCATATCAC
* * *
42459111 ATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACTAATCCTATCTTCCTGAA
1 ATCAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAA
* * *
42459176 GTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
65 GTTGCAGTGGAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATC
* * * * *
42459241 AAGTCTTATCCCCCTGAAGTTGTAGTGGAGCAGATAGAAGAA
130 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAA
* * ** * * * **
42459283 A-CTAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGA-TTAA-CATCCAGATCTTATCTTTCTGA
1 ATC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTCCCTGA
* * * ** * * *
42459345 GGTTGCAG-AGAGCAGA-TCGCATTCAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-
64 AGTTGCAGTGGAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTGCA---GAG-AG-CAGAT
* * * * * * **
42459406 AGAAACCAATGC-TATCTCCCTAAAGTTGCAGTGG---AG-CGGATTAA
124 CGCATCCAGT-CTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAA
* ** * * * * ** * ** *
42459450 CATCCAGATCTTATCTTTCTGAGGTTACA---GAG-AG-CAGATCGTATTCAGTTTTATCTCTCT
1 -AT-CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCCTATCTCCCT
* ** ** * * * * * * * *
42459510 GAAGTTGCTGTGGAGTAGACAGAAGAAACCA-ATGC-TATCTCCCTAAAGTTACAGTGAAGCGGA
62 GAAGTTGCAGTGGAGCGGA-TTAACATA-CAGAT-CTTATCTCTCTGAGGTTGCAGAG-AGCAGA
** ** * * * * *
42459573 TTAACATCCAGATCTTATCTTTCTGAGGTTACA---G-AGAG-CAGATCGCA
123 -TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGA-AGAA
* * *
42459620 TTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAG
* * * *
42459685 TTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGTAGAGAGCAGATCGCATTC
66 TTGCAGTGGAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATCC
*
42459750 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA
131 AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAA
* * * * * *
42459791 A-CTAATCCTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAG-ATCTAATCCTATCTCCCTGAG
1 ATC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAA
* *
42459854 GTTGC-GTGGAGCGGATTGACATACGGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATC
65 GTTGCAGTGGAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATC
* * * *
42459918 CAGTCTTATTTCTCTGAAGTTGCAGTGGAACAGGCAGAATAA
130 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAA
*
42459960 ATCAATCCTATCTCCCTGAGGTTGCAGTGGAGC
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGC
42459993 GAATTAACAT
Statistics
Matches: 531, Mismatches: 137, Indels: 87
0.70 0.18 0.12
Matches are distributed among these distances:
166 2 0.00
167 81 0.15
168 33 0.06
169 148 0.28
170 108 0.20
171 142 0.27
172 17 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (171 bp):
ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAG
TTGCAGTGGAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATCC
AGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAA
Found at i:42459993 original size:296 final size:298
Alignment explanation
Indices: 42459501--42460079 Score: 849
Period size: 296 Copynumber: 1.9 Consensus size: 298
42459491 TATTCAGTTT
* * * *
42459501 TATCTCTCTGAAGTTGCTGTGGAGTAGACAGAAGAAACCAATGCTATCTCCCTAAAGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAGTG
* * *
42459566 AAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTACAGAGAGCAGATCGCATTCAGTCTTAT
66 AAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTACAGAGAGCAGATCGCATCCAGTCTTAT
*
42459631 CTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
131 CTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
42459696 CGGATTAACATCCAGATCTTATCTTTCTGAGGTTGTAGAGAGCAGATCGCATTCAGTCTT-ATCT
196 CGAATTAACATCCAGATCTTATCTTTCTGAGGTGGCAGAGAGCAGATCACATCCAGT-TTCATCT
42459760 CCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACTAATCC
260 CCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACTAATCC
* * * * * *
42459799 TATCTCCCTGAAGTTACAGTGGAGTAGACTGAAG-ATCTAATCCTATCTCCCTGAGGTTGC-GTG
1 TATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAGTG
* * * *
42459862 GAGCGGATTGACATACGGATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCTTAT
66 AAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTACAGAGAGCAGATCGCATCCAGTCTTAT
* * * * * *
42459927 TTCTCTGAAGTTGCAGTGGAACAGGCAGAATAAATCAATCCTATCTCCCTGAGGTTGCAGTGGAG
131 CTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
* *
42459992 CGAATTAACATCCAGATCTTATTTTTCTGAGGTGGCAGAGAGCAGGTCACATCCAGTTTCATCTC
196 CGAATTAACATCCAGATCTTATCTTTCTGAGGTGGCAGAGAGCAGATCACATCCAGTTTCATCTC
42460057 CCTGAAGTTGCAGTGGAGCAGAC
261 CCTGAAGTTGCAGTGGAGCAGAC
42460080 TAAAGATAGC
Statistics
Matches: 249, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
295 2 0.01
296 197 0.79
297 20 0.08
298 30 0.12
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (298 bp):
TATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACAGTG
AAGCGGATTAACATACAGATCTTATCTCTCTGAGGTTACAGAGAGCAGATCGCATCCAGTCTTAT
CTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
CGAATTAACATCCAGATCTTATCTTTCTGAGGTGGCAGAGAGCAGATCACATCCAGTTTCATCTC
CCTGAAGTTGCAGTGGAGCAGACAGAAGAAACTAATCC
Found at i:42460022 original size:127 final size:126
Alignment explanation
Indices: 42459837--42460073 Score: 350
Period size: 127 Copynumber: 1.9 Consensus size: 126
42459827 CTGAAGATCT
* * * *
42459837 AATCCTATCTCCCTGAGGTTGCGTGGAGCGGATTGACATACGGATCTTATCTCTCTGAGGTTGCA
1 AATCCTATCTCCCTGAGGTTGCGTGGAGCGAATTAACATACAGATCTTATCTCTCTGAGGTGGCA
* * *
42459902 GAGAGCAGATCGCATCCAGTCTT-ATTTCTCTGAAGTTGCAGTGGAACAGGCAGAATAAATC
66 GAGAGCAGATCACATCCAGT-TTCATCTCCCTGAAGTTGCAGTGGAACAGGCAGAATAAATC
* * *
42459963 AATCCTATCTCCCTGAGGTTGCAGTGGAGCGAATTAACATCCAGATCTTATTTTTCTGAGGTGGC
1 AATCCTATCTCCCTGAGGTTGC-GTGGAGCGAATTAACATACAGATCTTATCTCTCTGAGGTGGC
*
42460028 AGAGAGCAGGTCACATCCAGTTTCATCTCCCTGAAGTTGCAGTGGA
65 AGAGAGCAGATCACATCCAGTTTCATCTCCCTGAAGTTGCAGTGGA
42460074 GCAGACTAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
126 24 0.24
127 74 0.76
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (126 bp):
AATCCTATCTCCCTGAGGTTGCGTGGAGCGAATTAACATACAGATCTTATCTCTCTGAGGTGGCA
GAGAGCAGATCACATCCAGTTTCATCTCCCTGAAGTTGCAGTGGAACAGGCAGAATAAATC
Found at i:42461324 original size:12 final size:11
Alignment explanation
Indices: 42461309--42461339 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
42461299 TTTTTATTGT
42461309 TTATTATTATAA
1 TTATTATTAT-A
42461321 TTATTATTATA
1 TTATTATTATA
42461332 TTATTATT
1 TTATTATT
42461340 GTATGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:42472971 original size:18 final size:18
Alignment explanation
Indices: 42472948--42472983 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
42472938 GACAACGCAC
42472948 TGAATTTGAATAACAGCA
1 TGAATTTGAATAACAGCA
42472966 TGAATTTGAATAACAGCA
1 TGAATTTGAATAACAGCA
42472984 CCATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
TGAATTTGAATAACAGCA
Found at i:42475000 original size:88 final size:87
Alignment explanation
Indices: 42474787--42475010 Score: 223
Period size: 88 Copynumber: 2.6 Consensus size: 87
42474777 AGATCAGTGA
* * *
42474787 AAATAGCAGATCTTGCTTTCCTATACCGGCAGCGAAGCAGATCAAAGACACCGGCCTTGCCTCCC
1 AAATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCC
* * **
42474852 TGGGCAGCAGTGGAGTAGGTTG
66 TAGGCAGCAGTGGAGCAGACTG
** ** * * ** ** *
42474874 AAAGTAGCAGATCTTGCCTTCCTGTATTGATAGTGAAGCAGATCGAAGACATTAGTGTTGCCTCT
1 AAA-TAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
**
42474939 CTAGGTTGCAGTGGAGCAGACTG
65 CTAGGCAGCAGTGGAGCAGACTG
* * *
42474962 AAGATAGCAGATCTTGCCCTCTTGTACCGGCAGCGAAGCAAATCAAAGA
1 AA-ATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGA
42475011 TCACAGCGAG
Statistics
Matches: 106, Mismatches: 29, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
87 3 0.03
88 102 0.96
89 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (87 bp):
AAATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCC
TAGGCAGCAGTGGAGCAGACTG
Found at i:42475440 original size:37 final size:38
Alignment explanation
Indices: 42475390--42475467 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
42475380 CGAAGATAGC
* *
42475390 AGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAA
1 AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
* *
42475427 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAA
1 AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
42475465 AGA
1 AGA
42475468 AAGCAGATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (38 bp):
AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
Found at i:42475500 original size:126 final size:126
Alignment explanation
Indices: 42475211--42476201 Score: 1505
Period size: 126 Copynumber: 7.7 Consensus size: 126
42475201 TTTAAGCTGC
* *
42475211 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
42475276 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATC--A-A---AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
42475341 AA
125 AA
* *
42475343 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
42475408 TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
42475469 AGCAGATATTTTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
42475534 TTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATC-AA-A-G---ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
42475599 GAA
124 GAA
*
