Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 44 of 207
Found at i:12895041 original size:159 final size:159
Alignment explanation
Indices: 12894765--12895123 Score: 436
Period size: 159 Copynumber: 2.3 Consensus size: 159
12894755 GCCATGACTC
* * * * *
12894765 TGAAAAAGACCATATCGTGTAAGATCGTAGCTGGTGGGTTATGGCATCATATGGAAATAAGATCA
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGGAAAGAAGACCA
* ** ** * * * *
12894830 TCTTGTGTAAAACTGTAATTGGTGGGTTATGGCATCATATGGTAAGAAGACCATATCATGGAAGA
66 TATCATGTAAAACCATAACTAGTGGGTTATGGAATCATATGGTAAGAAGACCATATCATGCAAGA
* * *
12894895 TCGTAACTGGTAGGTTATGGCATCATATG
131 TCATAACTAGTAGGTTATGGCATCATACG
* *
12894924 TGAAGAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCATATGGGAAGAAGACCA
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGGAAAGAAGACCA
* * *
12894989 TATCATGTAAGACCATAACTAGTGGGTTATGGAATTATATAGG-AAGAAGACCATATCGTGCAAG
66 TATCATGTAAAACCATAACTAGTGGGTTATGGAATCATAT-GGTAAGAAGACCATATCATGCAAG
* * * *
12895053 GTTATAACTAGTGGGTTATGGCATTATACG
130 ATCATAACTAGTAGGTTATGGCATCATACG
* *
12895083 AGAAGAAGGCCATA--GTGTAAGATCATAACTGGTGGGTTATG
1 TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATG
12895124 ACATTATACG
Statistics
Matches: 170, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
157 26 0.15
159 142 0.84
160 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (159 bp):
TGAAGAAGACCATATCGTGTAAGATCATAACTGGTGGGTTATGGCATCATATGGAAAGAAGACCA
TATCATGTAAAACCATAACTAGTGGGTTATGGAATCATATGGTAAGAAGACCATATCATGCAAGA
TCATAACTAGTAGGTTATGGCATCATACG
Found at i:12895325 original size:57 final size:57
Alignment explanation
Indices: 12895255--12895372 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
12895245 CTAGTGAAAA
* * * *
12895255 GACAACCTTTGTGGTAAAACTCTAGAAAAGTAAGCCTATGTGGCGAACCTGCTAAAG
1 GACAAACTTTGTGGAAAAACTCTAGAAAAGTAAGCCTATGTGACGAACATGCTAAAG
* * * *
12895312 GACAAACTTTGTGGAAAAACTCTAGAAAGGTAAGCCTTTGTGATGAACATGTTAAAG
1 GACAAACTTTGTGGAAAAACTCTAGAAAAGTAAGCCTATGTGACGAACATGCTAAAG
12895369 GACA
1 GACA
12895373 GCCTTAGTAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (57 bp):
GACAAACTTTGTGGAAAAACTCTAGAAAAGTAAGCCTATGTGACGAACATGCTAAAG
Found at i:12895350 original size:29 final size:29
Alignment explanation
Indices: 12895260--12895353 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
12895250 GAAAAGACAA
* *
12895260 CCTTTGTGGTAAAACTCTAGAAAAGTAAG
1 CCTTTGTGGAAAAACTCTAGAAAGGTAAG
* ** * *
12895289 CCTATGTGGCGAACCTGCT--AAAGG-ACAA
1 CCTTTGTGGAAAAACT-CTAGAAAGGTA-AG
*
12895317 ACTTTGTGGAAAAACTCTAGAAAGGTAAG
1 CCTTTGTGGAAAAACTCTAGAAAGGTAAG
12895346 CCTTTGTG
1 CCTTTGTG
12895354 ATGAACATGT
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
27 3 0.06
28 16 0.34
29 25 0.53
30 3 0.06
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (29 bp):
CCTTTGTGGAAAAACTCTAGAAAGGTAAG
Found at i:12895388 original size:57 final size:57
Alignment explanation
Indices: 12895270--12895423 Score: 173
Period size: 57 Copynumber: 2.7 Consensus size: 57
12895260 CCTTTGTGGT
* * * * * *
12895270 AAAACTCTAGAAAAGTAAGCCTATGTGGCGAACCTGCTAAAGGACAAACTTTGTGGA
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGACAAACTTAGTAGA
* * ** *
12895327 AAAACTCTAGAAAGGTAAGCCTTTGTGATGAACATGTTAAAGGACAGCCTTAGTAGC
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGACAAACTTAGTAGA
* * * *
12895384 AAAACTTTGGAGAGGTAAGCTTTTGTGGTGAACCTGTTAA
1 AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGTTAA
12895424 TTGTGGCAAC
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 80 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (57 bp):
AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGACAAACTTAGTAGA
Found at i:12901202 original size:39 final size:35
Alignment explanation
Indices: 12901118--12901212 Score: 82
Period size: 37 Copynumber: 2.5 Consensus size: 35
12901108 TTCGACTATG
*
12901118 TGTCGATGAGTGTTGGGCACAACATTTACTTCAGT
1 TGTCGATGAGCGTTGGGCACAACATTTACTTCAGT
* * *
12901153 TATACCGATGAGCGTTGGGCACAATGTATTTACTTCGGAT
1 TGT--CGATGAGCGTTGGGCACAA--CATTTACTTCAG-T
*
12901193 TGTCTGATGAGGCATTGGGC
1 TGTC-GATGA-GCGTTGGGC
12901213 GTCAAGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
35 2 0.04
37 18 0.38
38 1 0.02
39 15 0.32
40 11 0.23
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (35 bp):
TGTCGATGAGCGTTGGGCACAACATTTACTTCAGT
Found at i:12910669 original size:12 final size:13
Alignment explanation
Indices: 12910652--12910680 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12910642 AAATTGAAAG
12910652 AAAATAAAAA-CT
1 AAAATAAAAATCT
12910664 AAAATAAAAATCT
1 AAAATAAAAATCT
12910677 AAAA
1 AAAA
12910681 CTAACTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATCT
Found at i:12911852 original size:27 final size:28
Alignment explanation
Indices: 12911804--12911869 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
12911794 TAGTAATTTT
*
12911804 TATTGAATTT-CATACTTTAATTA-TAAAA
1 TATTGAATTTGC--ACTTAAATTATTAAAA
12911832 TAATT-AATTTGCACTTAAATTATTAAAA
1 T-ATTGAATTTGCACTTAAATTATTAAAA
12911860 TATTGAATTT
1 TATTGAATTT
12911870 TATTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 12 0.36
28 17 0.52
29 4 0.12
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (28 bp):
TATTGAATTTGCACTTAAATTATTAAAA
Found at i:12922390 original size:24 final size:25
Alignment explanation
Indices: 12922363--12922452 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 25
12922353 TCCTAATTAC
12922363 GGCTCT-TATGAGCTTCCCGGTTTT
1 GGCTCTCTATGAGCTTCCCGGTTTT
* ** *
12922387 GGCT-TGTATGAGCTTTTCGATATTT
1 GGCTCTCTATGAGCTTCCCGGT-TTT
12922412 GGCTCTCT-TGAGCTTCCC-GTTTAT
1 GGCTCTCTATGAGCTTCCCGGTTT-T
*
12922436 GGCTC-GTATGAGCTTCC
1 GGCTCTCTATGAGCTTCC
12922453 TGATAATTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 4 0.08
24 32 0.60
25 15 0.28
26 2 0.04
ACGTcount: A:0.11, C:0.23, G:0.24, T:0.41
Consensus pattern (25 bp):
GGCTCTCTATGAGCTTCCCGGTTTT
Found at i:12922416 original size:49 final size:49
Alignment explanation
Indices: 12922363--12922500 Score: 138
Period size: 49 Copynumber: 2.8 Consensus size: 49
12922353 TCCTAATTAC
* * *
12922363 GGCTCTTATGAGCTTCCCGGTTT-TGGCTTGTATGAGCTT-TTCGATATTT
1 GGCTCTTATGAGCTTCCC-GTTTATGGCTCGTATGAGCTTCCT-GATAATT
12922412 GGCTCTCT-TGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCTGATAATT
1 GGCTCT-TATGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCTGATAATT
* * ** * *
12922461 GGCTCATATAAGCTTCTTGTTATATGGCTCGAAAGAGCTT
1 GGCTCTTATGAGCTTCCCGTT-TATGGCTCGTATGAGCTT
12922501 TCATATTACA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
48 5 0.07
49 52 0.69
50 18 0.24
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (49 bp):
GGCTCTTATGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCTGATAATT
Found at i:12922488 original size:25 final size:25
Alignment explanation
Indices: 12922433--12922490 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
12922423 GCTTCCCGTT
* *
12922433 TATGGCTCGTATGAGCTTCCTGATA
1 TATGGCTCATATAAGCTTCCTGATA
* *
12922458 -ATTGGCTCATATAAGCTTCTTGTTA
1 TA-TGGCTCATATAAGCTTCCTGATA
12922483 TATGGCTC
1 TATGGCTC
12922491 GAAAGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.04
25 25 0.93
26 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (25 bp):
TATGGCTCATATAAGCTTCCTGATA
Found at i:12927836 original size:20 final size:21
Alignment explanation
Indices: 12927795--12927859 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
12927785 AACATTATTA
*
12927795 AAATTTATAAAAAT-ATGAAAT
1 AAATTTATAAAAATAAT-TAAT
12927816 AAATTTA-AAAAATAATTAAT
1 AAATTTATAAAAATAATTAAT
* *
12927836 -AATTAATAAAAATATTTAA-
1 AAATTTATAAAAATAATTAAT
12927855 AAATT
1 AAATT
12927860 AAGTTTAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.13
20 24 0.63
21 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTATAAAAATAATTAAT
Found at i:12928601 original size:28 final size:27
Alignment explanation
Indices: 12928553--12928608 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
12928543 AGTTTATAAA
* *
12928553 TTTTTTAAAAAGTTAGTTTTTTTTTAAT
1 TTTTTTAAAAAATAAG-TTTTTTTTAAT
12928581 TTTTTTAAAAAAATAAG-TTTTTTTAAT
1 TTTTTT-AAAAAATAAGTTTTTTTTAAT
12928608 T
1 T
12928609 AAGCTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 6 0.24
29 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTTTTAAAAAATAAGTTTTTTTTAAT
Found at i:12930346 original size:31 final size:31
Alignment explanation
Indices: 12930238--12930372 Score: 84
Period size: 31 Copynumber: 4.4 Consensus size: 31
12930228 AAAAAAAGTC
*
12930238 GGTACCAAATTAGGAAAAAGAGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* *
12930269 GGTATCAAATT-GGACTCTAAAA-----AAGTTCA
1 GGTACCAAATTAGGA----AAAAGTGTCAAGTTTA
* ** *
12930298 AGTACCAACGTAAGAAAAAGTGTCAAGTTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* * *
12930329 GGTACCAAATTAGGAAAAATTGTAAAATTTA
1 GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
* *
12930360 GTTATCAAATTAG
1 GGTACCAAATTAG
12930373 ACAAAAAAAG
Statistics
Matches: 77, Mismatches: 17, Indels: 20
0.68 0.15 0.18
Matches are distributed among these distances:
26 4 0.05
29 13 0.17
30 5 0.06
31 51 0.66
34 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (31 bp):
GGTACCAAATTAGGAAAAAGTGTCAAGTTTA
Found at i:12930407 original size:91 final size:90
Alignment explanation
Indices: 12930238--12930406 Score: 205
Period size: 91 Copynumber: 1.9 Consensus size: 90
12930228 AAAAAAAGTC
* * * *
12930238 GGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTATCAAATTGGACTCTAAAAAAGTTCAAGTAC
1 GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGAC-CAAAAAAAGTTCAAGTAC
*
12930303 CAACGTAAGAAAAAGTGTCAAGTTTA
65 CAAAGTAAGAAAAAGTGTCAAGTTTA
** * * *
12930329 GGTACCAAATTAGGAAAAATTGTAAAATTTAGTTATCAAATTAGA-CAAAAAAAGATTTAGGTAC
1 GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGACCAAAAAAAG-TTCAAGTAC
* *
12930393 TAAATTAAGAAAAA
65 CAAAGTAAGAAAAA
12930407 ACAAATATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
89 8 0.12
90 18 0.28
91 39 0.60
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.25
Consensus pattern (90 bp):
GGTACCAAATTAGGAAAAAGAGTAAAATTTAGGTATCAAATTAGACCAAAAAAAGTTCAAGTACC
AAAGTAAGAAAAAGTGTCAAGTTTA
Found at i:12934189 original size:21 final size:21
Alignment explanation
Indices: 12934163--12934224 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
12934153 TAACGAGACT
*
12934163 GTTGATGTGGCAAGCTAACTA
1 GTTGATGTGGCAAGTTAACTA
*
12934184 GTTGATGTGACCAA-TTAACTA
1 GTTGATGTG-GCAAGTTAACTA
* *
12934205 GCTGATGTGGCCAGTTAACT
1 GTTGATGTGGCAAGTTAACT
12934225 TGCCATGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (21 bp):
GTTGATGTGGCAAGTTAACTA
Found at i:12935371 original size:15 final size:15
Alignment explanation
Indices: 12935312--12935371 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
12935302 TGTCTGATTT
* *
12935312 TGATATGTCTGATAG
1 TGATGTGTCTAATAG
* *
12935327 TGATGTGTCTATTAA
1 TGATGTGTCTAATAG
*
12935342 TGATGTATCTAATAG
1 TGATGTGTCTAATAG
*
12935357 TGATGTGGCTAATAG
1 TGATGTGTCTAATAG
12935372 GATAAGGGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (15 bp):
TGATGTGTCTAATAG
Found at i:12938902 original size:3 final size:3
Alignment explanation
Indices: 12938894--12938952 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
12938884 TTATTTTTTC
12938894 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
