Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 45 of 126
Found at i:13238332 original size:28 final size:28
Alignment explanation
Indices: 13238279--13238333 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
13238269 TATTATTAAT
* * *
13238279 AAATTAATATTTTAATTTATACTTTTTA
1 AAATTAATATTTTAATTGAAAATTTTTA
13238307 AAATT-ATCATTTTAATTGAAAATTTTT
1 AAATTAAT-ATTTTAATTGAAAATTTTT
13238334 TGTTTCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (28 bp):
AAATTAATATTTTAATTGAAAATTTTTA
Found at i:13239200 original size:25 final size:25
Alignment explanation
Indices: 13239154--13239236 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
13239144 ACGCAATTCA
* ** *
13239154 AACAGAACAGAACCGAATAGAGTAG
1 AACAGAACAGGATGGAACAGAGTAG
*
13239179 AACAGAACAGGATGGAACAGAGCAG
1 AACAGAACAGGATGGAACAGAGTAG
* *
13239204 AACAAAACAAGATGGAACAGCA-TAG
1 AACAGAACAGGATGGAACAG-AGTAG
*
13239229 AACGGAAC
1 AACAGAAC
13239237 GGAGCAGAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 46 0.98
26 1 0.02
ACGTcount: A:0.52, C:0.17, G:0.25, T:0.06
Consensus pattern (25 bp):
AACAGAACAGGATGGAACAGAGTAG
Found at i:13239825 original size:43 final size:43
Alignment explanation
Indices: 13239773--13239912 Score: 183
Period size: 43 Copynumber: 3.3 Consensus size: 43
13239763 TGGAAAAGCG
*
13239773 CCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCTATAAACA
1 CCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCTACAAACA
13239816 CCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCTACAAACA
1 CCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCTACAAACA
* * * * * * * *
13239859 TCGCGATAGAC-CTTGACCTTTAGTGGCACTTTTCCCACAAACG
1 CCGCTAAAGACGC-TGACCTTTAGCGGCGCTTCTCCTACAAACA
13239902 CCGCTAAAGAC
1 CCGCTAAAGAC
13239913 TGCGGCGCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 83 0.99
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (43 bp):
CCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCTACAAACA
Found at i:13240024 original size:42 final size:43
Alignment explanation
Indices: 13239914--13240040 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 43
13239904 GCTAAAGACT
* * * *
13239914 GCGGCGCTTCTCCCACAAATGCCGCTAAAGACCACTACCTTTA
1 GCGGCGCTTCTACCACAAACGCCGCTAAAGAACACAACCTTTA
* * * *
13239957 GCAGCGCTTTTATCACAAACACCGCTAAAGAACA-AACCTTTA
1 GCGGCGCTTCTACCACAAACGCCGCTAAAGAACACAACCTTTA
* * * *
13239999 GCGGCGCTTCTAGCAAAAACGCCGCTAAA-AACATAATCTTTA
1 GCGGCGCTTCTACCACAAACGCCGCTAAAGAACACAACCTTTA
13240041 AAAAAATTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
41 4 0.06
42 38 0.55
43 27 0.39
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (43 bp):
GCGGCGCTTCTACCACAAACGCCGCTAAAGAACACAACCTTTA
Found at i:13241982 original size:31 final size:31
Alignment explanation
Indices: 13241947--13242008 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13241937 GAATAAAAGC
*
13241947 ACCTGGGTTAAAAACAAACACAGACGAGACT
1 ACCTGGGTTAAAAACAAACACAAACGAGACT
13241978 ACCTGGGTTAAAAACAAACACAAACGAGACT
1 ACCTGGGTTAAAAACAAACACAAACGAGACT
13242009 CTATCACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.13
Consensus pattern (31 bp):
ACCTGGGTTAAAAACAAACACAAACGAGACT
Found at i:13244160 original size:15 final size:15
Alignment explanation
Indices: 13244140--13244169 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13244130 ATAATTTAAA
13244140 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
13244155 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
13244170 TAAATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:13244866 original size:20 final size:19
Alignment explanation
Indices: 13244825--13244868 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
13244815 TAAATTGATT
*
13244825 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
13244844 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
13244864 AATAT
1 AATAT
13244869 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:13244940 original size:41 final size:39
Alignment explanation
Indices: 13244885--13245027 Score: 162
Period size: 41 Copynumber: 3.5 Consensus size: 39
13244875 GGCGCTTTCC
*
13244885 AAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCTT
1 AAAAACGCCGCTAAAGCCC-GAGCATTAGCGGCGCTTCTT
*
13244925 AGAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCTT-TT
1 A-AAAACGCCGCTAAAG-CCCGAGCATTAGCGGCGCTTCTT
* * *
13244965 CCAAAAACGCTGCTAAAGCTCCGAGCATTAGCGGTGCTTTCTC
1 --AAAAACGCCGCTAAAGC-CCGAGCATTAGCGGCGC-TTCTT
13245008 AAAAACGCCGCTAAAAGCCC
1 AAAAACGCCGCT-AAAGCCC
13245028 CGAAAGGTCG
Statistics
Matches: 88, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
40 4 0.05
41 72 0.82
42 11 0.12
43 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGCCCGAGCATTAGCGGCGCTTCTT
Found at i:13245018 original size:82 final size:82
Alignment explanation
Indices: 13244873--13245030 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 82
13244863 AAATATTTTT
* *
13244873 GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCTTAGAAAATGCCGCT
1 GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCTCAGAAAACGCCGCT
13244938 -AAAGCCCCGAGCATTA
66 AAAAGCCCCGAGCATTA
* * *