42475602 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
42475667 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * *
42475728 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
42475793 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATC--A-A---AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
42475858 GAA
124 GAA
* *
42475861 AGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
42475926 TTGGTAGGAAGTAGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
**
42475987 AATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
42476052 TTAGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
42476113 AGCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
42476178 TTGGTAGCGAAGTGGATCGAAGAT
66 TTGGTAG-GAAGTGGATCAAAGAT
42476202 GCAAATCTTG
Statistics
Matches: 791, Mismatches: 53, Indels: 35
0.90 0.06 0.04
Matches are distributed among these distances:
126 437 0.55
127 35 0.04
128 2 0.00
129 4 0.01
130 4 0.01
131 1 0.00
132 97 0.12
133 211 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (126 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
Found at i:42475546 original size:89 final size:90
Alignment explanation
Indices: 42475427--42476506 Score: 859
Period size: 89 Copynumber: 12.4 Consensus size: 90
42475417 AGTGGATCAA
* * * * * * *
42475427 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATATTTTCTTCATGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
42475492 GG-CGTGAAGTAGATCGAAGATAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * * *
42475516 AGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAAATATTGTCTTCCCATACT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
42475580 GGTGGCGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * *
42475605 AGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
*
42475669 GGTAG-GAAGTGGATC---G--A--
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * * *
42475686 AGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
42475751 GG-CGTGAAGTAGATCGAAAATAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * *
42475775 AGATCTTGTATTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
42475839 GGTGGCGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * * * *
42475864 AGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
42475928 GGTAG-GAAGTAGATC---G--A--
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * ** * *
42475945 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
42476010 GG-CGTGAAGTAGATCGAAGATAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * *
42476034 AGATCCTGTCTTCCTATATTAGTAG-GAAGTGGATC-----TA--AGATCTTGTCTTTCC-ATAT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TTCCTATAT
* * *
42476090 TGGTGGCGAAGTAGATCAAAGAAAGC
65 TGGTAGCGAAGTAGATCGAAGATAGC
* * * * * * * *
42476116 AGATCTTGTTTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
*
42476180 GGTAGCGAAGTGGATCGAAGAT-GC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * * * * *
42476204 AAATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGAAAGCAAATCATGTTTTCCTATATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
42476268 GGTAGCAAAGTGGATTGAAGATAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * * * *
42476293 AGATCTTGTTTTCATGTATTGGCA-TGAAGTAGATCGAAGAAAGCAAATCCTGTCTTCCTATATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
42476357 GGTAGCGAAGTGGATTGAAGATAGC
66 GGTAGCGAAGTAGATCGAAGATAGC
* * * * ** * *
42476382 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
42476447 GGCA-TGAAGTAGATC-AAGGATAAC
66 GGTAGCGAAGTAGATCGAA-GATAGC
** * * * *
42476471 AGATCTTACCTTCCTGTACTGGCAGTGAAGTAGATC
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
42476507 AAAAATAGCA
Statistics
Matches: 795, Mismatches: 159, Indels: 74
0.77 0.15 0.07
Matches are distributed among these distances:
81 54 0.07
82 136 0.17
83 3 0.00
85 3 0.00
87 4 0.01
88 178 0.22
89 381 0.48
90 36 0.05
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (90 bp):
AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
GGTAGCGAAGTAGATCGAAGATAGC
Found at i:42475669 original size:259 final size:258
Alignment explanation
Indices: 42475211--42476394 Score: 1653
Period size: 259 Copynumber: 4.6 Consensus size: 258
42475201 TTTAAGCTGC
* *
42475211 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
42475276 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
*
42475341 AAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
131 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
42475406 TATTGGTAGGAAGTGGATCAAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
196 TATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
* *
42475469 AGCAGATATTTTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
42475534 TTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
42475599 GAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
130 GAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
*
42475664 ATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAA
195 ATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
* * * *
42475728 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
42475793 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
* * *
42475858 GAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCT
130 GAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
* * *
42475923 ATATTGGTAGGAAGTAGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
195 ATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
**
42475987 AATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * *
42476052 TTAGTAGGAAGTGGATC-----T-AAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAG
66 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
* * *
42476111 AAAGCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTA
131 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*** * * * *
42476176 TATTGGTAGCGAAGTGGATCGAAGATGCAAATCTTGTCTTCATGTATTGG-CGTGAAATAGATCG
196 TATTGGTAG-GAAGTGGATCG-A-A-G---ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
42476240 AAGAA
254 AAGAA
* * * * * * ** * * * * * *
42476245 AGCAAATCATGTTTTCCTATATTGGTAGCAAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTAT
* * * * * * * * * * *
42476310 ATTGGCATGAAGTAGATCGAAGAAAGCAAATCCTGTCTTCCTATATTGGTAGCGAAGTGGATTGA
65 ATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
* *
42476375 AGATAGCAGATCTTATCTTC
129 AGAAAGCAGATCTTGTCTTC
42476395 CCATACTGGT
Statistics
Matches: 832, Mismatches: 78, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
252 107 0.13
253 11 0.01
254 1 0.00
255 1 0.00
256 1 0.00
258 112 0.13
259 552 0.66
266 47 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (258 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
Found at i:42475956 original size:385 final size:388
Alignment explanation
Indices: 42475211--42476216 Score: 1609
Period size: 385 Copynumber: 2.6 Consensus size: 388
42475201 TTTAAGCTGC
* *
42475211 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
42475276 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATC---GA---AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAG
* *
42475341 AAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
125 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
42475406 TATTGGTAG-GAAGTGGATC--A-A---AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCA
190 TATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCA
* * *
42475464 AAGAAAGCAGATATTTTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTC
255 AAGAAAGCAGATATTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTC
*
42475529 CTATATTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGA
320 CTATATTGGTAGCGAAGTAGATCGAAGATGC----ATTGTCTTCCCATACTGGTGGCGAAGTAGA
42475594 TCGAAGAA
381 TCGAAGAA
*
42475602 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
42475667 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGTA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
* * *
42475732 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTGG
131 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
*
42475797 TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
196 TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
*
42475862 GCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATAT
261 GCAGATATTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATAT
42475927 TGGTAG-GAAGTAGATCGAAGAT-C-TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
326 TGGTAGCGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
**
42475987 AATAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * *
42476052 TTAGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
* *
42476117 GATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGG
131 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
*
42476182 TAGCGAAGTGGATCGAAGATGCAAATCTTGTCTTC
196 TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTC
42476217 ATGTATTGGC
Statistics
Matches: 575, Mismatches: 33, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
385 358 0.62
386 10 0.02
388 3 0.01
389 1 0.00
390 1 0.00
391 94 0.16
392 108 0.19
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (388 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
TAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
GCAGATATTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATAT
TGGTAGCGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
Found at i:42475978 original size:38 final size:37
Alignment explanation
Indices: 42475914--42475985 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
42475904 TAGCAAATCC
* *
42475914 TGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATCT
1 TGTCTTCCCATACTGGTAGGAAGTAGATCGAAGATCT
*
42475951 TGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 TGTCTTCCCATACTGGTAG-GAAGTAGATCGAAGA
42475986 AAATAGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (37 bp):
TGTCTTCCCATACTGGTAGGAAGTAGATCGAAGATCT
Found at i:42476290 original size:385 final size:384
Alignment explanation
Indices: 42475213--42476332 Score: 1585
Period size: 385 Copynumber: 2.9 Consensus size: 384
42475203 TAAGCTGCAG
* *
42475213 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
42475278 GGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATC-----T-AAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
* *
42475343 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
125 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
42475408 TTGGTAG-GAAGTGGATC-AA-A-G--ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAG
190 TTGGTAGCGAAGTGGATCGAAGATGCAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
*
42475467 AAAGCAGAT-ATTTTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
255 AAAGCAGATCATGTT-TTCATGTATT-G-GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCT
*
42475531 ATATTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATC
317 ATATTGGTAG-GAAGTAGATCGAAGATGC----ATTGTCTTCCCATACTGGTGGCGAAGTAGATC
*
42475596 GAAGAAAG
377 GAAGAAAA
*
42475604 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
42475669 GGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGTAGA
66 GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
* * *
42475734 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTGGTA
131 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
*
42475799 GCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
196 GCGAAGTGGATCGAAGATGCA-ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
* * *
42475864 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATATTG
260 AGATCATGTTTTCATGTATT-G-GTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
42475929 GTAGGAAGTAGATCGAAGAT-C-TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
323 GTAGGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
*
42475989 TAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* *
42476054 AGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
66 GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
* *
42476119 TCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGGTA
131 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
*** * * *
42476184 GCGAAGTGGATCGAAGATGCAAATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGAAAGC
196 GCGAAGTGGATCGAAGATGC-AATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
* * * * * * * * *
42476248 AAATCATGTTTTCCTATATTGGTAGCAAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGTATT
260 AGATCATGTTTTCATGTATTGGT-G--AAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* *
42476313 GGCATGAAGTAGATCGAAGA
322 GGTAGGAAGTAGATCGAAGA
42476333 AAGCAAATCC
Statistics
Matches: 661, Mismatches: 56, Indels: 30
0.88 0.07 0.04
Matches are distributed among these distances:
382 2 0.00
383 2 0.00
384 34 0.05
385 411 0.62
386 11 0.02
387 2 0.00
388 1 0.00
389 1 0.00
390 1 0.00
391 92 0.14
392 102 0.15
393 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (384 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
GCGAAGTGGATCGAAGATGCAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
GATCATGTTTTCATGTATTGGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
GGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
Found at i:42476475 original size:44 final size:44
Alignment explanation
Indices: 42476097--42476506 Score: 260
Period size: 44 Copynumber: 9.2 Consensus size: 44
42476087 TATTGGTGGC
* * *
42476097 GAAGTAGATCAAAGA-AAGCAGATCTTGTTTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGGCAT
** * * * * *
42476141 GAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGGCA-T
* * * *
42476186 GAAGTGGATCGAAGAT-GCAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGGCAT
* * * * * * *
42476229 GAAATAGATCGAAGA-AAGCAAATCATGTTTTCCTATATTGGTA-
1 GAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGGCAT
* * * *
42476272 GCAAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGTATTGGCAT
1 G--AAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGGCAT
* * * * * *
42476318 GAAGTAGATCGAAGA-AAGCAAATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATGTATTGGCA-T
* * * * * **
42476363 GAAGTGGATTGAAGATAGCAGATCTTATCTTCCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAACAGATCTTGTCTT--CAT-GTATTGGCAT
* *
42476408 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGGCAT
** * *
42476452 GAAGTAGATC-AAGGATAACAGATCTTACCTTCCTGTACTGGCAGT
1 GAAGTAGATCGAA-GATAACAGATCTTGTCTTCATGTATTGGCA-T
42476497 GAAGTAGATC
1 GAAGTAGATC
42476507 AAAAATAGCA
Statistics
Matches: 275, Mismatches: 73, Indels: 35
0.72 0.19 0.09
Matches are distributed among these distances:
42 5 0.02
43 20 0.07
44 135 0.49
45 106 0.39
46 3 0.01
47 2 0.01
48 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTATTGGCAT
Found at i:42476507 original size:45 final size:44
Alignment explanation
Indices: 42475453--42476508 Score: 207
Period size: 44 Copynumber: 24.3 Consensus size: 44
42475443 TATTGGTGGC
* * * *
42475453 GAAGTAGATCAAAGA-AAGCAGATATTTTCTTCATGTATTGGC-GT
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * *
42475497 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * * ** ** *
42475542 GAAGTGGATCGAAGAT-GCAAATATTGTCTTCCCATACTGGTGGC
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * *
42475586 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGGCA-T
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * * * *
42475630 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * ** * * *
42475674 GAAGTGGATC--G---A-AGATCTTGTCTTCCCATA-TTGCTGGC
1 GAAGTAGATCAAGATAACAGATCTTATCTTCCTGTACTGGC-AGT
* * * *
42475712 GAAGTAGATCAAAGA-AAGTAGATCTTGTCTTCATGTATTGGC-GT
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * * *
42475756 GAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTGGTAGC
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * ** ** *
42475801 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * *
42475845 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTAGC-GT
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * *
42475889 GAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* ** ** *
42475933 GAAGTAGATC--G---A-AGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * *
42475971 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGC-GT
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * *
42476015 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAG-
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * ** *
42476059 GAAGTGGATC----T-A-AGATCTTGTCTTTCC-ATATTGGTGGC
1 GAAGTAGATCAAGATAACAGATCTTATC-TTCCTGTACTGGCAGT
* * * *
42476097 GAAGTAGATCAAAGA-AAGCAGATCTTGTTTTCATGTATTGGC-GT
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
** * * * * * *
42476141 GAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * * *
42476186 GAAGTGGATCGAAGAT-GCAAATCTTGTCTTCATGTATTGGC-GT
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * * * *
42476229 GAAATAGATCGAAGA-AAGCAAATCATGTTTTCCTATATTGGTAGC
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * * *
42476274 AAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGTATTGGCA-T
1 GAAGTAGA-TCAAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * * * *
42476318 GAAGTAGATCGAAGA-AAGCAAATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATC-AAGATAA-CAGATCTTATCTTCCTGTACTGGCAGT
* * * ** ** *
42476363 GAAGTGGATTGAAGATAGCAGATCTTATCTTCCCATACTGGTGGC
1 GAAGTAGA-TCAAGATAACAGATCTTATCTTCCTGTACTGGCAGT
* * * * *
42476408 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGCA-T
1 GAAGTAGATC-AAGATAACAGATCTTATCTTCCTGTACTGGCAGT
*
42476452 GAAGTAGATCAAGGATAACAGATCTTACCTTCCTGTACTGGCAGT
1 GAAGTAGATCAA-GATAACAGATCTTATCTTCCTGTACTGGCAGT
42476497 GAAGTAGATCAA
1 GAAGTAGATCAA
42476509 AAATAGCATA
Statistics
Matches: 772, Mismatches: 183, Indels: 113
0.72 0.17 0.11
Matches are distributed among these distances:
36 2 0.00
37 54 0.07
38 32 0.04
39 1 0.00
41 4 0.01
43 20 0.03
44 411 0.53
45 241 0.31
46 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCAAGATAACAGATCTTATCTTCCTGTACTGGCAGT
Found at i:42484679 original size:14 final size:14
Alignment explanation
Indices: 42484660--42484687 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42484650 TCATTTACTC
42484660 ATTTACTCTCTTTT
1 ATTTACTCTCTTTT
42484674 ATTTACTCTCTTTT
1 ATTTACTCTCTTTT
42484688 CTTTTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTACTCTCTTTT
Found at i:42485803 original size:3 final size:3
Alignment explanation
Indices: 42485795--42485884 Score: 92
Period size: 3 Copynumber: 30.3 Consensus size: 3
42485785 CGAATTTTTC
* * * * * *
42485795 TCT TCT TCT CCT CCT CCT -CT TCC TCT TCC TCT TCT TCT TCT TCC TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