12938942 TCA TCA TCA TC
1 TCA TCA TCA TC
12938953 TTCTTCTTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:12938957 original size:3 final size:3
Alignment explanation
Indices: 12938951--12938984 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12938941 ATCATCATCA
12938951 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
12938985 TTGCCAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:12940186 original size:13 final size:14
Alignment explanation
Indices: 12940168--12940202 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
12940158 ATGGGGGTAG
12940168 GATTCTGTATATCT
1 GATTCTGTATATCT
*
12940182 G-TTCTGCATATCT
1 GATTCTGTATATCT
12940195 GATTCTGT
1 GATTCTGT
12940203 TATTTGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:12940659 original size:25 final size:27
Alignment explanation
Indices: 12940615--12940665 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
12940605 TAAAAGAAAA
* *
12940615 AAAAAGAAATAGAAACGAAACAGGGAG
1 AAAAAGAAATAGAAAAGAAAAAGGGAG
12940642 AAAAAG-AA-AGAAAAGAAAAAGGGA
1 AAAAAGAAATAGAAAAGAAAAAGGGA
12940666 AAGAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.69, C:0.04, G:0.25, T:0.02
Consensus pattern (27 bp):
AAAAAGAAATAGAAAAGAAAAAGGGAG
Found at i:12940676 original size:25 final size:25
Alignment explanation
Indices: 12940599--12940676 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
12940589 AAGTAAATAT
* *
12940599 AATAAATAAAAGAAAAA--AAAAGA
1 AATAAAGAAAAGAAAAAGGGAAAGA
* *
12940622 AAT--AGAAACGAAACAGGGAGAA-A
1 AATAAAGAAAAGAAAAAGGGA-AAGA
*
12940645 AAGAAAGAAAAGAAAAAGGGAAAGA
1 AATAAAGAAAAGAAAAAGGGAAAGA
12940670 AATAAAG
1 AATAAAG
12940677 GAGAAGTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
21 9 0.22
23 7 0.17
24 4 0.10
25 21 0.51
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (25 bp):
AATAAAGAAAAGAAAAAGGGAAAGA
Found at i:12941394 original size:11 final size:11
Alignment explanation
Indices: 12941378--12941402 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12941368 TGAATTGGTA
12941378 TATATATTGAT
1 TATATATTGAT
12941389 TATATATTGAT
1 TATATATTGAT
12941400 TAT
1 TAT
12941403 TTGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATATTGAT
Found at i:12943835 original size:22 final size:22
Alignment explanation
Indices: 12943810--12943879 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
12943800 ATTTTTTTTA
12943810 ATTAATAATAATATATTTTATT
1 ATTAATAATAATATATTTTATT
* ** *
12943832 ATTAATAATATTATAAATTAAT
1 ATTAATAATAATATATTTTATT
12943854 ATTAA-AATAATATATTTTTATT
1 ATTAATAATAATATA-TTTTATT
12943876 ATTA
1 ATTA
12943880 TCATATAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 8 0.21
22 31 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTAATAATAATATATTTTATT
Found at i:12943864 original size:11 final size:12
Alignment explanation
Indices: 12943828--12943866 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
12943818 TAATATATTT
*
12943828 TATTATTAATAA
1 TATTATAAATAA
12943840 TATTATAAATTAA
1 TATTATAAA-TAA
12943853 TATTA-AAATAA
1 TATTATAAATAA
12943864 TAT
1 TAT
12943867 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 6 0.24
12 11 0.44
13 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTATAAATAA
Found at i:12943910 original size:22 final size:24
Alignment explanation
Indices: 12943807--12943911 Score: 71
Period size: 22 Copynumber: 4.4 Consensus size: 24
12943797 TGAATTTTTT
*
12943807 TTAATTAATAATA-ATATATT-TTA
1 TTAATTAATAATATATA-ATTAATA
12943830 TT-ATTAATAATATTATAAATTAATA
1 TTAATTAATAATA-TAT-AATTAATA
** *
12943855 TTAA--AATAATATATTTTTATTA
1 TTAATTAATAATATATAATTAATA
12943877 TTATCATATAATAATA-A-AATTAATA
1 TTA--AT-TAATAATATATAATTAATA
12943902 TTAATTAATA
1 TTAATTAATA
12943912 TAATAGTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
22 23 0.35
23 7 0.11
24 13 0.20
25 13 0.20
26 2 0.03
27 7 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAATTAATAATATATAATTAATA
Found at i:12945279 original size:43 final size:43
Alignment explanation
Indices: 12945231--12945325 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
12945221 AAATAGCATA
12945231 ATATATTAATATTTAATAAATTTATAAAATTGAATATAATTTG
1 ATATATTAATATTTAATAAATTTATAAAATTGAATATAATTTG
12945274 ATATATTAATATTTAATAAATTTATAAAATTGAATATAATTTG
1 ATATATTAATATTTAATAAATTTATAAAATTGAATATAATTTG
*
12945317 ATAAATTAA
1 ATATATTAA
12945326 AATAATAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (43 bp):
ATATATTAATATTTAATAAATTTATAAAATTGAATATAATTTG
Found at i:12945300 original size:8 final size:9
Alignment explanation
Indices: 12945241--12945323 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
12945231 ATATATTAAT
12945241 ATTTAATAA
1 ATTTAATAA
12945250 ATTT-ATAAA
1 ATTTAAT-AA
*
12945259 ATTGAATATA
1 ATTTAATA-A
* *
12945269 ATTTGATAT
1 ATTTAATAA
12945278 A-TTAAT--
1 ATTTAATAA
12945284 ATTTAATAA
1 ATTTAATAA
12945293 ATTT-ATAAA
1 ATTTAAT-AA
*
12945302 ATTGAATATA
1 ATTTAATA-A
*
12945312 ATTTGATAA
1 ATTTAATAA
12945321 ATT
1 ATT
12945324 AAAATAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
6 1 0.02
7 5 0.09
8 8 0.14
9 25 0.44
10 18 0.32
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (9 bp):
ATTTAATAA
Found at i:12945320 original size:20 final size:18
Alignment explanation
Indices: 12945245--12945321 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 18
12945235 ATTAATATTT
12945245 AATAAATTTATAAAATTG
1 AATAAATTTATAAAATTG
*
12945263 AATATAATTTGATATATTAATATTT
1 AATA-AA-TT--TATA--AA-ATTG
12945288 AATAAATTTATAAAATTG
1 AATAAATTTATAAAATTG
12945306 AATATAATTTGATAAA
1 AATA-AATTT-ATAAA
12945322 TTAAAATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
18 11 0.23
19 9 0.19
20 7 0.15
21 4 0.08
22 4 0.08
23 2 0.04
24 4 0.08
25 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
AATAAATTTATAAAATTG
Found at i:12945841 original size:15 final size:15
Alignment explanation
Indices: 12945821--12945850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12945811 TATTTGATAG
*
12945821 TTTTAATATTATTTA
1 TTTTAATAATATTTA
12945836 TTTTAATAATATTTA
1 TTTTAATAATATTTA
12945851 CATAATTGTG
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATAATATTTA
Found at i:12950277 original size:27 final size:27
Alignment explanation
Indices: 12950247--12950404 Score: 163
Period size: 27 Copynumber: 5.9 Consensus size: 27
12950237 AAAAGATACT
* *
12950247 CTTTCATATTGTGCCATAAAGGTGTTC
1 CTTTCATATTGCGCCACAAAGGTGTTC
* * *
12950274 CTTTTATATTGTGCCACAAAGGGGTTC
1 CTTTCATATTGCGCCACAAAGGTGTTC
* * *
12950301 TTTTCATATTGCGACACAAAGGCGTTC
1 CTTTCATATTGCGCCACAAAGGTGTTC
* * * *
12950328 ATTTCATATTGCGCTACAAAAGCGTTC
1 CTTTCATATTGCGCCACAAAGGTGTTC
* * * *
12950355 TTTTCATATTACACCACAAAGGTATTC
1 CTTTCATATTGCGCCACAAAGGTGTTC
*
12950382 CTTTCATATTGAGCCACAAAGGT
1 CTTTCATATTGCGCCACAAAGGT
12950405 TTTCTTTTAG
Statistics
Matches: 108, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
CTTTCATATTGCGCCACAAAGGTGTTC
Found at i:12950306 original size:54 final size:54
Alignment explanation
Indices: 12950248--12950412 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 54
12950238 AAAGATACTC
* * * * *
12950248 TTTCATATTGTGCCATAAAGGTGTTCCTTTTATATTGTGCCACAAAGGGGTTCT
1 TTTCATATTGCGCCACAAAGGTGTTCCTTTCATATTGAGCCACAAAGGCGTTCT
* * * * * *
12950302 TTTCATATTGCGACACAAAGGCGTTCATTTCATATTGCGCTACAAAAGCGTTCT
1 TTTCATATTGCGCCACAAAGGTGTTCCTTTCATATTGAGCCACAAAGGCGTTCT
* * * **
12950356 TTTCATATTACACCACAAAGGTATTCCTTTCATATTGAGCCACAAAGGTTTTCT
1 TTTCATATTGCGCCACAAAGGTGTTCCTTTCATATTGAGCCACAAAGGCGTTCT
12950410 TTT
1 TTT
12950413 AGGGCTCGCT
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (54 bp):
TTTCATATTGCGCCACAAAGGTGTTCCTTTCATATTGAGCCACAAAGGCGTTCT
Found at i:12954274 original size:25 final size:25
Alignment explanation
Indices: 12954245--12954317 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
12954235 GCACTCTCTC
*
12954245 GAGCCATATAATGGGAAGCTCATGT
1 GAGCCATATAATGGGAAGCTCATCT
* *
12954270 GAGCCATGTAATGAGG-AGCTTATCT
1 GAGCCATATAATG-GGAAGCTCATCT
* ** *
12954295 GGGCTTTATAACGGGAAGCTCAT
1 GAGCCATATAATGGGAAGCTCAT
12954318 AAGAACCATA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
24 2 0.05
25 33 0.89
26 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (25 bp):
GAGCCATATAATGGGAAGCTCATCT
Found at i:12954959 original size:21 final size:21
Alignment explanation
Indices: 12954935--12954977 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12954925 TAAATTTAAC
*
12954935 TCAATTTAATACAATTCATAT
1 TCAATTAAATACAATTCATAT
*
12954956 TCAATTAAATCCAATTCATAT
1 TCAATTAAATACAATTCATAT
12954977 T
1 T
12954978 TTAGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTAAATACAATTCATAT
Found at i:12956163 original size:27 final size:27
Alignment explanation
Indices: 12956026--12956155 Score: 163
Period size: 27 Copynumber: 4.8 Consensus size: 27
12956016 ACTTATTATA
* *
12956026 TTTCATATTGCACCAAAAAGG-TGTTCC
1 TTTCATATTGCGCCACAAAGGCT-TTCC
*
12956053 TTTCATATTGCGCCACAGAGGCTTTCC
1 TTTCATATTGCGCCACAAAGGCTTTCC
*
12956080 TTTCATATTGCGCCACAGAGGCTTTCC
1 TTTCATATTGCGCCACAAAGGCTTTCC
* * *
12956107 TTTCATATTGCGCCACAAAGACGTTCT
1 TTTCATATTGCGCCACAAAGGCTTTCC
**
12956134 TTTCATATTATGCCACAAAGGC
1 TTTCATATTGCGCCACAAAGGC
12956156 ATTCTTTTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 91 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (27 bp):
TTTCATATTGCGCCACAAAGGCTTTCC
Found at i:12959105 original size:28 final size:26
Alignment explanation
Indices: 12959050--12959109 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
12959040 TCAGTTCATG
*
12959050 TAATTAAATTGTGTATTTATATGCTT
1 TAATTAAATTGTGTATTGATATGCTT
*
12959076 TAATTGAAATATGTGTATGTGA-ATGGTT
1 TAATT-AAAT-TGTGTAT-TGATATGCTT
12959104 TAATTA
1 TAATTA
12959110 CTATGTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 17 0.59
29 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (26 bp):
TAATTAAATTGTGTATTGATATGCTT
Found at i:12959275 original size:25 final size:25
Alignment explanation
Indices: 12959247--12959301 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
12959237 ACTGATACTC
12959247 AGCTCGTATGAGCATACCATTATTT
1 AGCTCGTATGAGCATACCATTATTT
*
12959272 AGCTCGTATGAGCTTACCATTATTT
1 AGCTCGTATGAGCATACCATTATTT
12959297 AGCTC
1 AGCTC
12959302 AGAGGAGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCATTATTT
Found at i:12959309 original size:25 final size:25
Alignment explanation
Indices: 12959247--12959314 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
12959237 ACTGATACTC
* *
12959247 AGCTCGTATGAGCATACCATTATTT
1 AGCTCGTAGGAGCTTACCATTATTT
*
12959272 AGCTCGTATGAGCTTACCATTATTT
1 AGCTCGTAGGAGCTTACCATTATTT
12959297 AGCTCAG-AGGAGCTTACC
1 AGCTC-GTAGGAGCTTACC
12959315 GTTTATCGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCATTATTT
Found at i:12972652 original size:20 final size:20
Alignment explanation
Indices: 12972629--12972676 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
12972619 TAGGGTTCAA
* *
12972629 GGTTCGAGTTTAGGGTTTTG
1 GGTTCGAGTTTAGAGTTTAG
* * *
12972649 GGTTCAAATTTTGAGTTTAG
1 GGTTCGAGTTTAGAGTTTAG
12972669 GGTTCGAG
1 GGTTCGAG
12972677 GTTCAAGTTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.35, T:0.42
Consensus pattern (20 bp):
GGTTCGAGTTTAGAGTTTAG
Found at i:12972664 original size:27 final size:26
Alignment explanation