13244954 GCGGCGCTTTTCCAAAAACGCTGCTAAAGCTCC-GAGCATTAGCGGTGCTTTCTCA-AAAACGCC
1 GCGGCGC-TTTCCAAAAACGCCGCTAAAGC-CCTAAGCATTAGCGGCGC-TTCTCAGAAAACGCC
13245017 GCTAAAAGCCCCGA
63 GCTAAAAGCCCCGA
13245031 AAGGTCGAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
81 7 0.10
82 44 0.65
83 17 0.25
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (82 bp):
GCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCTCAGAAAACGCCGCT
AAAAGCCCCGAGCATTA
Found at i:13262718 original size:7 final size:7
Alignment explanation
Indices: 13262706--13262731 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13262696 CTAAGCCTAA
13262706 AAACTAC
1 AAACTAC
13262713 AAACTAC
1 AAACTAC
13262720 AAACTAC
1 AAACTAC
13262727 AAACT
1 AAACT
13262732 GAAATTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACTAC
Found at i:13274877 original size:3 final size:3
Alignment explanation
Indices: 13274871--13274901 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13274861 AACATCTTCT
13274871 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13274902 CTTTTGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13275205 original size:11 final size:11
Alignment explanation
Indices: 13275189--13275213 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13275179 AATTATAGAA
13275189 ATTTTAAAAAT
1 ATTTTAAAAAT
13275200 ATTTTAAAAAT
1 ATTTTAAAAAT
13275211 ATT
1 ATT
13275214 AAAATTATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:13275266 original size:18 final size:19
Alignment explanation
Indices: 13275239--13275274 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13275229 ATTTAAATTT
13275239 TTTTTAAAAAAAAGAAAAC
1 TTTTTAAAAAAAAGAAAAC
13275258 TTTTT-AAAAAAAGAAAA
1 TTTTTAAAAAAAAGAAAA
13275275 TGTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (19 bp):
TTTTTAAAAAAAAGAAAAC
Found at i:13275696 original size:20 final size:20
Alignment explanation
Indices: 13275673--13275716 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13275663 GTTGATGAGA
*
13275673 AAAATGT-AAATATAAATTAT
1 AAAATGTAAAACATAAA-TAT
*
13275693 AAAATTTAAAACATAAATAT
1 AAAATGTAAAACATAAATAT
13275713 AAAA
1 AAAA
13275717 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATGTAAAACATAAATAT
Found at i:13275976 original size:23 final size:25
Alignment explanation
Indices: 13275936--13275982 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
13275926 TTTAATTTTA
*
13275936 AAAAGTTGAGTGACTAAAA-AAAAT
1 AAAAGTTGAATGACTAAAATAAAAT
*
13275960 AAAA-TTGAATGATTAAAATAAAA
1 AAAAGTTGAATGACTAAAATAAAA
13275983 GGAACTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (25 bp):
AAAAGTTGAATGACTAAAATAAAAT
Found at i:13278317 original size:10 final size:9
Alignment explanation
Indices: 13278270--13278491 Score: 58
Period size: 9 Copynumber: 23.2 Consensus size: 9
13278260 ACATGTGACA
*
13278270 AAAAATGAT
1 AAAAATTAT
13278279 AAAAA--AT
1 AAAAATTAT
*
13278286 AAAAATCAAT
1 AAAAAT-TAT
13278296 AAAAATTAT
1 AAAAATTAT
13278305 AAAAATTATT
1 AAAAATTA-T
**
13278315 AAATTTTAAT
1 AAAAATT-AT
*
13278325 AAAAAATAT
1 AAAAATTAT
*
13278334 AAGAAATATTT
1 AA-AAAT-TAT
***
13278345 AATTTTTATT
1 AAAAATTA-T
*
13278355 AAAAATTAGAA
1 AAAAATT--AT
13278366 AAAAGATTAT
1 AAAA-ATTAT
**
13278376 AAAAATCCT
1 AAAAATTAT
13278385 AAAAATTAT
1 AAAAATTAT
* *
13278394 AAATA-TAG
1 AAAAATTAT
13278402 AGAAAA-TAT
1 A-AAAATTAT
*
13278411 ATAAAATTTT
1 A-AAAATTAT
* *
13278421 ATAAAGTCAT
1 A-AAAATTAT
*
13278431 AAGAAAATGAT
1 -A-AAAATTAT
* *
13278442 AAAAAATGT
1 AAAAATTAT
*
13278451 AAAGAAATAT
1 AAA-AATTAT
13278461 -AAAATTCAT
1 AAAAATT-AT
13278470 AAAAGAATTAT
1 -AAA-AATTAT
13278481 AAAAATTAT
1 AAAAATTAT
13278490 AA
1 AA
13278492 TTATCATGCC
Statistics
Matches: 156, Mismatches: 38, Indels: 38
0.67 0.16 0.16
Matches are distributed among these distances:
7 7 0.04
8 6 0.04
9 64 0.41
10 51 0.33
11 20 0.13
12 8 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13278327 original size:29 final size:29
Alignment explanation
Indices: 13278293--13278368 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
13278283 AATAAAAATC
13278293 AATAAAAATTATAAAAAT-TATTAAATTTT
1 AATAAAAATTATAAAAATAT-TTAAATTTT
* *
13278322 AATAAAAAATATAAGAAATATTTAATTTTT
1 AATAAAAATTATAA-AAATATTTAAATTTT
* *
13278352 ATTAAAAATTAGAAAAA
1 AATAAAAATTATAAAAA
13278369 AGATTATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.40
30 23 0.57
31 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
AATAAAAATTATAAAAATATTTAAATTTT
Found at i:13278352 original size:30 final size:29
Alignment explanation
Indices: 13278293--13278360 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
13278283 AATAAAAATC
*
13278293 AATAAAAATTATAAAAATTATTAAATTTT
1 AATAAAAAATATAAAAATTATTAAATTTT
*
13278322 AATAAAAAATATAAGAAA-TATTTAATTTT
1 AATAAAAAATATAA-AAATTATTAAATTTT
* *
13278351 TATTAAAAAT
1 AATAAAAAAT
13278361 TAGAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 31 0.91
30 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (29 bp):
AATAAAAAATATAAAAATTATTAAATTTT
Found at i:13278443 original size:29 final size:29
Alignment explanation
Indices: 13278390--13278445 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