42485842 TCT TCT TTT TCT TCT TCT TTT TCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
42485885 TTATTGCCCA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:42487372 original size:25 final size:26
Alignment explanation
Indices: 42487344--42487403 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
42487334 AGAGATATAT
42487344 ATATGTATATAGATATAAATTA-AAA
1 ATATGTATATAGATATAAATTATAAA
* * * *
42487369 ATATGTATGTATATGTGAATTATAAA
1 ATATGTATATAGATATAAATTATAAA
*
42487395 ATATATATA
1 ATATGTATA
42487404 AAAAATATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (26 bp):
ATATGTATATAGATATAAATTATAAA
Found at i:42487421 original size:13 final size:13
Alignment explanation
Indices: 42487391--42487439 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
42487381 ATGTGAATTA
*
42487391 TAAAATATATATA
1 TAAAATATATATT
* *
42487404 AAAAATATACATT
1 TAAAATATATATT
*
42487417 TAAAATGTATATTT
1 TAAAATATATA-TT
42487431 TAAAATATA
1 TAAAATATA
42487440 AAGAATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
TAAAATATATATT
Found at i:42487974 original size:36 final size:36
Alignment explanation
Indices: 42487927--42488016 Score: 171
Period size: 36 Copynumber: 2.5 Consensus size: 36
42487917 CGGGTCAAAG
42487927 CCAAAACGGCGTCGTTTTGGTGCCTGAGAGGCATGC
1 CCAAAACGGCGTCGTTTTGGTGCCTGAGAGGCATGC
42487963 CCAAAACGGCGTCGTTTTGGTGCCTGAGAGGCATGC
1 CCAAAACGGCGTCGTTTTGGTGCCTGAGAGGCATGC
*
42487999 CCAAAACGGCGCCGTTTT
1 CCAAAACGGCGTCGTTTT
42488017 AAATGCCTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (36 bp):
CCAAAACGGCGTCGTTTTGGTGCCTGAGAGGCATGC
Found at i:42488666 original size:25 final size:27
Alignment explanation
Indices: 42488631--42488697 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
42488621 TGAAACCCTA
*
42488631 GTTT-GGCTATTGTTTT-TTTGGGCCT
1 GTTTGGGCTATTGTTTTATTCGGGCCT
42488656 G-TTGGGCTATT-TTTTAATTCGGGCCT
1 GTTTGGGCTATTGTTTT-ATTCGGGCCT
42488682 GTTTGGG-TA-TGTTTTA
1 GTTTGGGCTATTGTTTTA
42488698 GGTGGGTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 6 0.17
25 10 0.28
26 15 0.42
27 5 0.14
ACGTcount: A:0.09, C:0.10, G:0.28, T:0.52
Consensus pattern (27 bp):
GTTTGGGCTATTGTTTTATTCGGGCCT
Found at i:42490580 original size:41 final size:41
Alignment explanation
Indices: 42490471--42490713 Score: 158
Period size: 42 Copynumber: 5.9 Consensus size: 41
42490461 ATATTTTGGG
* * * *
42490471 GCCTTTAGCGGCGTTTTT-GACAAATCGCCGCTAATTCTC-C
1 GCCTTTAGCGGCGTTTTTCG-TAAAGCGCCGCTAATGCTCTA
*
42490511 GACCTTTTAGCGGCGATTTTCGTAAAGCGCCGCTAATGCTCTA
1 G-CC-TTTAGCGGCGTTTTTCGTAAAGCGCCGCTAATGCTCTA
* * *
42490554 GCCTTTAGCGGC-TTTTTCTTATAAGCGCCGCTAATGTTCTT
1 GCCTTTAGCGGCGTTTTTCGTA-AAGCGCCGCTAATGCTCTA
* * * * *
42490595 GCCTTTAGCGGCGTTTTTTGGAAAAGCGCCGGTAATACTGT-
1 GCCTTTAGCGGCG-TTTTTCGTAAAGCGCCGCTAATGCTCTA
* * * * *
42490636 GTCATTTAGCGGCGCTTGTTT--AAAAACGCCGCTATTGTTCGT-
1 G-CCTTTAGCGGCG-TT-TTTCGTAAAGCGCCGCTAATGCTC-TA
* * *
42490678 TCTTTTAGCGGCGTTTTTTGTGAAAGCGCCGCTAAT
1 GCCTTTAGCGGCGTTTTTCGT-AAAGCGCCGCTAAT
42490714 AATAAAATCT
Statistics
Matches: 161, Mismatches: 29, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
39 3 0.02
40 10 0.06
41 65 0.40
42 72 0.45
43 11 0.07
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (41 bp):
GCCTTTAGCGGCGTTTTTCGTAAAGCGCCGCTAATGCTCTA
Found at i:42490621 original size:83 final size:82
Alignment explanation
Indices: 42490516--42490714 Score: 215
Period size: 83 Copynumber: 2.4 Consensus size: 82
42490506 TCTCCGACCT
* * * * * * * * *
42490516 TTTAGCGGCGATTTTCGTAAAGCGCCGCTAATGCTCTAG-CCTTTAGCGGC-TTTTTCTTATAAG
1 TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATACTCT-GTCATTTAGCGGCGCTTGT-TTAAAAA
42490579 CGCCGCTAATGTTC-TTGCC
64 CGCCGCTAATGTTCGTT-CC
* *
42490598 TTTAGCGGCGTTTTTTGGAAAAGCGCCGGTAATACTGTGTCATTTAGCGGCGCTTGTTTAAAAAC
1 TTTAGCGGCGTTTTTTGG-AAAGCGCCGCTAATACTCTGTCATTTAGCGGCGCTTGTTTAAAAAC
* *
42490663 GCCGCTATTGTTCGTTCT
65 GCCGCTAATGTTCGTTCC
42490681 TTTAGCGGCGTTTTTTGTGAAAGCGCCGCTAATA
1 TTTAGCGGCGTTTTTTG-GAAAGCGCCGCTAATA
42490715 ATAAAATCTA
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
82 16 0.16
83 76 0.78
84 6 0.06
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTTGGAAAGCGCCGCTAATACTCTGTCATTTAGCGGCGCTTGTTTAAAAACG
CCGCTAATGTTCGTTCC
Found at i:42490625 original size:42 final size:41
Alignment explanation
Indices: 42490471--42490713 Score: 178
Period size: 41 Copynumber: 5.9 Consensus size: 41
42490461 ATATTTTGGG
* *
42490471 GCCTTTAGCGGCG-TTTTTGACAAATCGCCGCTAA--TTCTCC
1 GCCTTTAGCGGCGTTTTTTGA-AAAGCGCCGCTAATGTTCT-T
* * * * *
42490511 GACCTTTTAGCGGCGATTTTCGTAAAGCGCCGCTAATGCTCTA
1 G-CC-TTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGTTCTT
* *
42490554 GCCTTTAGCGGC-TTTTTCTTATAAGCGCCGCTAATGTTCTT
1 GCCTTTAGCGGCGTTTTT-TGAAAAGCGCCGCTAATGTTCTT
* *
42490595 GCCTTTAGCGGCGTTTTTTGGAAAAGCGCCGGTAA--TACTGT
1 GCCTTTAGCGGCGTTTTTT-GAAAAGCGCCGCTAATGTTCT-T
* * * *
42490636 GTCATTTAGCGGCGCTTGTTT-AAAAACGCCGCTATTGTTCGTT
1 G-CCTTTAGCGGCG-TTTTTTGAAAAGCGCCGCTAATGTTC-TT
* *
42490679 -CTTTTAGCGGCGTTTTTTGTGAAAGCGCCGCTAAT
1 GCCTTTAGCGGCGTTTTTTG-AAAAGCGCCGCTAAT
42490714 AATAAAATCT
Statistics
Matches: 160, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
40 13 0.08
41 65 0.41
42 64 0.40
43 14 0.09
44 4 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (41 bp):
GCCTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGTTCTT
Found at i:42491692 original size:27 final size:28
Alignment explanation
Indices: 42491648--42491707 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
42491638 ATAGAAAAAG
* * *
42491648 ATATA-TATGCAACGATATATATATGTT
1 ATATATTATGAAACGATATAAATATATT
42491675 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACGATATAAATATATT
42491702 A-ATATT
1 ATATATT
42491708 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
ATATATTATGAAACGATATAAATATATT
Found at i:42492387 original size:115 final size:116
Alignment explanation
Indices: 42492135--42492398 Score: 273
Period size: 116 Copynumber: 2.3 Consensus size: 116
42492125 GCTCGGGGCT
* * * * *
42492135 TTAGCGGCGGTTTTTCCTA-AAACGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTCTG
1 TTAGCGGC-GTTTTT-ATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATG
* * * *
42492199 CTCTGGTCGAAAAGTTCGACAAAATGACGTCGCTTTGATGATGTTTACCGGTA
64 ATCTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGATGTTTACCGGTA
* * * * *
42492252 TTAGCGGCGGTTTTACATAAACGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTAT
1 TTAGCGGCGTTTTTATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
* * * * **
42492317 TTGGTTG-AAAGTTAGACAAAAAGACATCGTTTTTAT-ACTGTTTATTGGTA
66 CTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGA-TGTTTACCGGTA
*
42492367 TTAGCGGCGTTTTTTTATAAAAACGCCGCAAA
1 TTAGCGGCG--TTTTTATATAAACGCCGCAAA
42492399 GGAAATAAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
114 1 0.01
115 44 0.37
116 49 0.41
117 26 0.22
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (116 bp):
TTAGCGGCGTTTTTATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
CTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGATGTTTACCGGTA
Found at i:42493870 original size:21 final size:20
Alignment explanation
Indices: 42493846--42493884 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
42493836 CAATTTCTCT
42493846 CTGAAATCCCTAAGTGTTTCA
1 CTGAAATCCCTAAG-GTTTCA
42493867 CTGAAATCCCTAAGGTTT
1 CTGAAATCCCTAAGGTTT
42493885 TTTCCTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
CTGAAATCCCTAAGGTTTCA
Found at i:42494414 original size:29 final size:28
Alignment explanation
Indices: 42494372--42494427 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
42494362 TCTGAAGGTA
42494372 CAAATATATATGTAGGAAAATTTGATGTG
1 CAAATATATATGTAGGAAAATTT-ATGTG
42494401 CAAATATATATGTAGGAAAATTTATGT
1 CAAATATATATGTAGGAAAATTTATGT
42494428 TTTCTGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (28 bp):
CAAATATATATGTAGGAAAATTTATGTG
Found at i:42494426 original size:14 final size:14
Alignment explanation
Indices: 42494380--42494427 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
42494370 TACAAATATA
42494380 TATGTAGGAAAATT
1 TATGTAGGAAAATT
* *
42494394 TGATGT-GCAAATATA
1 T-ATGTAGGAAA-ATT
42494409 TATGTAGGAAAATT
1 TATGTAGGAAAATT
42494423 TATGT
1 TATGT
42494428 TTTCTGCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (14 bp):
TATGTAGGAAAATT
Found at i:42496823 original size:21 final size:21
Alignment explanation
Indices: 42496798--42496862 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
42496788 CAACAACTTA
*
42496798 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
42496819 AAGCAGGGGCTA-CAGCGAGAG
1 AAGCAGAGGC-AGCAGCGAGAG
* *
42496840 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCAGCAGCGAGAG
42496861 AA
1 AA
42496863 ACAGCGAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:42497424 original size:85 final size:83
Alignment explanation
Indices: 42497326--42497596 Score: 332
Period size: 85 Copynumber: 3.2 Consensus size: 83
42497316 GTTTGTGAAA
* * *
42497326 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACCAAACGCTGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-ACCAAACGCCGCTAAAGAACATG
42497389 A-CTTTTAGCGGCGTTTTCTTCC
63 ATC-TTTAGCGGCGTTTT-TTCC
* * *