Indices: 12972634--12972706 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
12972624 TTCAAGGTTC
*
12972634 GAGTTTAGGGTTTTGGGTTCAAATTTT
1 GAGTTTAGGG-TTTGGGTTCAAATTTA
* *
12972661 GAGTTTAGGGTTCGAGGTTCAAGTTTA
1 GAGTTTAGGGTTTG-GGTTCAAATTTA
12972688 GAGTTT-GGGTTTGGGTTCA
1 GAGTTTAGGGTTTGGGTTCA
12972707 GGGTTCAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.15
26 9 0.22
27 26 0.63
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.42
Consensus pattern (26 bp):
GAGTTTAGGGTTTGGGTTCAAATTTA
Found at i:12988436 original size:46 final size:44
Alignment explanation
Indices: 12988375--12988471 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 44
12988365 AGAAATGATG
* *
12988375 AAATAGAGAAATGGAAAACATTTAAAAATGATTATGATTTTCTCCA
1 AAATGGAGAAATGG-AAACATTTAAAAATGAATATGATTTTCT-CA
* ** ** *
12988421 AAATGGAGTAATGGAATTATTTGGAAATGAATGTGATTTTCTCA
1 AAATGGAGAAATGGAAACATTTAAAAATGAATATGATTTTCTCA
12988465 AAATGGA
1 AAATGGA
12988472 AATAAAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 9 0.21
45 22 0.51
46 12 0.28
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (44 bp):
AAATGGAGAAATGGAAACATTTAAAAATGAATATGATTTTCTCA
Found at i:12988676 original size:27 final size:26
Alignment explanation
Indices: 12988632--12988682 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
12988622 ATATATTTTC
12988632 TCATAAATTTTACCAGGGGTAAAATCG
1 TCATAAATTTTACCA-GGGTAAAATCG
*
12988659 TCAT-AATTTTACTGAGGGTAAAAT
1 TCATAAATTTTAC-CAGGGTAAAAT
12988683 TGGGATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (26 bp):
TCATAAATTTTACCAGGGTAAAATCG
Found at i:12998608 original size:32 final size:32
Alignment explanation
Indices: 12998565--12998641 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
12998555 CAAAACAAAT
*
12998565 TATGAAAAGTTACGAATG-TAAGGAGACTTGAA
1 TATGAAAAGTTACGAATGCGAA-GAGACTTGAA
* **
12998597 TATGAAGAGTTAATAATGCGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAGAGACTTGAA
*
12998629 GATGAAAAGTTAC
1 TATGAAAAGTTAC
12998642 ACACATGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 35 0.95
33 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCGAAGAGACTTGAA
Found at i:12998736 original size:36 final size:38
Alignment explanation
Indices: 12998650--12998736 Score: 115
Period size: 36 Copynumber: 2.3 Consensus size: 38
12998640 ACACACATGC
* *
12998650 ATGAATAGTCACAACTCTTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTC-TATAGTATTTAAGTGATATAA
* *
12998689 ATGAATAGTCACAACTC-CTAGTATTT-AGTGATATAG
1 ATGAATAGTCACAACTCTATAGTATTTAAGTGATATAA
12998725 ATGAATAGTCAC
1 ATGAATAGTCAC
12998737 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 8 0.18
39 17 0.39
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (38 bp):
ATGAATAGTCACAACTCTATAGTATTTAAGTGATATAA
Found at i:13002937 original size:22 final size:21
Alignment explanation
Indices: 13002896--13002937 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
13002886 ATGTTAAGGT
*
13002896 AAAATATATTTTTCTCTTAAA
1 AAAATATATTTTACTCTTAAA
13002917 AAAATAATATTTATACT-TTAA
1 AAAAT-ATATTT-TACTCTTAA
13002938 TTTAGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATATTTTACTCTTAAA
Found at i:13004273 original size:21 final size:22
Alignment explanation
Indices: 13004238--13004278 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13004228 TTGAGAATTT
* *
13004238 ACTTTGAAAATTTTTCATTAAA
1 ACTTTGAAAAATTTTAATTAAA
13004260 ACTTT-AAAAATTTTAATTA
1 ACTTTGAAAAATTTTAATTA
13004279 CACTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
ACTTTGAAAAATTTTAATTAAA
Found at i:13007672 original size:22 final size:22
Alignment explanation
Indices: 13007647--13007740 Score: 134
Period size: 22 Copynumber: 4.3 Consensus size: 22
13007637 ACAAATTCCA
*
13007647 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
13007669 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
13007691 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCAAAAATTC
* *
13007713 TCACAATTTCCTTCAAAAAATC
1 TCTCAATTTCCTTCAAAAATTC
13007735 TCTCAA
1 TCTCAA
13007741 CTCCATATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:13007839 original size:28 final size:29
Alignment explanation
Indices: 13007779--13007839 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
13007769 ATTTCATTTT
*
13007779 TTTTTAAGAAAATTATAAATATTTTTATT
1 TTTTTAAGAAAATTATAAATATTTTTATA
* *
13007808 TTTTTAA-ATAATTTTAAA-ATTTTTAATA
1 TTTTTAAGAAAATTATAAATATTTTT-ATA
13007836 TTTT
1 TTTT
13007840 CAACAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 15 0.54
29 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTAAGAAAATTATAAATATTTTTATA
Found at i:13007839 original size:29 final size:29
Alignment explanation
Indices: 13007777--13007832 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
13007767 CAATTTCATT
13007777 TTTTTTTAAGAAAATTATAAATATTTTTA
1 TTTTTTTAAGAAAATTATAAATATTTTTA
* *
13007806 TTTTTTTAA-ATAATTTTAAA-ATTTTTA
1 TTTTTTTAAGAAAATTATAAATATTTTTA
13007833 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 9 0.36
29 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTTTAAGAAAATTATAAATATTTTTA
Found at i:13007959 original size:14 final size:15
Alignment explanation
Indices: 13007930--13007963 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13007920 AAATTTTAAA
13007930 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
13007945 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
13007959 TTTTA
1 TTTTA
13007964 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:13010147 original size:29 final size:29
Alignment explanation
Indices: 13010105--13010282 Score: 329
Period size: 29 Copynumber: 6.1 Consensus size: 29
13010095 ATATTATTTG
13010105 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
13010134 ATTTAATTATAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
13010163 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
13010192 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
13010221 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
13010250 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
13010279 ATTT
1 ATTT
13010283 GACAATCCTA
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 143 1.00
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.29
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:13013682 original size:85 final size:85
Alignment explanation
Indices: 13013517--13013722 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
13013507 CCCAAACTTG
13013517 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGA-TTGAAACTATTTGCTCAGAAACGTCAAAAA
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGAAACTATTTGCTCAGAAACGTCAAAAA
*
13013581 ATAATTATTTCGTACATGAC
66 ATAATTATTTCCTACATGAC
*
13013601 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAACGTCAAAAA
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGAAACTATTTGCTCAGAAACGTCAAAAA
13013666 ATAATTATTTCCTACATGAC
66 ATAATTATTTCCTACATGAC
* * *
13013686 CAACTGTAGTAAAATCGTGTCCACGAGGGCGCGATTT
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTT
13013723 CACAATTTCT
Statistics
Matches: 116, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 34 0.29
85 82 0.71
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (85 bp):
CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGAAACTATTTGCTCAGAAACGTCAAAAA
ATAATTATTTCCTACATGAC
Found at i:13019086 original size:30 final size:30
Alignment explanation
Indices: 13019000--13019087 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
13018990 GATACCCGGG
* *
13019000 AATA-AGTTGCTCACATAAGCTGACAGTAC
1 AATAGAGTTGCTCACACAAGCTGACATTAC
* * * *
13019029 ATTAGGGTTGCTCACACAAACTAACATTAC
1 AATAGAGTTGCTCACACAAGCTGACATTAC
13019059 AATAGAGTTGCTCACACAAGCTGACATTA
1 AATAGAGTTGCTCACACAAGCTGACATTA
13019088 TATCGAGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 3 0.06
30 45 0.94
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (30 bp):
AATAGAGTTGCTCACACAAGCTGACATTAC
Found at i:13021004 original size:22 final size:22
Alignment explanation
Indices: 13020979--13021045 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
13020969 TGTACATAAA
*
13020979 AGCCTGTGTGTTATTACATGCG
1 AGCCTATGTGTTATTACATGCG
*
13021001 AGCCTATGTGTAATTACATGCG
1 AGCCTATGTGTTATTACATGCG
* * * *
13021023 AGTCTTTATGTTATTATATGCG
1 AGCCTATGTGTTATTACATGCG
13021045 A
1 A
13021046 ACCCTATATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (22 bp):
AGCCTATGTGTTATTACATGCG
Found at i:13021066 original size:44 final size:44
Alignment explanation
Indices: 13020987--13021070 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
13020977 AAAGCCTGTG
* *
13020987 TGTTATTACATGCGAGCCTATGTGTAATTACATGCGAGTCTTTA
1 TGTTATTACATGCGACCCTATATGTAATTACATGCGAGTCTTTA
* * *
13021031 TGTTATTATATGCGAACCCTATATGT-GTTATATGCGAGTC
1 TGTTATTACATGCG-ACCCTATATGTAATTACATGCGAGTC
13021071 GTGTTATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 25 0.74
45 9 0.26
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (44 bp):
TGTTATTACATGCGACCCTATATGTAATTACATGCGAGTCTTTA
Found at i:13025556 original size:6 final size:6
Alignment explanation
Indices: 13025547--13025575 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13025537 ATTTTAAACA
13025547 AAATTT AAATTT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATT
13025576 ATAATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:13025644 original size:21 final size:22
Alignment explanation
Indices: 13025620--13025684 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 22
13025610 AACAGAAATA
13025620 TTAAGATAAATATTATTTAT-C
1 TTAAGATAAATATTATTTATAC
* *
13025641 TTAATGATATTAAATAATATTTATAT
1 TTAA-G--A-TAAATATTATTTATAC
*
13025667 TTATGAT-AATATTATTTA
1 TTAAGATAAATATTATTTA
13025685 GCTTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
21 14 0.40
22 2 0.06
23 1 0.03
24 1 0.03
25 14 0.40
26 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAGATAAATATTATTTATAC
Found at i:13025655 original size:25 final size:25
Alignment explanation
Indices: 13025626--13025674 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13025616 AATATTAAGA
* *
13025626 TAAATATTATTTATCTTAATGATAT
1 TAAATAATATTTATATTAATGATAT
*
13025651 TAAATAATATTTATATTTATGATA
1 TAAATAATATTTATATTAATGATA
13025675 ATATTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TAAATAATATTTATATTAATGATAT
Found at i:13025848 original size:2 final size:2
Alignment explanation
Indices: 13025841--13025868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13025831 CCTTACAATA
13025841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13025869 TACAATGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13026221 original size:35 final size:34
Alignment explanation
Indices: 13026180--13026249 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
13026170 AAACTTTCTA
* *
13026180 TCATTTACTTCTTATTATGGATTATCAAATATATT
1 TCATTTAATTCTTATTATGAATTATCAAATA-ATT
*
13026215 TCATTTAATTTTTATTATGAATTATCAAATAATT
1 TCATTTAATTCTTATTATGAATTATCAAATAATT
13026249 T
1 T
13026250 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (34 bp):
TCATTTAATTCTTATTATGAATTATCAAATAATT
Found at i:13038485 original size:35 final size:35
Alignment explanation
Indices: 13038431--13038497 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
13038421 ACTGTCTGTT
*
13038431 TGGTGTGTTTCGGAGGGACTAGCTCTTT-TGAGTAA