13278380 ATCCTAAAAA
*
13278390 TTATAAATATAGAGAAAATATATAAAATT
1 TTATAAATATAGAGAAAATAGATAAAATT
13278419 TTATAAAGTCATA-AGAAAAT-GATAAAA
1 TTATAAA-T-ATAGAGAAAATAGATAAAA
13278446 AATGTAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 13 0.54
30 8 0.33
31 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (29 bp):
TTATAAATATAGAGAAAATAGATAAAATT
Found at i:13278746 original size:13 final size:13
Alignment explanation
Indices: 13278730--13278756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13278720 TTTAGTAAAA
13278730 TTTAAATATTTAT
1 TTTAAATATTTAT
13278743 TTTAAATATTTAT
1 TTTAAATATTTAT
13278756 T
1 T
13278757 AAAGTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAAATATTTAT
Found at i:13278783 original size:19 final size:19
Alignment explanation
Indices: 13278751--13278794 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13278741 ATTTTAAATA
13278751 TTTATTAAAGTTTAATGATT
1 TTTA-TAAAGTTTAATGATT
* *
13278771 TTTATAAATTTTATTGATT
1 TTTATAAAGTTTAATGATT
13278790 TTTAT
1 TTTAT
13278795 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTATAAAGTTTAATGATT
Found at i:13279105 original size:3 final size:3
Alignment explanation
Indices: 13279097--13279127 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13279087 TGGCCACATT
13279097 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13279128 TAAAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13280164 original size:26 final size:26
Alignment explanation
Indices: 13280128--13280180 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13280118 ATATTCCAAG
13280128 TTAAAAACAAAATCTAAAACGAACAT
1 TTAAAAACAAAATCTAAAACGAACAT
13280154 TTAAAAACAAAATCTAAAACGAACAT
1 TTAAAAACAAAATCTAAAACGAACAT
13280180 T
1 T
13280181 ATTGAGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.21
Consensus pattern (26 bp):
TTAAAAACAAAATCTAAAACGAACAT
Found at i:13282936 original size:56 final size:56
Alignment explanation
Indices: 13282874--13282990 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 56
13282864 TACGCAATGA
* *
13282874 ACATTTATACAA-ACATTTCATATAATGCCATGGGTCTTAACCATATAGTCTTACAT
1 ACATTTATACAATA-ATATCAGATAATGCCATGGGTCTTAACCATATAGTCTTACAT
* ** * * *
13282930 ACATTTATTCAATAATATCAGATCTTGTCATGGGTCTTAACCTTATGGTCTTACAT
1 ACATTTATACAATAATATCAGATAATGCCATGGGTCTTAACCATATAGTCTTACAT
*
13282986 GCATT
1 ACATT
13282991 CGTTCAATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 50 0.98
57 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (56 bp):
ACATTTATACAATAATATCAGATAATGCCATGGGTCTTAACCATATAGTCTTACAT
Found at i:13282997 original size:56 final size:55
Alignment explanation
Indices: 13282901--13283048 Score: 181
Period size: 56 Copynumber: 2.7 Consensus size: 55
13282891 TCATATAATG
* * *
13282901 CCATGGGTCTTAACCATATAGTCTTACATACATTTATTCAATAATATCAGATCTTGT
1 CCATGGGTCTTAACCTTATGGTCTTACATACATTCATTCAATAATATC-GATCTT-T
* * *
13282958 -CATGGGTCTTAACCTTATGGTCTTACATGCATTCGTTCAATTATATCGATCTTT
1 CCATGGGTCTTAACCTTATGGTCTTACATACATTCATTCAATAATATCGATCTTT
* ** *
13283012 CCATGGATCTTAAGGTCATGGTCTTACATACATTCAT
1 CCATGGGTCTTAACCTTATGGTCTTACATACATTCAT
13283049 ATATCGCGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 1 0.01
55 36 0.46
56 41 0.53
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (55 bp):
CCATGGGTCTTAACCTTATGGTCTTACATACATTCATTCAATAATATCGATCTTT
Found at i:13284331 original size:26 final size:26
Alignment explanation
Indices: 13284278--13284340 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
13284268 TTATTTTTCC
* *
13284278 ATTATTATATAATTTATAATAAATTT
1 ATTACTATTTAATTTATAATAAATTT
13284304 ATT-CATATTTAATTTATAATATAA-TT
1 ATTAC-TATTTAATTTATAATA-AATTT
13284330 ATTACTATTTA
1 ATTACTATTTA
13284341 TGTTTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTACTATTTAATTTATAATAAATTT
Found at i:13286790 original size:29 final size:28
Alignment explanation
Indices: 13286754--13286831 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13286744 TCATGAGATT
13286754 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13286784 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13286811 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
13286832 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13287049 original size:174 final size:174
Alignment explanation
Indices: 13286784--13287111 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
13286774 AAATTGTACA
*
13286784 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
13286849 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13286914 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
13286958 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
13287023 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13287088 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13287112 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13291676 original size:49 final size:49
Alignment explanation
Indices: 13291613--13291709 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
13291603 TCTAGAAGGG
* *
13291613 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGAAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