42497411 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCCAAGCGCCGCTAGAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTT-ACCAAACGCCGCTAAAGAACATGA
42497476 TCTTTAGCGGCGTTTTTTCC
64 TCTTTAGCGGCGTTTTTTCC
* * * *
42497496 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTCATAAAGTGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAC-CAAA-CGCCGCTAAAGAACATGA
42497561 TCTTTAGCGGCGTTTATTTCC
64 TCTTTAGCGGCGTTT-TTTCC
*
42497582 TTAGCGCCGCTAAAG
1 TAAGCGCCGCTAAAG
42497597 GCCTAAAAAA
Statistics
Matches: 166, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
83 1 0.01
84 8 0.05
85 97 0.58
86 59 0.36
87 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTACCAAACGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTCC
Found at i:42497524 original size:128 final size:129
Alignment explanation
Indices: 42497327--42497596 Score: 347
Period size: 128 Copynumber: 2.1 Consensus size: 129
42497317 TTTGTGAAAT
* * *
42497327 AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCTGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCCGCTAAAGAACATGACT
* *
42497392 TTTAGCGGCGTTTTCTTCCT-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCCC
66 TTTAGCAGCGTTTT-TTCATAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCCC
* * *
42497455 AAGCGCCGCTAGAGAACA-TGATCT-TTAGCGGCGTTTTT-TCCTAAGCGCCGCTAAAGAACATG
1 AAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC-AAACGCCGCTAAAGAACATG
*
42497517 A-TCTTTAGCAGCGTTTTTTCATAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT-
63 ACT-TTTAGCAGCGTTTTTTCATAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
*
42497580 CCT
127 CCC
*
42497583 TAGCGCCGCTAAAG
1 AAGCGCCGCTAAAG
42497597 GCCTAAAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
127 8 0.06
128 111 0.90
129 5 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (129 bp):
AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCCGCTAAAGAACATGACT
TTTAGCAGCGTTTTTTCATAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCCC
Found at i:42497591 original size:43 final size:42
Alignment explanation
Indices: 42497326--42497596 Score: 343
Period size: 43 Copynumber: 6.4 Consensus size: 42
42497316 GTTTGTGAAA
*
42497326 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* * * *
42497369 -AAACGCTGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
42497411 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CC
* *
42497454 CAAGCGCCGCTAGAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
42497496 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
42497538 TAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
*
42497582 TTAGCGCCGCTAAAG
1 TAAGCGCCGCTAAAG
42497597 GCCTAAAAAA
Statistics
Matches: 201, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.00
42 75 0.37
43 119 0.59
44 6 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:42498319 original size:25 final size:26
Alignment explanation
Indices: 42498277--42498331 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
42498267 TGCATCACAA
*
42498277 TATTTTTATAAAGATTTT-AATTAAT
1 TATTTTTATAAACATTTTAAATTAAT
* * *
42498302 TATTTTTATAATCCTTTTAAATTATT
1 TATTTTTATAAACATTTTAAATTAAT
42498328 TATT
1 TATT
42498332 ATATCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTTATAAACATTTTAAATTAAT
Found at i:42512184 original size:3 final size:3
Alignment explanation
Indices: 42512163--42512217 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
42512153 TGTACATGAA
* * *
42512163 AAT AAT GAAT AAT ATT AAT AAT AAT AAT AAT AAT AGAC AAT AAT AGT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
42512210 AAT AAT AA
1 AAT AAT AA
42512218 CAAGTAATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
3 39 0.89
4 5 0.11
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42512204 original size:19 final size:18
Alignment explanation
Indices: 42512163--42512226 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
42512153 TGTACATGAA
* *
42512163 AATAATGAATAATATTAAT
1 AATAAT-AATAATAATAAC
42512182 AATAATAATAATAATAGAC
1 AATAATAATAATAATA-AC
*
42512201 AATAATAGTAATAATAAC
1 AATAATAATAATAATAAC
42512219 AAGTAATA
1 AA-TAATA
42512227 GTACCATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 13 0.32
19 27 0.68
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAATAAC
Found at i:42512226 original size:22 final size:22
Alignment explanation
Indices: 42512178--42512226 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
42512168 TGAATAATAT
*
42512178 TAATAATAATAATAATAATAGA
1 TAATAATAATAATAATAAAAGA
* *
42512200 CAATAATAGTAATAATAACAAG-
1 TAATAATAATAATAATAA-AAGA
42512222 TAATA
1 TAATA
42512227 GTACCATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (22 bp):
TAATAATAATAATAATAAAAGA
Found at i:42514244 original size:152 final size:151
Alignment explanation
Indices: 42514035--42514319 Score: 421
Period size: 152 Copynumber: 1.9 Consensus size: 151
42514025 TGCAATGTTG
* *
42514035 GGGAAACTAGATCCGCCGTCGTAGCTTCAACCTGTTCCACCGCACCGTCAGGGAAGTAAGAT-TC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCACCGCACCGTCAAGGAAGTAAGATCT-
* * * *
42514099 GCCGCTGTGGCTTCAATCTTTGTTAATTGCAATATTAGGGAAACCAGATCCGCCGTTGTGGCTTC
65 GCCGCTGTGGCTTAAATCCTT-TTAATTGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTC
42514164 AATCTTTTTTAATTACAATATTA
129 AATCTTTTTTAATTACAATATTA
* * * * *
42514187 GGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCTACTGCACTG-CTAAGGAAGTAAGATCT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCACCGCACCGTC-AAGGAAGTAAGATCT
*
42514251 GCCGTTGTGGCTTAAATCCTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCA
65 GCCGCTGTGGCTTAAATCCTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCA
42514316 ATCT
130 ATCT
42514320 GTTCCACTGC
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
151 47 0.39
152 71 0.60
153 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (151 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCACCGCACCGTCAAGGAAGTAAGATCTG
CCGCTGTGGCTTAAATCCTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCAA
TCTTTTTTAATTACAATATTA
Found at i:42514296 original size:100 final size:100
Alignment explanation
Indices: 42514144--42514573 Score: 682
Period size: 100 Copynumber: 4.3 Consensus size: 100
42514134 TAGGGAAACC
* * *
42514144 AGATCCGCCGTTGTGGCTTCAATCTTTTTTAATTACAATATTAGGGAAACCAGATTCGCCGTCGT
1 AGATCCGCCGTTGTGGCTTCAATC-TTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGT
*
42514209 AGCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTA
65 AGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * *
42514245 AGATCTGCCGTTGTGGCTTAAATCCTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTTGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTA
42514310 GCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
66 GCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
*
42514345 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCTGTCGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTA
**
42514410 GCTTCAAT-TGTTCTGCTGCACTGCTAAGGAAGTA
66 GCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
** *
42514444 AGATCCGTTGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCACCGTCGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTA
* *
42514509 GCTTCAATCTGTTCCGCTGCACTACTAAGGAAGTA
66 GCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* *
42514544 AGATCTGCCATTGTGGCTTCAATCTTTTTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTA
42514574 CTTTTCAACC
Statistics
Matches: 303, Mismatches: 25, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
99 93 0.31
100 188 0.62
101 22 0.07
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (100 bp):
AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTA
GCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
Found at i:42514475 original size:199 final size:200
Alignment explanation
Indices: 42514144--42514573 Score: 700
Period size: 199 Copynumber: 2.1 Consensus size: 200
42514134 TAGGGAAACC
* *
42514144 AGATCCGCCGTTGTGGCTTCAATCTTTTTTAATTACAATATTAGGGAAACCAGATTCGCCGTCGT
1 AGATCCGCCGTTGTGGCTTCAATC-TTTTTAATTACAATATCAGGGAAACCAGATCCGCCGTCGT
*
42514209 AGCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTAAGATCTGCCGTTGTGGCTTAAATCCTTTT
65 AGCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTAAATCCTTTT
* * *
42514274 AATTGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAAG
130 AATTGCAATATCAGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAG
42514339 GAAGTA
195 GAAGTA
* *
42514345 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCTGTCGTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCCGCCGTCGTA
* ** * *
42514410 GCTTCAAT-TGTTCTGCTGCACTGCTAAGGAAGTAAGATCCGTTGTTGTGGCTTCAATCTTTTTA
66 GCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTAAATCCTTTTA
*
42514474 ATTGCAATATCAGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCGCTGCACTACTAAGG
131 ATTGCAATATCAGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGG
42514539 AAGTA
196 AAGTA
* *
42514544 AGATCTGCCATTGTGGCTTCAATCTTTTTA
1 AGATCCGCCGTTGTGGCTTCAATCTTTTTA
42514574 CTTTTCAACC
Statistics
Matches: 213, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 144 0.68
200 45 0.21
201 24 0.11
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (200 bp):
AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCCGCCGTCGTA
GCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTAAATCCTTTTA
ATTGCAATATCAGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTACTAAGG
AAGTA
Found at i:42514548 original size:50 final size:50
Alignment explanation
Indices: 42514043--42514568 Score: 249
Period size: 50 Copynumber: 10.5 Consensus size: 50
42514033 TGGGGAAACT
* * * * *
42514043 AGATCCGCCGTCGTAGCTTCAACCTGTTCCACCGCAC--CGTCAGGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTAC-T-AAGGAAGTA
* * * * * * * ***
42514093 AGATTCGCCGCTGTGGCTTCAATCTTTGTT-AATTGCAATATTAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATC--TGTTCAACTGCACTACTAAGGAAGTA
* * * * * * * * ***
42514144 AGATCCGCCGTTGTGGCTTCAATCTTTTTTAATTACAATATTAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATC-TGTTCAACTGCACTACTAAGGAAGTA
* * * *
42514195 AGATTCGCCGTCGTAGCTTCAATCTGTTCTACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACTAAGGAAGTA
* * * * * * * ***
42514245 AGATCTGCCGTTGTGGCTTAAATCCT-TTTAATTGCAATA-TCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAAT-CTGTTCAACTGCACTACT-AAGGAAGTA
* *
42514295 AGATCCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACTAAGGAAGTA
* * * * * * ***
42514345 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATA-TCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACT-AAGGAAGTA
* * ** *
42514395 AGATCCGCTGTCGTAGCTTCAAT-TGTTCTGCTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACTAAGGAAGTA
** * * * * * * ***
42514444 AGATCCGTTGTTGTGGCTTCAATCTTTTTAATTGCAATA-TCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACT-AAGGAAGTA
* * **
42514494 AGATCCACCGTCGTAGCTTCAATCTGTTCCGCTGCACTACTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACTAAGGAAGTA
* * *
42514544 AGATCTGCCATTGTGGCTTCAATCT
1 AGATCCGCCGTTGTAGCTTCAATCT
42514569 TTTTACTTTT
Statistics
Matches: 345, Mismatches: 117, Indels: 28
0.70 0.24 0.06
Matches are distributed among these distances:
49 38 0.11
50 225 0.65
51 77 0.22
52 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
AGATCCGCCGTTGTAGCTTCAATCTGTTCAACTGCACTACTAAGGAAGTA
Found at i:42522531 original size:20 final size:20
Alignment explanation
Indices: 42522506--42522545 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
42522496 TAAAGGTCTT
42522506 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
42522526 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
42522546 GATGCATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:42526515 original size:3 final size:3
Alignment explanation
Indices: 42526500--42526583 Score: 89
Period size: 3 Copynumber: 26.7 Consensus size: 3
42526490 TGTACATGAA
*
42526500 AAT AAT GAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAC AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* *
42526547 AGT AAT AAT AAC AAGT AAT AAT ACCAT AA- AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT A--AT AAT AAT AAT AA
42526584 CGTAAAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.03
3 57 0.83
4 7 0.10
5 3 0.04
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:42532878 original size:16 final size:15
Alignment explanation
Indices: 42532857--42532886 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42532847 AAAGAATAGC
42532857 AAATAAATAAACAACG
1 AAATAAAT-AACAACG
42532873 AAATAAATAACAAC
1 AAATAAATAACAAC
42532887 AAGGATGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AAATAAATAACAACG
Found at i:42532941 original size:15 final size:15
Alignment explanation
Indices: 42532918--42532947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42532908 AACAAGCCAA
*
42532918 TAAATAAATAAATAC
1 TAAACAAATAAATAC
42532933 TAAACAAATAAATAC
1 TAAACAAATAAATAC
42532948 ATACTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAACAAATAAATAC
Found at i:42534656 original size:44 final size:44
Alignment explanation
Indices: 42534608--42534791 Score: 115
Period size: 44 Copynumber: 4.2 Consensus size: 44
42534598 TACCTCGGGA
* * *
42534608 AGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCACCATCTTTAATCTGCTCCACTACTGCTTAAGG
* * * * * *
42534652 AGATAAGA-TCTACAATCTTCAACCTACTCCACTGCTGCTCAAGG
1 AGATAAGATTC-ACCATCTTTAATCTGCTCCACTACTGCTTAAGG
* *** * * * * * **
42534696 AGATAAGACTGGTC-GCTTAAATCTGCTTC-CTACTACCTCGGG
1 AGATAAGATTCACCATCTTTAATCTGCTCCACTACTGCTTAAGG
* *
42534738 AAGATAAGATTCGCCAT-TTTCGATCTGCTCCACTACTGCTTAAGG
1 -AGATAAGATTCACCATCTTT-AATCTGCTCCACTACTGCTTAAGG
42534783 AGATAAGAT
1 AGATAAGAT
42534792 CTACAATCTT
Statistics
Matches: 99, Mismatches: 35, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
42 7 0.07
43 25 0.25
44 57 0.58
45 10 0.10
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCACCATCTTTAATCTGCTCCACTACTGCTTAAGG
Found at i:42534733 original size:131 final size:131
Alignment explanation
Indices: 42534498--42535095 Score: 858
Period size: 131 Copynumber: 4.6 Consensus size: 131
42534488 CATGATTTTA
* * *
42534498 ATCTGCTCCGCTACTGCTTTGGGAGATAAGATCTACAATCTTCAACCTACTTCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * *
42534563 TGAGGTAGGACTGGTGGCTTAAATCTGCTTCCTATTACCTCGGGAAGATAAGATTCACCGTCTTT
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTT
42534628 G
131 G
*
42534629 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* *
42534694 GGAGATAAGACTGGTCGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCGCCAT-TTT
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTT
42534758 CG
131 -G
* *
42534760 ATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * ** * ** *
42534825 GGAGAT-AGAACTAGTGGCTTAAATCTGTTTCTTACTATCTCGAAAAGATAAAACCCACCGTCTT
66 GGAGATAAG-ACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTT
*
42534889 CG
130 TG
* * *
42534891 ATCTACTTCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * *
42534956 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCATCATTTTT
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTT
42535021 G
131 G
* * **
42535022 ATCTGCTCTACTACTTCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
42535087 GGAGATAAG
66 GGAGATAAG
42535096 GCTTGATATG
Statistics
Matches: 409, Mismatches: 54, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
130 5 0.01
131 401 0.98
132 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTT
G
Found at i:42534813 original size:44 final size:44
Alignment explanation
Indices: 42534634--42534815 Score: 127
Period size: 44 Copynumber: 4.2 Consensus size: 44
42534624 CTTTGATCTG
*
42534634 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTA
* * ***** * * *
42534678 CTCCACTGCTGCTCAAGGAGATAAGA-CTGGTCGCTTAAATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTA
* * * ** * * * * * *
42534721 CTTC-CTACTACCTCGGGAAGATAAGAT-TCGCCATTTTCGATCTG
1 CTCCACTACTGCTTAAGG-AGATAAGATCT-ACAATCTTCAACCTA
42534765 CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTA
42534809 CTCCACT
1 CTCCACT
42534816 GTTGCTCAGG
Statistics
Matches: 97, Mismatches: 36, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
42 7 0.07
43 21 0.22
44 59 0.61
45 10 0.10
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTA
Found at i:42547206 original size:4 final size:4
Alignment explanation
Indices: 42547197--42547235 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
42547187 TGAACAAGCC
* *
42547197 AATA AATA AATA AATA AATA AAT- ACTA AACA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
42547236 CATACTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:42547230 original size:15 final size:15
Alignment explanation
Indices: 42547197--42547236 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
42547187 TGAACAAGCC
* *
42547197 AATAAATAAATAAATA
1 AATAAAT-ACTAAACA
42547213 AATAAATACTAAACA
1 AATAAATACTAAACA
42547228 AATAAATAC
1 AATAAATAC
42547237 ATACTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATACTAAACA
Found at i:42547230 original size:19 final size:19
Alignment explanation
Indices: 42547203--42547243 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
42547193 AGCCAATAAA
*
42547203 TAAATAAATAAATAAATAC
1 TAAACAAATAAATAAATAC
*
42547222 TAAACAAATAAATACATAC
1 TAAACAAATAAATAAATAC
42547241 TAA
1 TAA
42547244 TATAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAACAAATAAATAAATAC
Found at i:42548100 original size:11 final size:11
Alignment explanation
Indices: 42548076--42548123 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
42548066 ATAAAAAGAT
*
42548076 AAAAAGAATCAA
1 AAAAAGAA-AAA
*
42548088 AAAAATAAAAA
1 AAAAAGAAAAA
**
42548099 AAAAAGAATCA
1 AAAAAGAAAAA
42548110 AAAAAGAAAAA
1 AAAAAGAAAAA
42548121 AAA
1 AAA
42548124 TCACCTTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:42548106 original size:23 final size:22
Alignment explanation
Indices: 42548076--42548123 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
42548066 ATAAAAAGAT
*
42548076 AAAAAGAATCAAAAAAATAAAAA
1 AAAAAGAATC-AAAAAAGAAAAA
42548099 AAAAAGAATCAAAAAAGAAAAA
1 AAAAAGAATCAAAAAAGAAAAA
42548121 AAA
1 AAA
42548124 TCACCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAGAATCAAAAAAGAAAAA
Found at i:42548114 original size:17 final size:17
Alignment explanation
Indices: 42548086--42548126 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
42548076 AAAAAGAATC
42548086 AAAAAAAT--AAAAA-A
1 AAAAAAATCAAAAAAGA
*
42548100 AAAAGAATCAAAAAAGA
1 AAAAAAATCAAAAAAGA
42548117 AAAAAAATCA