1 TGGTGTGTTTCAGAGGGACTAGCT-TTTATGAGTAA
**
13038466 TGGTGTGTTTCAGTTGGACTAGCTTTTATGAG
1 TGGTGTGTTTCAGAGGGACTAGCTTTTATGAG
13038498 CATTGGTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 3 0.11
35 25 0.89
ACGTcount: A:0.16, C:0.10, G:0.33, T:0.40
Consensus pattern (35 bp):
TGGTGTGTTTCAGAGGGACTAGCTTTTATGAGTAA
Found at i:13038560 original size:36 final size:36
Alignment explanation
Indices: 13038513--13038585 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
13038503 GTATGTTCTA
*
13038513 GAGGGATTGGCTCATGTGAGCATCTGGTGTGTCTTG
1 GAGGGATTGGCTCATGTAAGCATCTGGTGTGTCTTG
* *
13038549 GAGGTATTGGCTCATGTAAGCATCTGGTGTGTTTTG
1 GAGGGATTGGCTCATGTAAGCATCTGGTGTGTCTTG
13038585 G
1 G
13038586 TTGGACTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.15, C:0.12, G:0.37, T:0.36
Consensus pattern (36 bp):
GAGGGATTGGCTCATGTAAGCATCTGGTGTGTCTTG
Found at i:13041259 original size:43 final size:43
Alignment explanation
Indices: 13041212--13041434 Score: 196
Period size: 43 Copynumber: 5.2 Consensus size: 43
13041202 GGTTTTTCTA
* ** * **
13041212 ATGATGCACTGTGTATACCGGTATAATTACTTCAGCTTGTTTG
1 ATGATGCACTGTGTGTACCAATATAATTGCTTCAGCTTGTCCG
* * * * *
13041255 ATGATGCAATGTATGTACCATTATAATTGCTTCGGCTTGTCCA
1 ATGATGCACTGTGTGTACCAATATAATTGCTTCAGCTTGTCCG
* * *
13041298 ATGATGAACTGTGTGTTCTAATATAATTGCTTCAGCTTGTCCG
1 ATGATGCACTGTGTGTACCAATATAATTGCTTCAGCTTGTCCG
** * * *
13041341 ATGATGCACTGTGTGTGTCAATATAATTACTTC-GACATGACCG
1 ATGATGCACTGTGTGTACCAATATAATTGCTTCAG-CTTGTCCG
* * * * * * *
13041384 ATGATGCACTGTGTGTGCCAGTATATTTCCTTCAGTTTATCTG
1 ATGATGCACTGTGTGTACCAATATAATTGCTTCAGCTTGTCCG
13041427 ATGATGCA
1 ATGATGCA
13041435 TTACGTGTGC
Statistics
Matches: 144, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
42 1 0.01
43 142 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (43 bp):
ATGATGCACTGTGTGTACCAATATAATTGCTTCAGCTTGTCCG
Found at i:13041309 original size:86 final size:86
Alignment explanation
Indices: 13041211--13041434 Score: 232
Period size: 86 Copynumber: 2.6 Consensus size: 86
13041201 CGGTTTTTCT
* * * *
13041211 AATGATGCACTGTGTATACCGGTATAATTACTTCAGCTTGTTTGATGATGCAATGTATGTACCAT
1 AATGATGCACTGTGTGTACCAGTATAATTACTTCAGCTTGTCTGATGATGCAATGTATGTACCAA
* * * *
13041276 TATAATTGCTTCGGCTTGTCC
66 TATAATTACTTCGACATGACC
* * * * * * * * **
13041297 AATGATGAACTGTGTGTTCTAATATAATTGCTTCAGCTTGTCCGATGATGCACTGTGTGTGTCAA
1 AATGATGCACTGTGTGTACCAGTATAATTACTTCAGCTTGTCTGATGATGCAATGTATGTACCAA
13041362 TATAATTACTTCGACATGACC
66 TATAATTACTTCGACATGACC
* * * * * *
13041383 GATGATGCACTGTGTGTGCCAGTATATTTCCTTCAGTTTATCTGATGATGCA
1 AATGATGCACTGTGTGTACCAGTATAATTACTTCAGCTTGTCTGATGATGCA
13041435 TTACGTGTGC
Statistics
Matches: 110, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
86 110 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (86 bp):
AATGATGCACTGTGTGTACCAGTATAATTACTTCAGCTTGTCTGATGATGCAATGTATGTACCAA
TATAATTACTTCGACATGACC
Found at i:13041443 original size:43 final size:43
Alignment explanation
Indices: 13041381--13041479 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
13041371 TTCGACATGA
* ** *
13041381 CCGATGATGCACTGTGTGTGCCAGTATATTTCCTTCAGTTTAT
1 CCGATGATGCATTACGTGTGCCAGTATATTTCCTTCAATTTAT
* * *
13041424 CTGATGATGCATTACGTGTGCCATTATATTTCCTTTAATTTAT
1 CCGATGATGCATTACGTGTGCCAGTATATTTCCTTCAATTTAT
13041467 CCGATGATGCATT
1 CCGATGATGCATT
13041480 GCGATGCCAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (43 bp):
CCGATGATGCATTACGTGTGCCAGTATATTTCCTTCAATTTAT
Found at i:13046151 original size:24 final size:25
Alignment explanation
Indices: 13046105--13046151 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13046095 TGGCCCTCTT
* * *
13046105 GAGCTTTCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
13046130 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
13046152 TAGAGCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:13046255 original size:26 final size:26
Alignment explanation
Indices: 13046226--13046299 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
13046216 CCTAATATAT
*
13046226 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTAAGCTTCCCGATTAAA
* * *
13046252 GGCTCTTTGTAAGCTTCCTGATTAAT
1 GGCTCTTCGTAAGCTTCCCGATTAAA
* *
13046278 GGCTCTCCG-AAGCTACCC-ATTA
1 GGCTCTTCGTAAGCTTCCCGATTA
13046300 TTGGCACATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 4 0.10
25 7 0.17
26 29 0.73
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCCGATTAAA
Found at i:13059535 original size:22 final size:22
Alignment explanation
Indices: 13059500--13059594 Score: 95
Period size: 22 Copynumber: 4.3 Consensus size: 22
13059490 CTTCGGTTCT
*
13059500 TACTGATTCTCACTTCGATGCC
1 TACTGATTCACACTTCGATGCC
*
13059522 TA-TTATTCAACACTTCGATGCC
1 TACTGATTC-ACACTTCGATGCC
* *
13059544 TACTGATTCACACTTTGGTGCC
1 TACTGATTCACACTTCGATGCC
* * *
13059566 TACT-ACTCAGCGCTTTGATGCC
1 TACTGATTCA-CACTTCGATGCC
13059588 TACTGAT
1 TACTGAT
13059595 CAGCAGTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.15
22 45 0.75
23 6 0.10
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (22 bp):
TACTGATTCACACTTCGATGCC
Found at i:13059548 original size:44 final size:44
Alignment explanation
Indices: 13059500--13059594 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
13059490 CTTCGGTTCT
* * *
13059500 TACTGATTCTCACTTCGATGCCTATTATTCAACACTTCGATGCC
1 TACTGATTCACACTTCGATGCCTACTACTCAACACTTCGATGCC
* * * * *
13059544 TACTGATTCACACTTTGGTGCCTACTACTCAGCGCTTTGATGCC
1 TACTGATTCACACTTCGATGCCTACTACTCAACACTTCGATGCC
13059588 TACTGAT
1 TACTGAT
13059595 CAGCAGTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (44 bp):
TACTGATTCACACTTCGATGCCTACTACTCAACACTTCGATGCC
Found at i:13060870 original size:111 final size:111
Alignment explanation
Indices: 13060699--13061042 Score: 451
Period size: 111 Copynumber: 3.1 Consensus size: 111
13060689 CCCAGAAAAT
* *
13060699 GCCGCTGAAAATAAGAATTAGCGG-AGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGA
1 GCCGCTAAAAATAAGAATTAGTGGCA-TTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGA
13060763 CGCCGTTTACCGAACTTTAGGGGATTTAGCGGCGTTTTTAATAAAGC
65 CGCCGTTTACCGAACTTTAGGGGATTTAGCGGCGTTTTTAATAAAGC
13060810 GCCGCTAAAAATAAGAATTAGTGGCATTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGAC
1 GCCGCTAAAAATAAGAATTAGTGGCATTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGAC
* *
13060875 GCCGTTTACCAAACTTTAGGGGATTTAGCGGCGTTTTTAATACAGC
66 GCCGTTTACCGAACTTTAGGGGATTTAGCGGCGTTTTTAATAAAGC
*** * * * *
13060921 GCCGCTAATGCTTAGGGATTTAGTGGCGCTTTT-GAGAAAGCGCCGCAAAAAAACCTAAGCCCAA
1 GCCGCTAA-AAATA-AGAATTAGTGGC-ATTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAA
* * * * * * *
13060985 CGACGCCGTTTTCTGAACATTCAGGGG-TTTAGTGGCGTATTTATTAAAGT
62 CGACGCCGTTTACCGAAC-TTTAGGGGATTTAGCGGCGTTTTTAATAAAGC
13061035 GCCGCTAA
1 GCCGCTAA
13061043 TGCTCAAGGC
Statistics
Matches: 207, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
111 113 0.55
112 3 0.01
113 22 0.11
114 62 0.30
115 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (111 bp):
GCCGCTAAAAATAAGAATTAGTGGCATTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGAC
GCCGTTTACCGAACTTTAGGGGATTTAGCGGCGTTTTTAATAAAGC
Found at i:13061039 original size:114 final size:112
Alignment explanation
Indices: 13060725--13061397 Score: 502
Period size: 114 Copynumber: 5.9 Consensus size: 112
13060715 ATTAGCGGAG
13060725 TTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCGAACTTTAGGGGATTT
1 TTTT-CAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCGAACTTTAGGGGATTT
*** * *
13060790 AGCGGCGTTTTTAATAAAGCGCCGCTAA-AAATAAGAATTAGTGGC-A
65 AGCGGCGTTTTTAATAAAGCGCCGCTAATGCTTAGGATTTAGTGGCGA
*
13060836 TTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCAAACTTTAGGGGATTT
1 TTTT-CAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCGAACTTTAGGGGATTT
* *
13060901 AGCGGCGTTTTTAATACAGCGCCGCTAATGCTTAGGGATTTAGTGGCGC
65 AGCGGCGTTTTTAATAAAGCGCCGCTAATGCTTA-GGATTTAGTGGCGA
* * * *
13060950 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACATTCAGGGG-TT
1 TTTTCAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCGAAC-TTTAGGGGATT
* * * * * * * *
13061014 TAGTGGCGTATTTATTAAAGTGCCGCTAATGCTCAAGGCTTTAGCGGCGT
64 TAGCGGCGTTTTTAATAAAGCGCCGCTAATGCT-TAGGATTTAGTGGCGA
* * * * * *
13061064 TTTTTA-AGAAGCGCCGCAAAAAAACCTAAGCCCAACGACACC-TTTTCTGAGCTTTTTGGGGAT
1 TTTTCAGA-AAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCGAAC-TTTAGGGGAT
** *** * * *
13061127 TTAGCTACGTTTTTAAGGGAGCGCCGCTAATGCTCATGGCTTTAGCGGC-A
63 TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTTA-GGATTTAGTGGCGA
** * * * *** * **
13061177 TTTTTGGCGAAGCGCTGCAAAATAACCTAAGCCCAACGACGTCGTTTTTTGAGA-TTTCGAAGAT
1 TTTTCAG-AAAGCGCCGCAAAA-AACCTAAGCCCAACGACGCCGTTTACCGA-ACTTTAGGGGAT
* * * * * * * *
13061241 CTAGTGGCGTTTCT-CTAGAAGCGCCGCTACTGCTCAGGGATTTAGCGGCGT
63 TTAGCGGCGTTTTTAATA-AAGCGCCGCTAATGCTTA-GGATTTAGTGGCGA
** ** * * * * * *
13061292 TTTTTGGGTAGCGCCACAAGAAAAACTAAG-CCAACGGCGCCGTTT-TCTATGCTTTATGGGGAT
1 TTTTCAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTACCGA-ACTTTA-GGGGAT
** * *
13061355 TTAGCGGCGTTTTTAGGAAAGCGCCTCTAATGCTCAGGGATTT
63 TTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTTA-GGATTT
13061398 TAAAATAATT
Statistics
Matches: 460, Mismatches: 82, Indels: 37
0.79 0.14 0.06
Matches are distributed among these distances:
111 91 0.20
112 4 0.01
113 64 0.14
114 276 0.60
115 25 0.05
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (112 bp):
TTTTCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTACCGAACTTTAGGGGATTTA
GCGGCGTTTTTAATAAAGCGCCGCTAATGCTTAGGATTTAGTGGCGA
Found at i:13061140 original size:228 final size:226
Alignment explanation
Indices: 13060731--13061397 Score: 656
Period size: 228 Copynumber: 2.9 Consensus size: 226
13060721 GGAGTTTTCC
* * * *
13060731 AGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACCGAACTTTAGGGGATTTAGCGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTTCAGGGG-TTTAGTGG
*** * * * **
13060795 CGTTTTTAATAAAGCGCCGCTAAAAAT-AA-GAATTAGTGGC-ATTTTCCAGAAAGCGCCGC-AA
65 CG-TTTTAATAAAGCGCCGCTAATGCTCAAGGATTTAGCGGCGTTTTTTAAG-AAGCGCCGCAAA
* * * * * *
13060856 AAAACCTAAGCCCAACGACGCCGTTTACCAAAC-TTTAGGGGATTTAGCGGCGTTTTTAATACAG
128 AAAACCTAAGCCCAACGACGCCGTTT-TCTAGCTTTTTGGGGATTTAGCGGCGTTTTTAAGAAAG
* * *
13060920 CGCCGCTAATGCTTAGGGATTTAGTGGCGCTTTTG
192 CGCCGCTAATGCTCAGGGATTTAGCGGCACTTTTG
13060955 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACATTCAGGGGTTTAGTGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAAC-TTCAGGGGTTTAGTGG
* * *
13061020 CGTATTTATTAAAGTGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTTAAGAAGCGCCGCAAAA
65 CGT-TTTAATAAAGCGCCGCTAATGCTCAAGGATTTAGCGGCGTTTTTTAAGAAGCGCCGCAAAA
* ** **
13061085 AAACCTAAGCCCAACGACACC-TTTTCTGAGCTTTTTGGGGATTTAGCTACGTTTTTAAGGGAGC
129 AAACCTAAGCCCAACGACGCCGTTTTCT-AGCTTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGC
* * *
13061149 GCCGCTAATGCTCATGGCTTTAGCGGCATTTTTG
193 GCCGCTAATGCTCAGGGATTTAGCGGCACTTTTG
* * * * * * * * *
13061183 -GCGAAGCGCTGCAAAATAACCTAAGCCCAACGACGTCGTTTTTTGAGATTTC-GAAGATCTAGT
1 AG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA-ACTTCAG-GGGTTTAGT
* * * ** * *
13061246 GGCGTTTCT-CTAGAAGCGCCGCTACTGCTCAGGGATTTAGCGGCGTTTTTTGGGTAGCGCCACA
63 GGCGTTT-TAATA-AAGCGCCGCTAATGCTCAAGGATTTAGCGGCGTTTTTTAAGAAGCGCCGCA
* * *