*
13291662 ATAAATAGTGATAAGAGTGTAGACAATGGACGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATG
13291710 CATAGCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
Found at i:13292449 original size:27 final size:28
Alignment explanation
Indices: 13292395--13292454 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
13292385 AAATGTTAGA
*
13292395 AAAGAATAAGCCTTTGTGGTGAACTATG
1 AAAGAATAAGCCTTCGTGGTGAACTATG
*
13292423 AAAGAATAAGCC-TCGTGGTGAATTATG
1 AAAGAATAAGCCTTCGTGGTGAACTATG
13292450 AAAGA
1 AAAGA
13292455 TTATCCCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (28 bp):
AAAGAATAAGCCTTCGTGGTGAACTATG
Found at i:13297811 original size:29 final size:27
Alignment explanation
Indices: 13297750--13297811 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
13297740 ATACGGACTA
*
13297750 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
13297777 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
13297807 AAATA
1 AAATA
13297812 CTATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:13299471 original size:50 final size:50
Alignment explanation
Indices: 13299417--13299576 Score: 160
Period size: 50 Copynumber: 3.2 Consensus size: 50
13299407 TGCCTTCGTA
13299417 GCTTTAATCTATTTCATTGCACAGCAAGGGAAGTAAGATTCGCAGTTGTG
1 GCTTTAATCTATTTCATTGCACAGCAAGGGAAGTAAGATTCGCAGTTGTG
* * * *** * * * *
13299467 GCTTTAATCTTTTTAACTGCA-ATGTTGGGGAAGCAAGATTCACCGTTGTA
1 GCTTTAATCTATTTCATTGCACA-GCAAGGGAAGTAAGATTCGCAGTTGTG
* * * * * *
13299517 GCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAGATTCGCTGTTATG
1 GCTTTAATCTATTTCATTGCACAGCAAGGGAAGTAAGATTCGCAGTTGTG
13299567 GCTTTAATCT
1 GCTTTAATCT
13299577 TTTTAACTGT
Statistics
Matches: 85, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
49 1 0.01
50 84 0.99
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
GCTTTAATCTATTTCATTGCACAGCAAGGGAAGTAAGATTCGCAGTTGTG
Found at i:13299569 original size:100 final size:100
Alignment explanation
Indices: 13299389--13299654 Score: 354
Period size: 100 Copynumber: 2.7 Consensus size: 100
13299379 TTTGCTGTAG
* * * * * *
13299389 TGTTGGGGAAACAAGATTTGCC-TTCGTAGCTTTAATCTATTTCATTGCACAGCAAGGGAAGTAA
1 TGTTGGGGAAGCAAGATTCGCCGTT-GTAGCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAA
*
13299453 GATTCGCAGTTGTGGCTTTAATCTTTTTAACTGCAA
65 GATTCGCAGTTATGGCTTTAATCTTTTTAACTGCAA
*
13299489 TGTTGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
1 TGTTGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
* *
13299554 ATTCGCTGTTATGGCTTTAATCTTTTTAACTGTAA
66 ATTCGCAGTTATGGCTTTAATCTTTTTAACTGCAA
* * * * * * * *
13299589 TGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAAGCTGTTCCACTGTACCGCCTGGGAGGTAAG
1 TGTTGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
13299654 A
66 A
13299655 ATTGCTATTC
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
100 144 0.99
101 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (100 bp):
TGTTGGGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAGGGAAGTAAG
ATTCGCAGTTATGGCTTTAATCTTTTTAACTGCAA
Found at i:13299598 original size:50 final size:50
Alignment explanation
Indices: 13299444--13299620 Score: 192
Period size: 50 Copynumber: 3.5 Consensus size: 50
13299434 TGCACAGCAA
* * *
13299444 GGGAAGTAAGATTCGCAGTTGTGGCTTTAATCTTTTTAACTGCAATGTTG
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
* * * * ** * ** * *
13299494 GGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCA
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
* * *
13299544 GGGAAGTAAGATTCGCTGTTATGGCTTTAATCTTTTTAACTGTAATGTCG
1 GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
*
13299594 GGGAAGCAAGATTCGCTGTTGTAGCTT
1 GGGAAGCAAGATTCGCTGTTGTGGCTT
13299621 CAAGCTGTTC
Statistics
Matches: 97, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
Found at i:13299771 original size:44 final size:43
Alignment explanation
Indices: 13299712--13300173 Score: 273
Period size: 44 Copynumber: 10.7 Consensus size: 43
13299702 TGATGCGATC
* * *
13299712 CACTCTACTGCAACTTCAGAGAGATAAAATCTATTACTTTAATT
1 CACTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTTAATT
* * * * *
13299756 CACTCAACTACAACTTCAGGGAGATAGGATTATTGGCTTCAA-T
1 CACTCCACTGCAACTTCAGGGAGATAAGATTATT-ACTTTAATT
* * * *** *
13299799 CTGCTCCACTGCAACCTCAGGGAGATAAGA-T-TTAATGCGATC
1 C-ACTCCACTGCAACTTCAGGGAGATAAGATTATTACTTTAATT
* **
13299841 CACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAATAT
1 CACTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTTAAT-T
* * **
13299886 -GCTCCACTACAACTTCAGGGAGATAAGATTATCGCTTTCAA-T
1 CACTCCACTGCAACTTCAGGGAGATAAGATTATTACTTT-AATT
* * * *
13299928 CTGCTCCACTGCAA-TCTCAGGGAGATAAGA-T-TTAATGCT-ATC
1 C-ACTCCACTGCAACT-TCAGGGAGATAAGATTATTACT-TTAATT
* * * *
13299970 CAATCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATC
1 CACTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTTAATT
* * * ** *
13300014 CGCTCCACTACAACTTCAGGGAGATAGGATTATCGCCTTCAA-T
1 CACTCCACTGCAACTTCAGGGAGATAAGATTAT-TACTTTAATT
* * * * *** *
13300057 CTGCTCCACTGCAACCTCAGGAAGATAAGA-T-TTAATGCGATC
1 C-ACTCCACTGCAACTTCAGGGAGATAAGATTATTACTTTAATT