1 AAAAAAATCA
42548127 CCTTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 7 0.32
16 5 0.23
17 10 0.45
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAATCAAAAAAGA
Found at i:42550935 original size:18 final size:18
Alignment explanation
Indices: 42550897--42550932 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42550887 TTATTATTTT
*
42550897 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
42550915 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
42550933 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:42551963 original size:17 final size:17
Alignment explanation
Indices: 42551912--42551963 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
42551902 GGATCCAATG
*
42551912 GAAACACGAGAATTTTT
1 GAAACACGAAAATTTTT
42551929 GAAAACACGAAAATTTTT
1 G-AAACACGAAAATTTTT
42551947 GAAACACGAAAATTTTT
1 GAAACACGAAAATTTTT
42551964 ATAAATTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (17 bp):
GAAACACGAAAATTTTT
Found at i:42552735 original size:7 final size:7
Alignment explanation
Indices: 42552721--42552789 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
42552711 ATTTTTTTCC
42552721 TTTC-TT
1 TTTCTTT
42552727 TTTCTTT
1 TTTCTTT
42552734 TTTC-TT
1 TTTCTTT
42552740 TTTCTTT
1 TTTCTTT
42552747 CCTTT-TTT
1 --TTTCTTT
42552755 TCTTCTTT
1 T-TTCTTT
**
42552763 TTT-TCC
1 TTTCTTT
*
42552769 TTTCTTC
1 TTTCTTT
42552776 TTTCTTT
1 TTTCTTT
42552783 TTTCTTT
1 TTTCTTT
42552790 CCTTTTCCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
6 15 0.29
7 27 0.52
8 7 0.13
9 3 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:42552743 original size:19 final size:18
Alignment explanation
Indices: 42552713--42552786 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
42552703 TCCTTTTTAT
*
42552713 TTTTTTCCTTTCTTTTT-C
1 TTTTTT-CTTTTTTTTTCC
*
42552731 TTTTTTCTTTTTCTTTCC
1 TTTTTTCTTTTTTTTTCC
42552749 TTTTTTTCTTCTTTTTTTCC
1 -TTTTTTCTT-TTTTTTTCC
*
42552769 TTTCTTCTTTCTTTTTTC
1 TTTTTTCTTT-TTTTTTC
42552787 TTTCCTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.17
18 8 0.17
19 24 0.50
20 8 0.17
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTTTTTCC
Found at i:42552804 original size:24 final size:22
Alignment explanation
Indices: 42552716--42552794 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 22
42552706 TTTTTATTTT
42552716 TTTCCTTTCTTTTTCTTTTTTC
1 TTTCCTTTCTTTTTCTTTTTTC
*
42552738 TTTTTCTTTCCTTTTTTTCTTCTTTT-
1 -TTTCCTTT-C--TTTTTCTT-TTTTC
42552764 TTTCCTTTCTTCTTTCTTTTTTC
1 TTTCCTTTCTT-TTTCTTTTTTC
42552787 TTTCCTTT
1 TTTCCTTT
42552795 TCCATTTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
22 6 0.12
23 21 0.44
24 2 0.04
25 7 0.15
26 8 0.17
27 4 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCCTTTCTTTTTCTTTTTTC
Found at i:42553355 original size:29 final size:29
Alignment explanation
Indices: 42553322--42553381 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
42553312 AAAATGCAAT
* *
42553322 TTATGGAAAGTTTAAGGGCTCAAATATAA
1 TTATGAAAAGTTTAAGGGCTAAAATATAA
* *
42553351 TTATGAAAAGTTTAGGGGTTAAAATATAA
1 TTATGAAAAGTTTAAGGGCTAAAATATAA
42553380 TT
1 TT
42553382 TTTTTAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (29 bp):
TTATGAAAAGTTTAAGGGCTAAAATATAA
Found at i:42553822 original size:75 final size:75
Alignment explanation
Indices: 42553743--42554532 Score: 943
Period size: 75 Copynumber: 10.5 Consensus size: 75
42553733 GTGATTTAAA
* * * *
42553743 GCTCAATTCACCTCTCGGATTATGAGTTGATATTTGAGAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
*
42553808 GTGACTCGAG
66 GTGACCCGAG
* * * *
42553818 GCTCAACTCACCTCCCGGATTATGAGTTGATTTTTAAAAAACATAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
*
42553883 GTGACCCAAG
66 GTGACCCGAG
* * ** * *
42553893 GCTCAACTCACCACTCGCATTATGAGTTAATTTTT-TTAAA-TGAAATTGAAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTG-AAAATACCTCAGCG
*
42553956 TGTG-TCCGAG
65 TGTGACCCGAG
*
42553966 GCTCGACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
42554031 GTGACCCGAG
66 GTGACCCGAG
* * *
42554041 GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGAAAAAACAGAAATTGAAAAATACCACGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTG-AAAATACCTCAGC
* *
42554106 GTGCG-CCCGTG
64 GTGTGACCCGAG
** * * *
42554117 GCTCAA-TCATGTCTCGCATTATGAGTTGATTTTTTTTTAAAAAAAAATGAAATTGAAAAATGCC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTT-GAAAAACA-GAAATTG-AAAATACC
* * *
42554181 TC-GACATGTG-TCTGAG
59 TCAG-CGTGTGACCCGAG
* *
42554197 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTGAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
*
42554262 GTGACCTGAG
66 GTGACCCGAG
* ** * * *
42554272 GCTCAACTCACCTCTCCCATTATGAGTTGATTTTAAAAAAAATAGAAATTGAAAAATGCCTCGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTT-TGAAAAACAGAAATTG-AAAATACCTCAGC
42554337 GTGT--CCCTGAG
64 GTGTGACCC-GAG
* *
42554348 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAGCG
42554413 TGTG-CCCGAG
65 TGTGACCCGAG
* * *
42554423 GCTCAACTCATCTCTAGCATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAGCG
42554488 TGTGACCCGAG
65 TGTGACCCGAG
* *
42554499 ACTCAACTCACCTCTCGCATTATGAGTTCATTTT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTT
42554533 AAAAAAAAAT
Statistics
Matches: 621, Mismatches: 72, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
73 42 0.07
74 55 0.09
75 297 0.48
76 131 0.21
77 34 0.05
79 12 0.02
80 29 0.05
81 21 0.03
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
GTGACCCGAG
Found at i:42554253 original size:231 final size:229
Alignment explanation
Indices: 42553743--42554557 Score: 1089
Period size: 231 Copynumber: 3.6 Consensus size: 229
42553733 GTGATTTAAA
* * * *
42553743 GCTCAATTCACCTCTCGGATTATGAGTTGATATTTGAGAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* * * * *
42553808 GTGACTCGAGGCTCAACTCACCTCCCGGATTATGAGTTGATTTT-TAAAAAACATAAATTG-AAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
* * * * *
42553871 ATACCTCAGCGTGTGACCCAAGGCTCAACTCACCACTCGCATTATGAGTTAATTTTTTT-----A
131 ATACCTCGGCGTGCG-CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTAAAAAA
42553931 AATGAAATTGAAAAATACCTC-AGCATGTGTCCGAG
195 AATGAAATTGAAAAATACCTCGA-CATGTGTCCGAG
*
42553966 GCTCGACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* **
42554031 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGAAAAAACAGAAATTGAAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
* * **
42554096 ATACCACGGCGTGCGCCCGTGGCTCAA-TCATGTCTCGCATTATGAGTTGATTTTTTTTTAAAAA
131 ATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTTT-AAAA
* *
42554160 AAAATGAAATTGAAAAATGCCTCGACATGTGTCTGAG
193 AAAATGAAATTGAAAAATACCTCGACATGTGTCCGAG
* *
42554197 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTGAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* * *
42554262 GTGACCTGAGGCTCAACTCACCTCTCCCATTATGAGTTGATTTTAAAAAAAATAGAAATTGAAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
* * *
42554327 ATGCCTCGGCGTGTC-CCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAA
131 ATACCTCGGCGTG-CGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTAAAAAA
* * * *
42554390 TA-GAAATTG-AAAATACCTCGGCGTGTGCCCGAG
195 AATGAAATTGAAAAATACCTCGACATGTGTCCGAG
* * *
42554423 GCTCAACTCATCTCTAGCATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAGCG
* * *
42554488 TGTGACCCGAGACTCAACTCACCTCTCGCATTATGAGTTCATTTTAAAAAAAAATAGAAATTGAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT-AAAAAAAACAGAAATTGAA
42554553 AAATA
129 AAATA
42554558 ATTTTTGAAA
Statistics
Matches: 523, Mismatches: 54, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
223 119 0.23
224 24 0.05
225 22 0.04
226 53 0.10
227 73 0.14
228 30 0.06
229 5 0.01
231 174 0.33
232 23 0.04
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (229 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
ATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTAAAAAAA
ATGAAATTGAAAAATACCTCGACATGTGTCCGAG
Found at i:42554540 original size:151 final size:149
Alignment explanation
Indices: 42553743--42554538 Score: 940
Period size: 151 Copynumber: 5.3 Consensus size: 149
42553733 GTGATTTAAA
* * * *
42553743 GCTCAATTCACCTCTCGGATTATGAGTTGATATTTGAGAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGAT-TTTAAAAAACAGAAATTGAAAATACCTCAGCGT
* * * *
42553808 GTGACTCGAGGCTCAACTCACCTCCCGGATTATGAGTTGATTTTT-AAAAAACATAAATTGAAAA
65 GTG-CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTAAAAAAACAGAAATTGAAAA
* *
42553872 TACCTCAGCGTGTGACCCAAG
129 TACCTCGGCGTGTGACCCGAG
* * *** * *
42553893 GCTCAACTCACCACTCGCATTATGAGTTAATTTTTTTAAA-TGAAATTGAAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAACAGAAATTG-AAAATACCTCAGCGT
* * *
42553957 GTGTCCGAGGCTCGACTCACCTCTCGCATTATGAGTTGATTTTT-GAAAAACAGAAATTGAAAAT
65 GTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTAAAAAAACAGAAATTGAAAAT
*
42554021 ACCTCAGCGTGTGACCCGAG
130 ACCTCGGCGTGTGACCCGAG
* * *
42554041 GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGAAAAAACAGAAATTGAAAAATACCACGGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTT-AAAAAACAGAAATTG-AAAATACCTCAGC
* * ** *
42554106 GTGCGCCCGTGGCTCAA-TCATGTCTCGCATTATGAGTTGATTTTTTTTTAAAAAAAAATGAAAT
63 GTGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTTAAAAAAACA-GAAAT
* * * * *
42554170 TGAAAAATGCCTCGACATGTG-TCTGAG
123 TG-AAAATACCTCGGCGTGTGACCCGAG
* * *