13061310 AGAAAAA-CTAAG-CCAACGGCGCCGTTTTCTATGCTTTATGGGGATTTAGCGGCGTTTTTAGGA
126 A-AAAAACCTAAGCCCAACGACGCCGTTTTCTA-GCTTTTTGGGGATTTAGCGGCGTTTTTAAGA
*
13061373 AAGCGCCTCTAATGCTCAGGGATTT
189 AAGCGCCGCTAATGCTCAGGGATTT
13061398 TAAAATAATT
Statistics
Matches: 366, Mismatches: 60, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
224 13 0.04
225 60 0.16
226 10 0.03
227 38 0.10
228 239 0.65
229 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (226 bp):
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAACTTCAGGGGTTTAGTGGC
GTTTTAATAAAGCGCCGCTAATGCTCAAGGATTTAGCGGCGTTTTTTAAGAAGCGCCGCAAAAAA
ACCTAAGCCCAACGACGCCGTTTTCTAGCTTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
GCTAATGCTCAGGGATTTAGCGGCACTTTTG
Found at i:13062595 original size:14 final size:14
Alignment explanation
Indices: 13062576--13062602 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13062566 ATAAAAAATT
13062576 TTATACCAAATTTA
1 TTATACCAAATTTA
13062590 TTATACCAAATTT
1 TTATACCAAATTT
13062603 CATCCGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATACCAAATTTA
Found at i:13062883 original size:39 final size:38
Alignment explanation
Indices: 13062792--13062888 Score: 151
Period size: 38 Copynumber: 2.6 Consensus size: 38
13062782 TAGGGGTTAT
* *
13062792 GGATTTA-GGGTTAGGGGTTATGCTTTATGGGTTAAAG
1 GGATTTAGGGGTTATGGGTTATGCTTTAAGGGTTAAAG
*
13062829 GGATTTAGGGTTTATGGGTTATGCTTTAAGGGTTAAGAG
1 GGATTTAGGGGTTATGGGTTATGCTTTAAGGGTTAA-AG
13062868 GGATTTAGGGGTTATGGGTTA
1 GGATTTAGGGGTTATGGGTTA
13062889 GGGATTTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 7 0.13
38 25 0.46
39 22 0.41
ACGTcount: A:0.22, C:0.02, G:0.38, T:0.38
Consensus pattern (38 bp):
GGATTTAGGGGTTATGGGTTATGCTTTAAGGGTTAAAG
Found at i:13062908 original size:22 final size:22
Alignment explanation
Indices: 13062866--13062910 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13062856 AAGGGTTAAG
*
13062866 AGGGATTTAGGGGTTATGGGTT
1 AGGGATTTAGGGGTTAGGGGTT
*
13062888 AGGGATTT-GGGATTTAGGGGTT
1 AGGGATTTAGGG-GTTAGGGGTT
13062910 A
1 A
13062911 TTAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (22 bp):
AGGGATTTAGGGGTTAGGGGTT
Found at i:13065639 original size:47 final size:47
Alignment explanation
Indices: 13065504--13065674 Score: 203
Period size: 47 Copynumber: 3.8 Consensus size: 47
13065494 AAAAAACGCA
*
13065504 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
* * * * * *
13065551 AT-TACATAACTCA-GT-TTACTTTACTTGCATTACTT----AAATAT
1 ATATTCTTAAGT-ATATATTACATTACTTACATTACTTACCGAAATAT
*
13065592 ATATTCTTAAGTATATATTACATTACTTACTTTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
*
13065639 ATATTTTTAAGTATATATTACATTACTTACATTACT
1 ATATTCTTAAGTATATATTACATTACTTACATTACT
13065675 CACTAAAATA
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
41 9 0.09
42 7 0.07
43 17 0.17
45 18 0.18
46 6 0.06
47 43 0.43
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.44
Consensus pattern (47 bp):
ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
Found at i:13065703 original size:18 final size:18
Alignment explanation
Indices: 13065680--13065757 Score: 95
Period size: 18 Copynumber: 4.2 Consensus size: 18
13065670 TTACTCACTA
*
13065680 AAATATGTTACATTACTT
1 AAATATATTACATTACTT
*
13065698 AAATATATTAC-TTACTA
1 AAATATATTACATTACTT
13065715 AAATTTATAATTTACATTACTT
1 AAA--TAT-A-TTACATTACTT
13065737 AAATATATTACATTACTT
1 AAATATATTACATTACTT
13065755 AAA
1 AAA
13065758 ATTTATATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.15
18 24 0.46
19 4 0.08
20 4 0.08
21 4 0.08
22 8 0.15
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (18 bp):
AAATATATTACATTACTT
Found at i:13065730 original size:39 final size:41
Alignment explanation
Indices: 13065687--13065764 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 41
13065677 CTAAAATATG
13065687 TTACATTACTTAAATATATTAC-TTAC-TAAAATTTATAAT
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
13065726 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
13065765 TATATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 22 0.59
40 4 0.11
41 11 0.30
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (41 bp):
TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
Found at i:13066027 original size:12 final size:12
Alignment explanation
Indices: 13066010--13066039 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13066000 ATACTTACAT
13066010 AACTTATATATA
1 AACTTATATATA
13066022 AACTTATATATA
1 AACTTATATATA
13066034 AACTTA
1 AACTTA
13066040 CATAATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
AACTTATATATA
Found at i:13066080 original size:25 final size:25
Alignment explanation
Indices: 13066028--13066198 Score: 139
Period size: 25 Copynumber: 7.1 Consensus size: 25
13066018 TATAAACTTA
13066028 TATATAAACTTACATAATA-AC-A--
1 TATAT-AACTTACATAATACACAACT
13066050 TA-ATAACTTACATAATACACAACT
1 TATATAACTTACATAATACACAACT
* *
13066074 TATATAACTTACATAGTACATAACT
1 TATATAACTTACATAATACACAACT
* * *
13066099 T-TGATAACTAACATTATACACAAGT
1 TAT-ATAACTTACATAATACACAACT
* * *
13066124 TACATAACATACACTTAAATACATAACT
1 TATATAACTTACA--T-AATACACAACT
*
13066152 TACATAACTTACATAATACACAAC-
1 TATATAACTTACATAATACACAACT
13066176 T-TA-AA--TACATAATACACAACT
1 TATATAACTTACATAATACACAACT
13066197 TA
1 TA
13066199 ATTAATATTA
Statistics
Matches: 121, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
20 28 0.23
21 5 0.04
22 5 0.04
23 1 0.01
24 4 0.03
25 56 0.46
26 1 0.01
27 1 0.01
28 20 0.17
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (25 bp):
TATATAACTTACATAATACACAACT
Found at i:13066186 original size:20 final size:20
Alignment explanation
Indices: 13066161--13066199 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13066151 TTACATAACT
13066161 TACATAATACACAACTTAAA
1 TACATAATACACAACTTAAA
13066181 TACATAATACACAACTTAA
1 TACATAATACACAACTTAA
13066200 TTAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.26
Consensus pattern (20 bp):
TACATAATACACAACTTAAA
Found at i:13066238 original size:16 final size:17
Alignment explanation
Indices: 13066209--13066271 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 17
13066199 ATTAATATTA
* *
13066209 TACATAACATACATAA-
1 TACATAATACACATAAC
13066225 TACATAATACACATAAC
1 TACATAATACACATAAC
*
13066242 TTACATAGT--ACATAAC
1 -TACATAATACACATAAC
13066258 TAACATAATACACA
1 T-ACATAATACACA
13066272 ACTTACGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 27 0.71
18 10 0.26
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.25
Consensus pattern (17 bp):
TACATAATACACATAAC
Found at i:13066238 original size:25 final size:25
Alignment explanation
Indices: 13066210--13066265 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
13066200 TTAATATTAT
13066210 ACATAACATACATAATACATAA-TA
1 ACATAACATACATAATACATAACTA
* *
13066234 CACATAACTTACATAGTACATAACTA
1 -ACATAACATACATAATACATAACTA
13066260 ACATAA
1 ACATAA
13066266 TACACAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.25
Consensus pattern (25 bp):
ACATAACATACATAATACATAACTA
Found at i:13066310 original size:25 final size:24
Alignment explanation
Indices: 13066271--13066356 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
13066261 CATAATACAC
*
13066271 AACTTACGTAACTTATTACTTAAAT
1 AACTTACATAACTTATTA-TTAAAT
* * * *
13066296 AAGTTACATAGCTTACATATTACAT
1 AACTTACATAACTTA-TTATTAAAT
*
13066321 AACTTACATAACTTA-TATAAAACAT
1 AACTTACATAACTTATTAT-TAA-AT
13066346 AACTTACATAA
1 AACTTACATAA
13066357 TTTACCTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 43 0.88
26 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.35
Consensus pattern (24 bp):
AACTTACATAACTTATTATTAAAT
Found at i:13066313 original size:9 final size:9
Alignment explanation
Indices: 13066052--13066361 Score: 110
Period size: 9 Copynumber: 36.0 Consensus size: 9
13066042 TAATAACATA
13066052 ATAACTTAC
1 ATAACTTAC
13066061 ATAA--TAC
1 ATAACTTAC
* *
13066068 ACAACTTAT
1 ATAACTTAC
13066077 ATAACTTAC
1 ATAACTTAC
*
13066086 AT-A-GTAC
1 ATAACTTAC
**
13066093 ATAACTTTG
1 ATAACTTAC
*
13066102 ATAACTAAC
1 ATAACTTAC
*
13066111 ATTA--TAC
1 ATAACTTAC
* *
13066118 ACAAGTTAC
1 ATAACTTAC
*
13066127 ATAACATAC
1 ATAACTTAC
*
13066136 ACTTAA-ATAC
1 A--TAACTTAC
13066146 ATAACTTAC
1 ATAACTTAC
13066155 ATAACTTAC
1 ATAACTTAC
13066164 ATAA--TAC
1 ATAACTTAC
* *
13066171 ACAACTTAA
1 ATAACTTAC
13066180 AT-ACATAATAC
1 ATAAC-T--TAC
*
13066191 ACAACTTA-
1 ATAACTTAC
*
13066199 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
13066212 ATAACATAC
1 ATAACTTAC
13066221 ATAA--TAC
1 ATAACTTAC
*
13066228 ATAA-TACAC
1 ATAACT-TAC
13066237 ATAACTTAC
1 ATAACTTAC
*
13066246 AT-A-GTAC
1 ATAACTTAC
*
13066253 ATAACTAAC
1 ATAACTTAC
13066262 ATAA--TAC
1 ATAACTTAC
*
13066269 ACAACTTAC
1 ATAACTTAC
*
13066278 GTAACTT--
1 ATAACTTAC
* *
13066285 ATTACTTAA
1 ATAACTTAC
*
13066294 ATAAGTTAC
1 ATAACTTAC
*
13066303 ATAGCTTAC
1 ATAACTTAC
13066312 AT-A-TTAC
1 ATAACTTAC
13066319 ATAACTTAC
1 ATAACTTAC
*
13066328 ATAACTTAT
1 ATAACTTAC
*
13066337 ATAA--AAC
1 ATAACTTAC
13066344 ATAACTTAC
1 ATAACTTAC
*
13066353 ATAATTTAC
1 ATAACTTAC
13066362 CTAATACATA
Statistics
Matches: 218, Mismatches: 50, Indels: 66
0.65 0.15 0.20
Matches are distributed among these distances:
7 54 0.25
8 11 0.05
9 129 0.59
10 8 0.04
11 10 0.05
12 5 0.02
13 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13066320 original size:16 final size:16
Alignment explanation
Indices: 13066299--13066330 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13066289 CTTAAATAAG
*
13066299 TTACATAGCTTACATA
1 TTACATAACTTACATA
13066315 TTACATAACTTACATA
1 TTACATAACTTACATA
13066331 ACTTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (16 bp):
TTACATAACTTACATA
Found at i:13066345 original size:16 final size:16
Alignment explanation
Indices: 13066326--13066356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13066316 TACATAACTT
*
13066326 ACATAACTTATATAAA
1 ACATAACTTACATAAA
13066342 ACATAACTTACATAA
1 ACATAACTTACATAA
13066357 TTTACCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
ACATAACTTACATAAA
Found at i:13068604 original size:43 final size:43
Alignment explanation
Indices: 13068557--13068750 Score: 160
Period size: 43 Copynumber: 4.3 Consensus size: 43
13068547 TCATCAACAA
* **
13068557 TAGCGACGTTTGTAAAGG-AAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-AAGGAAAGCGCCGCTAAAGAACATGGTCTT
* * * *
13068600 TAGCGGCGTTTGTGA-GAGAGTCGCCGCTAAAAAACATGTTCTT
1 TAGCGGCGTTTGTAAGGAAAG-CGCCGCTAAAGAACATGGTCTT
13068643 TAGCGGCGTTTGTGAGAAAAGCGCGGGAAAGGCGCCGCTAAAGAACATGGTCTT
1 TAGCGGCGTTTGT-----AA-----GGAAA-GCGCCGCTAAAGAACATGGTCTT
*
13068697 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGTCTT
1 TAGCGGCGTTTGTAAGG-AAAGCGCCGCTAAAGAACATGGTCTT
*
13068740 TAGCGACGTTT
1 TAGCGGCGTTT
13068751 ATTTATATAA
Statistics
Matches: 124, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 79 0.64
44 3 0.02
48 1 0.01
54 36 0.29
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTAAGGAAAGCGCCGCTAAAGAACATGGTCTT
Found at i:13091397 original size:11 final size:11
Alignment explanation
Indices: 13091381--13091413 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13091371 TCATTTAATA
*
13091381 CAATTCACATT
1 CAATTCACATC
13091392 CAATTC-CATC
1 CAATTCACATC
13091402 CAATTCACATC
1 CAATTCACATC
13091413 C
1 C