* * *
13300099 CACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATC
1 CACTCCACTGCAACTTCAGGGAGATAAGA-TTATTACTTTAATT
* * *
13300143 CGCTCCACTACAACTTCAGGGAGATAGGATT
1 CACTCCACTGCAACTTCAGGGAGATAAGATT
13300174 TGTGGCTTAA
Statistics
Matches: 314, Mismatches: 80, Indels: 49
0.71 0.18 0.11
Matches are distributed among these distances:
41 75 0.24
42 10 0.03
43 28 0.09
44 201 0.64
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
CACTCCACTGCAACTTCAGGGAGATAAGATTATTACTTTAATT
Found at i:13299845 original size:85 final size:84
Alignment explanation
Indices: 13299756--13300174 Score: 340
Period size: 85 Copynumber: 4.9 Consensus size: 84
13299746 TACTTTAATT
* * * * *
13299756 CACTCAACTACAACTTCAGGGAGATAGGATTATTGGCTTCAATCTGCTCCACTGCAACCTCAGGG
1 CACTCCACTGCAACTTCAGGGAGATAAGATTATT-ACTTCAATCTGCTCCACTGCAACTTCAGGG
*
13299821 AGATAAGATTTAATGCGATC
65 AGATAAGATTTAATGCAATC
* ** * * *
13299841 CACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAATATGCTCCACTACAACTTCAGGG
1 CACTCCACTGCAACTTCAGGGAGATAAGAT-TATTACTTCAATCTGCTCCACTGCAACTTCAGGG
** *
13299906 AGATAAGATTATCGCTTTCAATC
65 AGATAAGATT-T--AATGCAATC
** * * * *** * *
13299929 TGCTCCACTGCAA-TCTCAGGGAGATAAGA-T-TTAATGCTATCCAATCTACTGCAACTTCAGAG
1 CACTCCACTGCAACT-TCAGGGAGATAAGATTATTACTTCAATCTGCTCCACTGCAACTTCAGGG
* **
13299991 AGATAAGATCTATTACTTTAATC
65 AGATAAGA--T-TTAATGCAATC
* * * ** * *
13300014 CGCTCCACTACAACTTCAGGGAGATAGGATTATCGCCTTCAATCTGCTCCACTGCAACCTCAGGA
1 CACTCCACTGCAACTTCAGGGAGATAAGATTAT-TACTTCAATCTGCTCCACTGCAACTTCAGGG
*
13300079 AGATAAGATTTAATGCGATC
65 AGATAAGATTTAATGCAATC
* * * * *
13300099 CACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCCGCTCCACTACAACTTCAGGG
1 CACTCCACTGCAACTTCAGGGAGATAAGA-TTATTACTTCAATCTGCTCCACTGCAACTTCAGGG
*
13300164 AGATAGGATTT
65 AGATAAGATTT
13300175 GTGGCTTAAA
Statistics
Matches: 256, Mismatches: 65, Indels: 26
0.74 0.19 0.07
Matches are distributed among these distances:
85 184 0.72
86 13 0.05
87 4 0.02
88 55 0.21
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (84 bp):
CACTCCACTGCAACTTCAGGGAGATAAGATTATTACTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTAATGCAATC
Found at i:13299899 original size:129 final size:129
Alignment explanation
Indices: 13299669--13300190 Score: 814
Period size: 129 Copynumber: 4.0 Consensus size: 129
13299659 CTATTCTCAG
* * * * *
13299669 TCTGCCCCACTGTAACTTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
* * * *
13299734 GATAAAATCTATTACTTTAATTCACTCAACTACAACTTCAGGGAGATAGGATTATTGGCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTCAA
*
13299798 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
** * *
13299863 GATAAGATCTATTACTTTAATATGCTCCACTACAACTTCAGGGAGATAAGATTA-TCGCTTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGC-TTCAA
* * *
13299927 TCTGCTCCACTGCAATCTCAGGGAGATAAGATTTAATGCTATCCAATCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
* *
13299992 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGCCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTCAA
*
13300056 TCTGCTCCACTGCAACCTCAGGAAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
* *
13300121 GATAAGATTTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATT-TGTGGCTTAAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-TGGCTTCAA
13300185 TCTGCT
1 TCTGCT
13300191 TCCTTACACT
Statistics
Matches: 359, Mismatches: 31, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
128 4 0.01
129 354 0.99
130 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (129 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTCAA
Found at i:13300299 original size:129 final size:129
Alignment explanation
Indices: 13300166--13300435 Score: 450
Period size: 129 Copynumber: 2.1 Consensus size: 129
13300156 CTTCAGGGAG
* * *
13300166 ATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGC
13300231 CCCGCTACTACTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGATGACCAAGGAT
66 CCCGCTACTACTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGATGACCAAGGAT
*
13300295 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCATCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGC
* * * * *
13300360 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCCAACCTATTCCACTGATGACCAGGGAT
66 CCCGCTACTACTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGATGACCAAGGAT
*
13300424 ATAGGACATGTG
1 ATAGGACTTGTG
13300436 ACTTCACCGA
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (129 bp):
ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGC
CCCGCTACTACTTAGGGAGACAAGATCTATAATTTCCCAACCTATTCCACTGATGACCAAGGAT
Found at i:13307622 original size:29 final size:27
Alignment explanation
Indices: 13307561--13307622 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
13307551 ATACGGACTA
*
13307561 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
13307588 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
13307618 AAATA
1 AAATA
13307623 CTATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:13308936 original size:14 final size:13
Alignment explanation
Indices: 13308909--13308935 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13308899 ACATTTTCAC