42554197 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTGAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAACAGAAATTGAAAATACCTCAGCGT
* * * *
42554262 GTGACCTGAGGCTCAACTCACCTCTCCCATTATGAGTTGATTTTAAAAAAAATAGAAATTGAAAA
65 GTG-CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTAAAAAAACAGAAATTG-AAA
*
42554327 ATGCCTCGGCGTGT--CCCTGAG
128 ATACCTCGGCGTGTGACCC-GAG
* *
42554348 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAATAGAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTT-AAAAAACAGAAATTGAAAATACCTCAGCG
* * *
42554413 TGTGCCCGAGGCTCAACTCATCTCTAGCATTATGAGTTGATTTTTGAAAAAACAGAAATTGAAAA
64 TGTGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTAAAAAAACAGAAATTGAAAA
42554478 TACCTCGGCGTGTGACCCGAG
129 TACCTCGGCGTGTGACCCGAG
* *
42554499 ACTCAACTCACCTCTCGCATTATGAGTTCATTTTAAAAAA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAA
42554539 AAATAGAAAT
Statistics
Matches: 557, Mismatches: 72, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
148 109 0.20
149 33 0.06
150 72 0.13
151 173 0.31
152 43 0.08
154 19 0.03
155 29 0.05
156 65 0.12
157 14 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (149 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAACAGAAATTGAAAATACCTCAGCGTG
TGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTAAAAAAACAGAAATTGAAAATA
CCTCGGCGTGTGACCCGAG
Found at i:42566240 original size:17 final size:18
Alignment explanation
Indices: 42566217--42566257 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
42566207 GAAACACTAG
42566217 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
42566235 AATTTTTG-AAATACGAA
1 AATTTTTGAAAACACGAA
42566252 AATTTT
1 AATTTT
42566258 GATAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:42566264 original size:18 final size:18
Alignment explanation
Indices: 42566220--42566264 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
42566210 ACACTAGAAT
*
42566220 TTTTGA-AAACACGAAAA
1 TTTTGATAAATACGAAAA
42566237 TTTT--TGAAATACGAAAA
1 TTTTGAT-AAATACGAAAA
42566254 TTTTGATAAAT
1 TTTTGATAAAT
42566265 TACATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 18 0.78
18 4 0.17
19 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (18 bp):
TTTTGATAAATACGAAAA
Found at i:42566683 original size:20 final size:21
Alignment explanation
Indices: 42566654--42566700 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
42566644 AGAATGGGCA
42566654 TTTTTC-TCCTTT-TTCTTTT
1 TTTTTCTTCCTTTCTTCTTTT
42566673 TTTTTCTTCCTTTCTTCTTTT
1 TTTTTCTTCCTTTCTTCTTTT
42566694 TTTTTCT
1 TTTTTCT
42566701 GGCTGGGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 14 0.54
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTCTTCCTTTCTTCTTTT
Found at i:42567721 original size:17 final size:16
Alignment explanation
Indices: 42567701--42567738 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
42567691 AGAAAAGCAT
*
42567701 AAAAACAAAACAAAACA
1 AAAAAAAAAACAAAA-A
42567718 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
42567734 AAAAA
1 AAAAA
42567739 TAAGGGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:42567727 original size:12 final size:12
Alignment explanation
Indices: 42567707--42567738 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
42567697 GCATAAAAAC
*
42567707 AAAACAAAACAA
1 AAAAAAAAACAA
42567719 AAAAAAAAACAA
1 AAAAAAAAACAA
42567731 AAAAAAAA
1 AAAAAAAA
42567739 TAAGGGGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:42571187 original size:3 final size:3
Alignment explanation
Indices: 42571179--42571251 Score: 74
Period size: 3 Copynumber: 24.3 Consensus size: 3
42571169 CTCTTCTGGG
* * * * * * *
42571179 TCA TCA TCA TCA CCA CCA CCA CCA TCA TCG TCG TCG TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
*
42571227 TCA TCA TCA TCA TCA TCA TTA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
42571252 TGACTTGGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.29, C:0.37, G:0.04, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:42575390 original size:16 final size:16
Alignment explanation
Indices: 42575360--42575392 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42575350 AAATTTAGAT
42575360 TGAAAATTAATAAATA
1 TGAAAATTAATAAATA
42575376 TGAATAATTAA-AAATA
1 TGAA-AATTAATAAATA
42575392 T
1 T
42575393 TTTTGAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TGAAAATTAATAAATA
Found at i:42584950 original size:21 final size:21
Alignment explanation
Indices: 42584925--42585018 Score: 61
Period size: 21 Copynumber: 4.5 Consensus size: 21
42584915 TGTGTTTGCT
*
42584925 TTTAGTTTAGCTCTTATGAGC
1 TTTAGTTTAACTCTTATGAGC
* *
42584946 TTTAG-CTAACTCATATGAG-
1 TTTAGTTTAACTCTTATGAGC
* *
42584965 TTTCAGTTTAAC-CCTACT-AGG
1 TTT-AGTTTAACTCTTA-TGAGC
* *
42584986 TTTCAGTTTAGCTCTTTTGAGC
1 TTT-AGTTTAACTCTTATGAGC
*
42585008 TTCAGTTTAAC
1 TTTAGTTTAAC
42585019 CCTTGTGGGT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
19 3 0.05
20 18 0.32
21 29 0.52
22 6 0.11
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (21 bp):
TTTAGTTTAACTCTTATGAGC
Found at i:42585071 original size:42 final size:43
Alignment explanation
Indices: 42584959--42585077 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 43
42584949 AGCTAACTCA
* * * *
42584959 TATGAGTTTCAGTTTAACCC-TACTAGGTTTCAGTTTAGCTCTT
1 TATGAGCTTCAGTTTAACCCTTAC-GGGTTTCCGTTCAGCTCTT
**
42585002 T-TGAGCTTCAGTTTAACCCTTGTGGGTTTCCGTTCAGCT-TT
1 TATGAGCTTCAGTTTAACCCTTACGGGTTTCCGTTCAGCTCTT
* *
42585043 TATGAGCTTCTGTTTAACCCTTACGGGTTTTCGTT
1 TATGAGCTTCAGTTTAACCCTTACGGGTTTCCGTT
42585078 TAACACTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.05
42 59 0.92
43 2 0.03
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTACGGGTTTCCGTTCAGCTCTT
Found at i:42589075 original size:18 final size:18
Alignment explanation
Indices: 42589054--42589092 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42589044 GATTGAGAGT
* *
42589054 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
42589072 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
42589090 GAA
1 GAA
42589093 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:42597560 original size:44 final size:43
Alignment explanation
Indices: 42597471--42597564 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 43
42597461 ACAGTCGCAC
42597471 ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
1 ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
* *
42597514 ATTAGTAATTAACGATTTTGTTCCC-ACTGTAAACTTCCTACCAT
1 ATTAGTAATTAACGA--TTCTTCCCTACTGTAAACTTCCTACAAT
42597558 ATTAGTA
1 ATTAGTA
42597565 CACCGTCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 15 0.32
44 25 0.53
45 7 0.15
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (43 bp):
ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
Found at i:42597638 original size:2 final size:2
Alignment explanation
Indices: 42597625--42597659 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
42597615 AACCTGGTAA
*
42597625 AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
42597660 TGTCAACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:42599831 original size:24 final size:24
Alignment explanation
Indices: 42599804--42599851 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
42599794 TTTTGCAAAC
42599804 TAAACCAAACCA-AAAATAAATAAA
1 TAAA-CAAACCAGAAAATAAATAAA
* *
42599828 TAAATAAACCAGAAAATTAATAAA
1 TAAACAAACCAGAAAATAAATAAA
42599852 AGTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (24 bp):
TAAACAAACCAGAAAATAAATAAA
Found at i:42610995 original size:7 final size:7
Alignment explanation
Indices: 42610983--42611033 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
42610973 TGCCTTCTTC
42610983 TCCCCTT
1 TCCCCTT
42610990 TCCCCTT
1 TCCCCTT
42610997 TCCCCTT
1 TCCCCTT
42611004 T-CCC-T
1 TCCCCTT
42611009 TCCCC-T
1 TCCCCTT
42611015 T-CCCTT
1 TCCCCTT
*
42611021 TTCCC-T
1 TCCCCTT
42611027 TCCCCTT
1 TCCCCTT
42611034 GGATTGCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 5 0.13
6 15 0.38
7 19 0.49
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (7 bp):
TCCCCTT
Found at i:42611014 original size:6 final size:6
Alignment explanation
Indices: 42610983--42611033 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
42610973 TGCCTTCTTC
* * *
42610983 TCCCCTT TCCCCTT TCCCCT TTCCCT TCCCCT TCCCTT TTCCCT TCCCCT
1 TCCCC-T TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
42611033 T
1 T
42611034 GGATTGCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
6 26 0.68
7 12 0.32
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:42611023 original size:18 final size:18
Alignment explanation
Indices: 42610989--42611033 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
42610979 CTTCTCCCCT
42610989 TTCCCCTTTCCCCTTTCCC
1 TTCCCC-TTCCCCTTTCCC
*
42611008 TTCCCCTTCCCTTTTCCC
1 TTCCCCTTCCCCTTTCCC
42611026 TTCCCCTT
1 TTCCCCTT
42611034 GGATTGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCCCCTTCCCCTTTCCC
Found at i:42611127 original size:25 final size:25
Alignment explanation
Indices: 42611093--42611142 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
42611083 CAGGTAAGGC
42611093 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
42611118 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
42611143 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Done.