13091414 TAGGAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:13095584 original size:21 final size:19
Alignment explanation
Indices: 13095560--13095598 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
13095550 AGTTATAACC
13095560 CTTTTTATATTATGTAAATTA
1 CTTTTTATATT-TG-AAATTA
*
13095581 CTTTTTTTATTTGAAATT
1 CTTTTTATATTTGAAATT
13095599 TAATCTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
CTTTTTATATTTGAAATTA
Found at i:13105739 original size:101 final size:102
Alignment explanation
Indices: 13105552--13105758 Score: 283
Period size: 101 Copynumber: 2.0 Consensus size: 102
13105542 AGATTTTACT
*
13105552 GTAACTTTATGTTTTGGTCACTCAACTTGAAAAAATTACAAAATGGTCACTGAACTATTCCGAAG
1 GTAACTTTATGTTTTGGTCACTCAACTTGAAAAAATTAC---A---TCACTGAACTATTCAGAAG
* *
13105617 TTTTCATTTAAGTATCCGGGCTGTTATAATTACTGCTGCATTA
60 TTTTCATTTAAGTATCAGGGCTGTTATAATCACTGCTGCATTA
**
13105660 GTAACTTTATGTTTTGGTCACTCAACTTGAAAATGTTAC-TCACTGAACTATTCAGAAGTTTTCA
1 GTAACTTTATGTTTTGGTCACTCAACTTGAAAAAATTACATCACTGAACTATTCAGAAGTTTTCA
*
13105724 TTTAAGTCA-CAGGGCTGTTATAATCGCTGCTGCAT
66 TTTAAGT-ATCAGGGCTGTTATAATCACTGCTGCAT
13105759 GGCCTTCTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
101 54 0.59
102 1 0.01
108 37 0.40
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (102 bp):
GTAACTTTATGTTTTGGTCACTCAACTTGAAAAAATTACATCACTGAACTATTCAGAAGTTTTCA
TTTAAGTATCAGGGCTGTTATAATCACTGCTGCATTA
Found at i:13116382 original size:3 final size:3
Alignment explanation
Indices: 13116374--13116413 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13116364 GTGTTAAGGA
13116374 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13116414 GTGGGATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13118772 original size:42 final size:42
Alignment explanation
Indices: 13118699--13118780 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
13118689 ACATGAGGGA
* * *
13118699 GATATGTTACTATTGGTTGTTGGGGAGAGTGATTTTGAAGAT
1 GATATGTTACTATTGGTTGCTGGAGAAAGTGATTTTGAAGAT
13118741 GATATGTTACTATTGAG-TGCTGGAGAAAGTGATTTTGAAG
1 GATATGTTACTATTG-GTTGCTGGAGAAAGTGATTTTGAAG
13118781 GAGTAGAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.32, T:0.38
Consensus pattern (42 bp):
GATATGTTACTATTGGTTGCTGGAGAAAGTGATTTTGAAGAT
Found at i:13118828 original size:33 final size:33
Alignment explanation
Indices: 13118769--13118935 Score: 194
Period size: 33 Copynumber: 5.1 Consensus size: 33
13118759 GCTGGAGAAA
* * *
13118769 GTGATTTTGAAGGAGTAGAAGCTGATGGGAAGG
1 GTGATGTTGAAGGGGTAGAAGCTGATGGGGAGG
* * *
13118802 GTGAAGTTGAAGGGGTACAAGTTGATGGGGAGG
1 GTGATGTTGAAGGGGTAGAAGCTGATGGGGAGG
* *
13118835 GTGATGCTGAAGGGGGAGAAGCTGATGGGGAGG
1 GTGATGTTGAAGGGGTAGAAGCTGATGGGGAGG
* * * *
13118868 GTGATGTAGAAAGGGTACAAGCT-ATTGGGTAGG
1 GTGATGTTGAAGGGGTAGAAGCTGA-TGGGGAGG
*
13118901 GTGATGTTGAA-GGGTAGAAGCTGATAGGGAGG
1 GTGATGTTGAAGGGGTAGAAGCTGATGGGGAGG
13118933 GTG
1 GTG
13118936 TGACTTCTAC
Statistics
Matches: 111, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
32 20 0.18
33 91 0.82
ACGTcount: A:0.28, C:0.04, G:0.47, T:0.22
Consensus pattern (33 bp):
GTGATGTTGAAGGGGTAGAAGCTGATGGGGAGG
Found at i:13137101 original size:114 final size:114
Alignment explanation
Indices: 13136864--13137271 Score: 560
Period size: 114 Copynumber: 3.6 Consensus size: 114
13136854 AAAGCACCAC
* * *
13136864 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGAC-GTTTT-ACGGAA
1 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCATTTTTGA-GGAA
* * *
13136927 GCGCCGCTAATGCTGA-GCA-TTAGCGGCGTTTTTGAGAAAGCGCCACAA
65 GCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
* * *
13136975 AAAAACCTAAGCCCAACGAC-ACGATTTTCTAAGCATTCGGGGATTTAACGGCATTTTTGAGGAA
1 AAAAACCTAAGCCCAACGACGCCG-TTTTCTGAGCATTCGGGGATTTAGCGGCATTTTTGAGGAA
*
13137039 GCGCCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
65 GCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
* * * **
13137089 AAAAACCTAAGCCCAACAATGCCGTTTTCTGAGCATCCGGGGATTTAGCGGTGTTTTTGAGGAAG
1 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCATTTTTGAGGAAG
* *
13137154 CGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC-A
66 CGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
* * *
13137202 AAAAACCTAGGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGTGGCGA-TTTTGAGAAA
1 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGC-ATTTTTGAGGAA
13137266 GCGCCG
65 GCGCCG
13137272 TAAAAAAACC
Statistics
Matches: 261, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
110 2 0.01
111 44 0.17
112 23 0.09
113 64 0.25
114 126 0.48
115 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (114 bp):
AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCATTTTTGAGGAAG
CGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
Found at i:13137270 original size:227 final size:225
Alignment explanation
Indices: 13136864--13137271 Score: 590
Period size: 227 Copynumber: 1.8 Consensus size: 225
13136854 AAAGCACCAC
* *
13136864 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGACGTTTTACGGAAGC
1 AAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCATCCAGGGATTTAGCGACGTTTTACGGAAGC
13136929 GCCGCTAATGCTGAGCATTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGA
66 GCCGCTAATGCTGAGCATTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGA
*
13136994 CACGATTTTCTAAGCATTCGGGGATTTAACGGCATTTTTGAGGAAGCGCCGCTAATGCTTAGGGA
131 CACGATTTTCTAAGCATTCGGGGATTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTTAGGGA
13137059 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
196 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
* * **
13137089 AAAAACCTAAGCCCAACAATGCCGTTTTCTGAGCATCCGGGGATTTAGCGGTGTTTTTGA-GGAA
1 AAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCATCCAGGGATTTAGCGACG-TTTT-ACGGAA
* * * * *
13137153 GCGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAGGCCCA
64 GCGCCGCTAATGCT--GAGCATTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCA
* * **
13137217 ACGACGCCG-TTTTCTGAGCATTCGGGGATTTAGTGGCGA-TTTTGAGAAAGCGCCG
127 ACGAC-ACGATTTTCTAAGCATTCGGGGATTTAACGGC-ATTTTTGAGAAAGCGCCG
13137272 TAAAAAAACC
Statistics
Matches: 161, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
225 47 0.29
226 21 0.13
227 61 0.38
228 32 0.20
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (225 bp):
AAAAACCTAAGCCCAACAACGCCGTTTTCTGAGCATCCAGGGATTTAGCGACGTTTTACGGAAGC
GCCGCTAATGCTGAGCATTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGA
CACGATTTTCTAAGCATTCGGGGATTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTTAGGGA
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
Found at i:13137279 original size:186 final size:188
Alignment explanation
Indices: 13137055--13137460 Score: 566
Period size: 186 Copynumber: 2.2 Consensus size: 188
13137045 CTAATGCTTA
* * *
13137055 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACAATGCCGTTTTCTG
1 GGGATTTAGTGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTTCTG
* * * * * *
13137120 AGCATCCGGGGATTTAGCGGTGTTTTTGAGGAAGCGCTGCTAATGCTCAGGGCTTTAGCGGCGTT
66 AGCATCCAGGGATTTAGCGGTGTTTTTCAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCGTT
* *
13137185 TTTGAGAAAGCGCCGC-AAAAAACCTAGGCCCAACGACGCCGTTTTCTGAGC-ATTCG
131 TTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTATTCG
* * ** *
13137241 GGGATTTAGTGGCGATTTTGAGAAAGCGCCGTAAAAAAACCTAATCCCAATGACGCTGTTTTCTG
1 GGGATTTAGTGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTTCTG
* *
13137306 AGCATTCAGGGATTTGGCGGTGTTTTTCAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCGTT
66 AGCATCCAGGGATTTAGCGGTGTTTTTCAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCGTT
* * * * *
13137371 TTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCTATTTTCTGATCTTTTCG
131 TTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTATTCG
*
13137429 GGGATTTAGTGGC-ATTTTTAAGAAAGCGCCGC
1 GGGATTTAGTGGCGA-TTTTGAGAAAGCGCCGC
13137461 TAATGCTCAG
Statistics
Matches: 192, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
186 129 0.67
187 31 0.16
188 32 0.17
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (188 bp):
GGGATTTAGTGGCGATTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACAACGCCGTTTTCTG
AGCATCCAGGGATTTAGCGGTGTTTTTCAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCGTT
TTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTATTCG
Found at i:13137304 original size:73 final size:72
Alignment explanation
Indices: 13137166--13137340 Score: 224
Period size: 73 Copynumber: 2.4 Consensus size: 72
13137156 CTGCTAATGC
* * * *
13137166 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAGGCCCAACGACGCCGTTTTC
1 TCAGGGATTTAGCGGCGATTTTGAGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTC
13137231 TGAGCAT
66 TGAGCAT
* * * * *
13137238 TCGGGGATTTAGTGGCGATTTTGAGAAAGCGCCGTAAAAAAACCTAATCCCAATGACGCTGTTTT
1 TCAGGGATTTAGCGGCGATTTTGAGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTT
13137303 CTGAGCAT
65 CTGAGCAT
* * * *
13137311 TCAGGGATTTGGCGGTGTTTTTCAGAAAGC
1 TCAGGGATTTAGCGGCGATTTTGAGAAAGC
13137341 ACCGCTAATG
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 30 0.34
73 57 0.66
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (72 bp):
TCAGGGATTTAGCGGCGATTTTGAGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTC
TGAGCAT
Found at i:13137394 original size:114 final size:115
Alignment explanation
Indices: 13137241--13137561 Score: 349
Period size: 115 Copynumber: 2.8 Consensus size: 115
13137231 TGAGCATTCG
* * * * * *
13137241 GGGATTTAGTGGCGATTTTGAGAAAGCGCCGTAAAAAAACCTAATCCCAATGACGCTGTTTTCTG
1 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTATTTTCTG
* ** *
13137306 AGC-ATTCAGGGATTTGGCGGTGTTTTTCAGAAAGCACCGCTAATGCTCA
66 AGCTATTCAGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCA
* *
13137355 GGGATTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCTATTTTCTG
1 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTATTTTCTG
* * * * *
13137420 ATCTTTTCGGGGATTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
66 AGCTATTCAGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCA
* * * * * * * ** * *
13137470 GGGCTTTAACGACGTTTTTGACAATGCGCCGCAAAAAAACCTAAGACCAACAACGCCGTTTTTTT
1 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTATTTTCTG
* * *
13137535 ACCT-TTCGGGGATTTAGCGGCGTTTTT
66 AGCTATTCAGGGATTTAGCGGCATTTTT
13137562 GGTAAAGCAC
Statistics
Matches: 173, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
114 80 0.46
115 93 0.54
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (115 bp):
GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTATTTTCTG
AGCTATTCAGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCA
Found at i:13137549 original size:188 final size:188
Alignment explanation
Indices: 13137355--13137696 Score: 440
Period size: 188 Copynumber: 1.8 Consensus size: 188
13137345 CTAATGCTCA
** * * *
13137355 GGGATTTAGCGGCGTTTTTGAG-AAAGTGCCGCAAAAAA-ACCTAAGCCCAACGATGCTATTTTC
1 GGGATTTAGCGGCGTTTTTG-GTAAAGCACCG-AAAAAAGACATAAGCCCAACGACGCCATTTTC
* * * *
13137418 TGATCTTTTC-GGGGATTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAAC-G
64 TGA-CCTTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAACAG
*
13137481 ACGTTTTTGACAATGCGCCGCAAAAAAACCTAAGACCAACAACGCCGTTTTTTTACCTTTCG
128 -CGTTTTTGACAAAGCGCCGCAAAAAAACCTAAGACCAACAACGCCGTTTTTTTACCTTTCG
*
13137543 GGGATTTAGCGGCGTTTTTGGTAAAGCACCGAAAAAAGACATAAGCCCAACGACGCCGTTTTCTG