13308909 AGCACTTTTTAAA
1 AGCACTTTTTAAA
13308922 AGCACTTTTTAAA
1 AGCACTTTTTAAA
13308935 A
1 A
13308936 ATAATGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AGCACTTTTTAAA
Found at i:13309106 original size:22 final size:22
Alignment explanation
Indices: 13309076--13309118 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13309066 ATATTATTTG
13309076 ATAAAATTTTA-AAAAAAAATC
1 ATAAAATTTTATAAAAAAAATC
*
13309097 ATAAATATTTTATTAAAAAAAT
1 ATAAA-ATTTTATAAAAAAAAT
13309119 AATTTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAATTTTATAAAAAAAATC
Found at i:13311701 original size:24 final size:24
Alignment explanation
Indices: 13311674--13311722 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13311664 ATCTTCACAA
13311674 TCACATGTATAAGCTTAGACAAAG
1 TCACATGTATAAGCTTAGACAAAG
13311698 TCACATGTATAAGCTTAGACAAAG
1 TCACATGTATAAGCTTAGACAAAG
13311722 T
1 T
13311723 TGTATAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (24 bp):
TCACATGTATAAGCTTAGACAAAG
Found at i:13311728 original size:20 final size:21
Alignment explanation
Indices: 13311678--13311729 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 21
13311668 TCACAATCAC
13311678 ATGTATAAGCTTAGACAAAGT
1 ATGTATAAGCTTAGACAAAGT
13311699 CACATGTATAAGCTTAGACAAAGT
1 ---ATGTATAAGCTTAGACAAAGT
13311723 -TGTATAA
1 ATGTATAA
13311730 AGAAAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.25
24 21 0.75
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATAAGCTTAGACAAAGT
Found at i:13315232 original size:20 final size:20
Alignment explanation
Indices: 13315207--13315244 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13315197 AAATATACAT
*
13315207 ATAGAAATTATAAAATATGG
1 ATAGAAAGTATAAAATATGG
*
13315227 ATAGAAAGTATAATATAT
1 ATAGAAAGTATAAAATAT
13315245 ATATATACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
ATAGAAAGTATAAAATATGG
Found at i:13315321 original size:106 final size:101
Alignment explanation
Indices: 13315199--13315412 Score: 322
Period size: 106 Copynumber: 2.1 Consensus size: 101
13315189 ATAAAGAAAA
*
13315199 ATATACATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATATACGTACATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTAT-A-ATATATATATACGTAC--ATATA
* * *
13315264 TATAAGTTAATAAATATATAGATCATAAAGAA-AATGATTAC
62 TATAAGGTAAT-AATATATAAATCATAAA-AATAATAATTAC
*
13315305 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
13315370 AGGTAATAATATATAAATCATAAAAATAATAATTAC
66 AGGTAATAATATATAAATCATAAAAATAATAATTAC
13315406 ATATATA
1 ATATATA
13315413 AACTTAAAAA
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
100 2 0.02
101 31 0.30
102 15 0.15
104 16 0.16
105 1 0.01
106 37 0.36
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (101 bp):
ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
AGGTAATAATATATAAATCATAAAAATAATAATTAC
Found at i:13315335 original size:20 final size:20
Alignment explanation
Indices: 13315307--13315355 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
13315297 ATGATTACAT
*
13315307 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
13315327 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
13315347 ATATATATA
1 ATATATATA
13315356 CGTACATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:13316009 original size:19 final size:19
Alignment explanation
Indices: 13315985--13316077 Score: 141
Period size: 19 Copynumber: 4.9 Consensus size: 19
13315975 AATCATATCT
13315985 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
13316004 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
13316023 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
13316042 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
13316061 TCTAAGATTGCATATCA
1 TCTAAGATTGCATATCA
13316078 NNNNNNNNNN
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13316031 original size:38 final size:38
Alignment explanation
Indices: 13315985--13316077 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
13315975 AATCATATCT
13315985 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
13316023 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
13316061 TCTAAGATTGCATATCA
1 TCTAAGATTGCATATCA
13316078 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:13316484 original size:44 final size:44
Alignment explanation
Indices: 13316423--13316618 Score: 111
Period size: 44 Copynumber: 4.5 Consensus size: 44
13316413 AAAATCCGCC
* *
13316423 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* **
13316467 ATCTTCAATCTATTCCACTGTTG-TTCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTT-AGGGAGA-TAAG-A-T-CTGAA
* * ** * * * **
13316511 -GCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGAA
* *
13316555 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
*
13316599 ATCTTCAATCTATTCCACTA
1 ATCTTCAATCTACTCCACTA
13316619 TTGTCCAGGG
Statistics
Matches: 107, Mismatches: 29, Indels: 32
0.64 0.17 0.19
Matches are distributed among these distances:
42 4 0.04
43 21 0.20
44 63 0.59
45 16 0.15
46 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:13316489 original size:132 final size:131
Alignment explanation
Indices: 13316252--13316697 Score: 795
Period size: 132 Copynumber: 3.4 Consensus size: 131
13316242 NNNNNNNNNN
*
13316252 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTATTGCTT
1 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
*
13316317 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTAGCT
66 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACT-GCT
13316382 TC
130 TC
13316384 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
13316449 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGT-TCAGGGAAGTAGAATTACTGGC
66 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCT-AGGGAAGTAGAATTACT-GC
13316513 TTC
129 TTC
13316516 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
* *
13316581 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGACT
66 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTG-CT
13316646 TC
130 TC
* *
13316648 AATGTACTCCACTGTAACCACAAGGAGGTAAAATCTGCCATCTTCGATCT
1 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
13316698 ACTTCGCTGT
Statistics
Matches: 304, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
131 2 0.01
132 302 0.99
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (131 bp):
AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGCTT
C
Found at i:13321108 original size:132 final size:132
Alignment explanation
Indices: 13320894--13321682 Score: 1249
Period size: 132 Copynumber: 6.0 Consensus size: 132
13320884 ATTGGATGCG
* * * * *
13320894 ACCTACTCCACTACTACTTAGGGAGACAAAGCTTGGTGGC-TAAATCTGCTTCCTACTATCTTGG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
** * *
13320958 AAAGATAAGATTTGCCGTCTTCGATATGCTTCACTACTGCTTAGGGAGATAAGATCTATAATCTT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
13321023 CA
131 CA
*
13321025 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* *
13321090 GAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
13321155 CA
131 CA
*
13321157 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * * *
13321222 AAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTAGGGAGCTAAGATCTATAATCTT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
13321287 CA
131 CA
* * * * * *
13321289 ACCTGCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCAACTATCTTAG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * * *
13321354 AAAGATAAGAGTCATCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCCT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
13321419 CA
131 CA
*
13321421 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* *
13321486 AAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
13321551 CA
131 CA
*
13321553 ACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
1 ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
* * *
13321618 AAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTTCTTAGGGAGATAAGATCTGA-AATCT
66 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCT
13321682 T
130 T
13321683 TAGTCTGCCT
Statistics
Matches: 607, Mismatches: 49, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
131 35 0.06
132 571 0.94
133 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
ACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGG
AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTT
CA
Found at i:13321140 original size:44 final size:44
Alignment explanation
Indices: 13320960--13321672 Score: 151
Period size: 44 Copynumber: 16.2 Consensus size: 44
13320950 TATCTTGGAA
** * * *
13320960 AGATAAGATTTGCCGTCTTCGATATGCTTCACTACTGCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*** * * * * *
13321004 AGATAAGA-TCTATAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *** * *
13321048 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGG
1 AGATAA-GATTCACCGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
*
13321091 AAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * *
13321136 AGATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *** * * *
13321180 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
13321224 AGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* *** * * * * *
13321268 AGCTAAGA-TCTATAATCTTCAACCTGCTTCGCTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *** * * * **
13321312 AGACAAGGCTT-GGTGGCTTAAATCTGCTTTCAACTA-T-CTTAGAA
1 AGATAA-GATTCACCGTCTTCAATCTGC--TCCACTACTGCTTAGGG
* * * *
13321356 AGATAAGAGTCATCGTCCTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*** * * * * * *
13321400 AGATAAGA-TCTATAATCCTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *** * * *
13321444 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
13321488 AGATAAGATTCATCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * *
13321532 AGATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-ACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *** * * *
13321576 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCACCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
13321620 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTTCTTAGGG
1 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
13321664 AGATAAGAT
1 AGATAAGAT
13321673 CTGAAATCTT