1 GGGATTTAGCGGCGTTTTTGGTAAAGCACCGAAAAAAGACATAAGCCCAACGACGCCATTTTCTG
** * * * * *
13137608 ACCTTTCGGGGGATTTAGCGGTGTTTTTAATACAGCACCGCTAATGCTCTGGGATTTAGCAGTGT
66 ACCTTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAACAGCGT
**
13137673 TTTTGGGAAAGCGCCGCAAAAAAA
131 TTTTGACAAAGCGCCGCAAAAAAA
13137697 TTATTTGTCT
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
187 12 0.09
188 117 0.90
189 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (188 bp):
GGGATTTAGCGGCGTTTTTGGTAAAGCACCGAAAAAAGACATAAGCCCAACGACGCCATTTTCTG
ACCTTTCGGGGGATTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAACAGCGT
TTTTGACAAAGCGCCGCAAAAAAACCTAAGACCAACAACGCCGTTTTTTTACCTTTCG
Found at i:13137851 original size:8 final size:8
Alignment explanation
Indices: 13137808--13137858 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
13137798 TGGCTTTCTC
13137808 AAAACCCT
1 AAAACCCT
*
13137816 TAAACCCT
1 AAAACCCT
* *
13137824 AAAAACAT
1 AAAACCCT
* *
13137832 -AATCCTT
1 AAAACCCT
13137839 AAAACCCT
1 AAAACCCT
13137847 AAAACCCT
1 AAAACCCT
13137855 AAAA
1 AAAA
13137859 ATTTCATATG
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAACCCT
Found at i:13141276 original size:16 final size:16
Alignment explanation
Indices: 13141235--13141313 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
13141225 AAGTTCAAAT
*
13141235 TTCATAACTTACGTAA
1 TTCATAACTTACATAA
13141251 TTTGCATAACTTACATAA
1 -TT-CATAACTTACATAA
13141269 TTCATAACTTACATAA
1 TTCATAACTTACATAA
* *
13141285 TT--TAAATT-TATAA
1 TTCATAACTTACATAA
*
13141298 TACATAACTTACATAA
1 TTCATAACTTACATAA
13141314 CTTATTAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 20 0.38
17 4 0.08
18 13 0.25
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:13141283 original size:9 final size:9
Alignment explanation
Indices: 13141237--13141317 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
13141227 GTTCAAATTT
13141237 CATAACTTA
1 CATAACTTA
* * *
13141246 CGTAATTTG
1 CATAACTTA
13141255 CATAACTTA
1 CATAACTTA
13141264 CATAA-TT-
1 CATAACTTA
13141271 CATAACTTA
1 CATAACTTA
*
13141280 CATAATTTA
1 CATAACTTA
* *
13141289 AATTTATA-ATA
1 CA--TA-ACTTA
13141300 CATAACTTA
1 CATAACTTA
13141309 CATAACTTA
1 CATAACTTA
13141318 TTAATATTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 39 0.71
11 5 0.09
12 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:13141342 original size:19 final size:18
Alignment explanation
Indices: 13141318--13141371 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
13141308 ACATAACTTA
13141318 TTAATATTTATATATAGTT
1 TTAATATTTATATATA-TT
13141337 TTAATA--TATATAT-TT
1 TTAATATTTATATATATT
*
13141352 TTAAAATTTATATATATT
1 TTAATATTTATATATATT
13141370 TT
1 TT
13141372 TAAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.23
17 14 0.45
18 4 0.13
19 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTAATATTTATATATATT
Found at i:13141346 original size:15 final size:15
Alignment explanation
Indices: 13141326--13141355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13141316 TATTAATATT
13141326 TATATATAGTTTTAA
1 TATATATAGTTTTAA
*
13141341 TATATATATTTTTAA
1 TATATATAGTTTTAA
13141356 AATTTATATA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATATAGTTTTAA
Found at i:13141364 original size:21 final size:20
Alignment explanation
Indices: 13141341--13141379 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13141331 ATAGTTTTAA
13141341 TATATATATTTTT-AAAATT
1 TATATATATTTTTAAAAATT
13141360 TATATATATTTTTAAAAATT
1 TATATATATTTTTAAAAATT
13141380 GATACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATATTTTTAAAAATT
Found at i:13141431 original size:23 final size:20
Alignment explanation
Indices: 13141381--13141443 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 20
13141371 TTAAAAATTG
13141381 ATACATTACATAACTTACATA
1 ATACA-TACATAACTTACATA
*
13141402 ACCTACATACATAAACTTACA-C
1 A--TACATACAT-AACTTACATA
*
13141424 ATA-ATACATAACTTATATA
1 ATACATACATAACTTACATA
13141443 A
1 A
13141444 CTTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 7 0.20
19 7 0.20
20 2 0.06
21 1 0.03
22 6 0.17
23 12 0.34
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ATACATACATAACTTACATA
Found at i:13141494 original size:31 final size:31
Alignment explanation
Indices: 13141398--13141507 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 31
13141388 ACATAACTTA
* *
13141398 CATAACCTACATACATAAA-CTTACA-CATAAT
1 CATAACTTACATACATAAATATTA-ATCAT-AT
* * *
13141429 ACATAACTTATATAACTTAAATTTATCAATCATAT
1 -CATAACTTACAT-ACATAAA--TATTAATCATAT
13141464 CATAACTTACATACATAAATATTAATCATAT
1 CATAACTTACATACATAAATATTAATCATAT
*
13141495 CACAACTTACATA
1 CATAACTTACATA
13141508 ACCAACATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
31 23 0.36
32 10 0.16
33 12 0.19
34 11 0.17
35 3 0.05
36 5 0.08
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (31 bp):
CATAACTTACATACATAAATATTAATCATAT
Found at i:13141539 original size:24 final size:24
Alignment explanation
Indices: 13141505--13141563 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
13141495 CACAACTTAC
* * *
13141505 ATAACCAACATAATGACTTATATA
1 ATAACCTACATAATAACTTACATA
13141529 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAACTTACATA
13141553 ATAA--TACATAA
1 ATAACCTACATAA
13141564 CCTACATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 7 0.22
24 25 0.78
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAACCTACATAATAACTTACATA
Found at i:13141541 original size:12 final size:12
Alignment explanation
Indices: 13141505--13141556 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
13141495 CACAACTTAC
*
13141505 ATAACCAACATA
1 ATAACCTACATA
* * *
13141517 ATGACTTATATA
1 ATAACCTACATA
13141529 ATAACCTACATA
1 ATAACCTACATA
*
13141541 ATAACTTACATA
1 ATAACCTACATA
13141553 ATAA
1 ATAA
13141557 TACATAACCT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:13142766 original size:3 final size:3
Alignment explanation
Indices: 13142752--13142791 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13142742 TTTTTAGTCC
*
13142752 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13142792 TCTTCTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13143011 original size:21 final size:22
Alignment explanation
Indices: 13142962--13143011 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
13142952 GTAATATGCT
*
13142962 ATTATTTTAAATTATTATTGAC
1 ATTATTTTAAATTATCATTGAC
*
13142984 A-TGTTTTAAATTTATCA-T-AC
1 ATTATTTTAAA-TTATCATTGAC
13143004 ATTATTTT
1 ATTATTTT
13143012 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTATTTTAAATTATCATTGAC
Found at i:13147998 original size:13 final size:12
Alignment explanation
Indices: 13147979--13148019 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
13147969 TCCAATTCAC
13147979 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
13147991 AGAAAAAAAAAAG
1 A-AAAAAAGAAAG
13148004 AAAAAAAG-AAG
1 AAAAAAAGAAAG
13148015 AAAAA
1 AAAAA
13148020 TCAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 8 0.31
12 7 0.27
13 11 0.42
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:13148005 original size:11 final size:11
Alignment explanation
Indices: 13147980--13148019 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13147970 CCAATTCACA
13147980 AAAAAAGAAAGAG
1 AAAAAA-AAA-AG
13147993 AAAAAAAAAAG
1 AAAAAAAAAAG
*
13148004 AAAAAAAGAAG
1 AAAAAAAAAAG
13148015 AAAAA
1 AAAAA
13148020 TCAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.65
12 3 0.12
13 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:13148025 original size:6 final size:6
Alignment explanation
Indices: 13148016--13148048 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13148006 AAAAAGAAGA
*
13148016 AAAATC AAAATT AAAATC AAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
13148049 AATGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATC
Found at i:13148952 original size:14 final size:15
Alignment explanation
Indices: 13148927--13148964 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13148917 TTGAGTCGGA
13148927 GAAAATATGAAAAA-T
1 GAAAA-ATGAAAAAGT
13148942 GAAAAATGAAAAAGT
1 GAAAAATGAAAAAGT
*
13148957 AAAAAATG
1 GAAAAATG
13148965 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (15 bp):
GAAAAATGAAAAAGT
Found at i:13150505 original size:129 final size:129
Alignment explanation
Indices: 13150162--13151039 Score: 1373
Period size: 129 Copynumber: 6.8 Consensus size: 129
13150152 AATAGATCAG
13150162 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* *
13150227 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGTAGTGGAATAGGTT-
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* * *
13150290 GGGAATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGACGAATCTTATC
1 GGAAAT-TA-CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATC
* *
13150355 TTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTT
64 TTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT
13150420 A
129 A
* * *
13150421 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCAAAGACGGTGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* * *
13150486 CAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGTTTAGCAGTGGAATAGGTT-
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* * * *
13150549 GAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCATATCAAAGACAGTGAAATCTTATC
1 G-GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCG-AATCTTATC
*
13150614 TTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT
64 TTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT
13150679 A
129 A
*
13150680 GAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* * * * *
13150745 CAAGTGTAAGGAAGCAGATTTAAGCCACAATTCCTATATCCCTGGTTAGTAGTTGAATAGGTTG
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* * * * *
13150809 GGAAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCGAAGACGACGAATCATATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* *
13150874 CAAGTGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* * * * *
13150938 GGAAATTACAGATCCTGTCTCCCTAAACAATAGTGGAGCAGATCGAAGACGGCAAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
*
13151003 CAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTAT
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTAT
13151040 CTTCCTGAAG
Statistics
Matches: 689, Mismatches: 55, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
128 6 0.01
129 439 0.64
130 238 0.35
131 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (129 bp):
GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
Found at i:13150627 original size:259 final size:258
Alignment explanation
Indices: 13150162--13151039 Score: 1388
Period size: 259 Copynumber: 3.4 Consensus size: 258
13150152 AATAGATCAG
13150162 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* *
13150227 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGTAGTGGAATAGGTTGG
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTTAGTAGTGGAATAGGTTGG
* *
13150292 GAATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAG--A-TGACGAATCTTAT
131 AAAT-TA-CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAAATCGAAGACAGTGA--AATCTTAT
* *
13150354 CTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGT
192 CTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGT
13150419 TA
257 TA
* * *
13150421 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCAAAGACGGTGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* * *
13150486 CAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGTTTAGCAGTGGAATAGGTTGA
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTTAGTAGTGGAATAGGTTG-
* *
13150551 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCATATCAAAGACAGTGAAATCTTATCTT
130 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAAATCGAAGACAGTGAAATCTTATCTT
*
13150616 CAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
195 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
*
13150680 GAAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
* *
13150745 CAAGTGTAAGGAAGCAGATTTAAGCCACAATTCCTATATCCCTGGTTAGTAGTTGAATAGGTTGG
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTTAGTAGTGGAATAGGTT-G
* * * *
13150810 GAAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCGAAGAC-GACG-AATCATATCT
130 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAAATCGAAGACAG-TGAAATCTTATCT
* *
13150873 TCAAGTGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
194 TCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* * * * *
13150938 GGAAATTACAGATCCTGTCTCCCTAAACAATAGTGGAGCAGATCGAAGACGGCAAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
*
13151003 CAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTAT
66 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTAT
13151040 CTTCCTGAAG
Statistics
Matches: 574, Mismatches: 39, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
258 205 0.36
259 360 0.63
260 6 0.01
261 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (258 bp):
GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTTAGTAGTGGAATAGGTTGG
AAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAAATCGAAGACAGTGAAATCTTATCTTC
AAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
Found at i:13150890 original size:388 final size:387
Alignment explanation
Indices: 13150162--13151039 Score: 1384
Period size: 388 Copynumber: 2.3 Consensus size: 387
13150152 AATAGATCAG
*
13150162 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGG-AAATCTTATCTT
* * *
13150227 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCTTGGTCAGTAGTGGAATAGGTTGG
65 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGA
* *
13150292 GAATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGACGAATCTTATCTT
130 AAATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTT
*
13150357 CAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTTAG
195 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTTAG
* * * * ** *
13150422 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGTAGATCAAAGACGGTGAATCTTATCTTC
260 GAAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCAAAGACGACGAATCATATCTTC
* * * *
13150487 AAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGTTTAGCAGTGGAATAGGTT-
325 AAGAGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
* *
13150549 GAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCATATCAAAGACAGTGAAATCTTATC
1 G-GAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGAC-G-GAAATCTTATC
*
13150614 TTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT
63 TTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTT
*
13150679 AGAAAAT-TA-CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTAT
128 -GAAAATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTAT
* * *
13150742 CTTCAAGTGTAAGGAAGCAGATTTAAGCCACAATTCCTATATCCCTGGTTAGTAGTTGAATAGGT
192 CTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGT
* *
13150807 TGGGAAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCGAAGACGACGAATCATATC
257 TAGGAAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCAAAGACGACGAATCATATC
*
13150872 TTCAAGTGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTT
322 TTCAAGAGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTT
13150937 A
387 A
* * * *
13150938 GGAAATTACAGATCCTGTCTCCCTAAACAATAGTGGAGCAGATCGAAGACGGCAAATCTTATCTT
1 GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGG-AAATCTTATCTT
*
13151003 CAAGTGTAAGGAAGCAGATTTAAGCCACAAATCCTAT
65 CAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTAT
13151040 CTTCCTGAAG
Statistics
Matches: 449, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
386 1 0.00
387 49 0.11
388 319 0.71
389 75 0.17
390 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (387 bp):
GGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGAAATCTTATCTTC
AAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGAA
AATATAGCAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTC
AAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGTAGTGGAATAGGTTAGG
AAATTACAAATCTTGTCTCCCTAAGCAGTAGCAGAGCAAATCAAAGACGACGAATCATATCTTCA
AGAGTAAAGAAGCAGATTTAAGCCACAAATCCTATATCCCTGGTCAGCAGTGGAATAGGTTA
Found at i:13151085 original size:44 final size:43
Alignment explanation
Indices: 13151037--13152407 Score: 509
Period size: 44 Copynumber: 31.6 Consensus size: 43
13151027 CCACAAATCC
* *
13151037 TATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
* * * * ** * *
13151081 TATCTCTCTAAAGTTGCATTAGAGTGGATT--GTATTAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAATAGATCT
* * * * *
13151122 TATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGA-TCT
* * *** *
13151166 TATCCCCCTGAAGTTGCAGTAGGA-CAGATCGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGT-GGAGCAGAT-TAAG-TAATAGATCT
* * ** *
13151211 TATCTCCCTGAGGTTGCAGTGGAGCTGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-TAATAGATCT
* *
13151255 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
** * * ** * * * *
13151299 TATCTCTTTGAAGTTACAGTAGAGTGGA-T-CGCATTAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAATAGATCT
* * * * * *
13151340 TATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * *** *
13151384 TATCCCCCTGAAGTTGTAGTGCGA-CAGATCGAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGTG-GAGCAGAT-TAAG-TAATAGATCT
* * **
13151429 TATCTCCCTGAGGTTGCAGTGGAGCACATTGAAGCCGATA-AT-T
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-TAATAGATCT
* **
13151472 CTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
* * ** * * * *
13151517 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CGCATTAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAATAGATCT
* * * * * *
13151558 TATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * *
13151602 TATCCCCCTGAAGTTGCAGTGG-GACAAATCGAAGATGGAA-A-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAG-CAGAT-TAAG-T--AATAGATCT
* * * *
13151647 TATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGCCAATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-TAATAGATCT
* **
13151691 TATCCCCCTGAAGTTGCAGTGGAGTGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
* * * ** *
13151735 TATCTCTCTGAA---GCAGTAGAGTAGATCGCA-TCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGTAATAGATCT
* * * * * * *
13151773 TATCTCCCTGAGGTTACAGCGGAGCAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * * * * *
13151817 TATCTCCCTGAGGTTACAGCGGAGCAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * ***
13151861 TATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGTTGGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAG-TAATAGATCT
* * *
13151906 TATCTCCCT-AAGGTTGCAGTGGAGTAGATTGAAGCTGATA-ATCC
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGATT-AAG-TAATAGATCT
* * *
13151950 TATCTCTCTGAAGTTGTAGAGGAGCAGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
* * * * * *
13151994 TATCTCTCTGAAGTTGTAGTAGAGTAGA-T-CG-CATCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAAT-AGATCT
* * * * * *
13152034 TATCTCCCT-AAGGT-CACTGCGGAGAAGACTGAGTAAGCAGATCT
1 TATCTCCCTGAAGTTGCA--GTGGAGCAGATTAAGTAA-TAGATCT
** * * *
13152078 TATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGATGAA-AAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-T-AATAGATCT
* * ** *
13152122 TATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAG-TAATAGATCT
* *
13152166 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
* * ** * * *
13152210 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CG-CATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAAT-AGATCT
* * * * * *
13152251 TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * * * * *
13152295 TATCCCCCTAAAGTTACAGTGGGGCAGATCGAA-T-ATGGCAAATGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGTAAT---AGATCT
* * *
13152340 TATCTCCCTGAGGTTGCAAG-GGAGCAGATTGAAGTCGATA-ATCC
1 TATCTCCCTGAAGTTGC-AGTGGAGCAGATT-AAGT-AATAGATCT
* *
13152384 TATCTCCCTGACGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
13152408 TGGATCGAAG
Statistics
Matches: 992, Mismatches: 257, Indels: 156
0.71 0.18 0.11
Matches are distributed among these distances:
38 14 0.01
39 6 0.01
40 25 0.03
41 146 0.15
42 4 0.00
43 50 0.05
44 537 0.54
45 194 0.20
46 12 0.01
48 4 0.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAATAGATCT
Found at i:13151350 original size:218 final size:217
Alignment explanation
Indices: 13151015--13151827 Score: 1301
Period size: 218 Copynumber: 3.7 Consensus size: 217
13151005 AGTGTAAGGA
* * * *
13151015 AGCAGATTTAAGCC-ACAAATCCTATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGAT
1 AGCAGATTGAAGCCGA-TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGAT
* * * *
13151079 CTTATCTCTCTAAAGTTGCATTAGAGTGGATTGTATTAGGTCTTATCTCCCTGAGGTTGCAGCGG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGG
*
13151144 AGCAGACTGAGTAAGCAAGTCTTATCCCCCTGAAGTTGCAGTAGGACAGATCGAAGATGGCAAAT
130 AGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGT-GGACAGATCGAAGATGGCAAAT
13151209 CTTATCTCCCTGAGGTTGCAGTGG
194 CTTATCTCCCTGAGGTTGCAGTGG
* *
13151233 AGCTGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
13151298 TTATCTCTTTGAAGTTACAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
*
13151363 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGTAGTGCGACAGATCGAAGATGGCAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTG-GACAGATCGAAGATGGCAAATC
13151428 TTATCTCCCTGAGGTTGCAGTGG
195 TTATCTCCCTGAGGTTGCAGTGG
* * *
13151451 AGCACATTGAAGCCGATAATTCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
13151516 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
* *
13151581 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGACAAATCGAAGATGGAAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGT-GGACAGATCGAAGATGGCAAATC
*
13151646 TTATCTCCCTGAGGTTGCAGTAG
195 TTATCTCCCTGAGGTTGCAGTGG
* * * *
13151669 AGCAGATTGAAGCCAATAATCCTATCCCCCTGAAGTTGCAGTGGAGTGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * * *
13151734 TTATCTCTCTGAA---GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGGTTACAGCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
*
13151796 GCAGACTGAGTAAGCAGGTCTTATCTCCCTGA
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGA
13151828 GGTTACAGCG
Statistics
Matches: 558, Mismatches: 34, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
215 76 0.14
217 1 0.00
218 479 0.86
219 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (217 bp):
AGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGCAGCGGA
GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGACAGATCGAAGATGGCAAATCT
TATCTCCCTGAGGTTGCAGTGG
Done.