Statistics
Matches: 453, Mismatches: 168, Indels: 96
0.63 0.23 0.13
Matches are distributed among these distances:
42 29 0.06
43 41 0.09
44 334 0.74
45 23 0.05
46 26 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:13332518 original size:17 final size:17
Alignment explanation
Indices: 13332498--13332532 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13332488 ACGGAGGTAA
13332498 AAACCTCACGAAGGCAT
1 AAACCTCACGAAGGCAT
13332515 AAACCTCACGAAGGCAT
1 AAACCTCACGAAGGCAT
13332532 A
1 A
13332533 GCTTCTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.17, T:0.11
Consensus pattern (17 bp):
AAACCTCACGAAGGCAT
Found at i:13333291 original size:98 final size:98
Alignment explanation
Indices: 13333122--13333316 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
13333112 AAACAATAAA
*
13333122 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
13333187 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
* * * *
13333220 ACTTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
13333285 CCTTTAGAATCTCAAACTCGGAACATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAACATTTCCTT
13333317 CATGATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAACATTTCCTTT
Found at i:13338863 original size:20 final size:20
Alignment explanation
Indices: 13338838--13338876 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13338828 AAATATACAT
*
13338838 ATAGAAATTATAAAATATAG
1 ATAGAAAGTATAAAATATAG
*
13338858 ATAGAAAGTATAATATATA
1 ATAGAAAGTATAAAATATA
13338877 TACGTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
ATAGAAAGTATAAAATATAG
Found at i:13338886 original size:48 final size:48
Alignment explanation
Indices: 13338833--13338988 Score: 176
Period size: 48 Copynumber: 3.2 Consensus size: 48
13338823 AAGAAAAATA
13338833 TACATATAGAAATTATAAAATATAGATAGAAAGTATAATATATATACG
1 TACATATAGAAATTATAAAATATAGATAGAAAGTATAATATATATACG
* *
13338881 TACATATATATAAGTTAATAAATATATAGATCATAAAG-ATAATGATAATATA--
1 TACATATAGA-AA-TT-ATAAA-ATATAGAT-AGAAAGTATAAT-AT-ATATACG
* *
13338933 TATATATAGAAATTATAAAATAT-GTATAGAAAGTATTATATATATACG
1 TACATATAGAAATTATAAAATATAG-ATAGAAAGTATAATATATATACG
13338981 TACATATA
1 TACATATA
13338989 TATATAAGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
46 5 0.06
47 8 0.09
48 26 0.29
49 7 0.08
50 4 0.04
51 7 0.08
52 21 0.23
53 7 0.08
54 5 0.06
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (48 bp):
TACATATAGAAATTATAAAATATAGATAGAAAGTATAATATATATACG
Found at i:13338911 original size:52 final size:51
Alignment explanation
Indices: 13338847--13339010 Score: 169
Period size: 52 Copynumber: 3.2 Consensus size: 51
13338837 TATAGAAATT
13338847 ATAAAATATAGATAGAAAGTATAATATATATACGTACATATATATAAGTTA
1 ATAAAATATAGATAGAAAGTATAATATATATACGTACATATATATAAGTTA
* * * *
13338898 ATAAATATATAGATCATAAAG-ATAATGATA-ATA--TATATATATAGAAATT-
1 ATAAA-ATATAGAT-AGAAAGTATAAT-ATATATACGTACATATATATAAGTTA
* *
13338947 ATAAAATAT-GTATAGAAAGTATTATATATATACGTACATATATATATAAGGTA
1 ATAAAATATAG-ATAGAAAGTATAATATATATACGTAC--ATATATATAAGTTA
13339000 ATAAATATATA
1 ATAAA-ATATA
13339011 AATCATAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
47 9 0.10
48 13 0.14
49 5 0.06
50 15 0.17
51 5 0.06
52 26 0.29
53 13 0.14
54 4 0.04
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (51 bp):
ATAAAATATAGATAGAAAGTATAATATATATACGTACATATATATAAGTTA
Found at i:13338947 original size:100 final size:101
Alignment explanation
Indices: 13338830--13339025 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 101
13338820 ATAAAGAAAA
13338830 ATATACATATAGAAATTATAAAATATAG-ATAGAAAGTATAATATATATACGTAC-ATATATATA
1 ATATACATATAGAAATTATAAAATAT-GTATAGAAAGTATAATATATATACGTACAATATATATA
* * *
13338893 AGTTAATAAATATATAGATCATAAAGATAATGATAAT
65 AGGTAATAAATATATAAATCATAAAAATAATGATAAT
* *
13338930 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATTATATATATACGTACATATATATATA
1 ATATACATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACA-ATATATATA
13338995 AGGTAATAAATATATAAATCATAAAAATAAT
65 AGGTAATAAATATATAAATCATAAAAATAAT
13339026 AATTACATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 1 0.01
100 50 0.57
102 37 0.42
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (101 bp):
ATATACATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACAATATATATAA
GGTAATAAATATATAAATCATAAAAATAATGATAAT
Found at i:13338975 original size:20 final size:20
Alignment explanation
Indices: 13338929--13338978 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13338919 ATAATGATAA
*
13338929 TATATATATATAGAAATTAT
1 TATATATATATAGAAAGTAT
* * *
13338949 AAAATATGTATAGAAAGTAT
1 TATATATATATAGAAAGTAT
13338969 TATATATATA
1 TATATATATA
13338979 CGTACATATA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (20 bp):
TATATATATATAGAAAGTAT
Found at i:13339602 original size:22 final size:21
Alignment explanation
Indices: 13339567--13339662 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
13339557 AAAGGGTATC
* *
13339567 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
13339588 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
13339611 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
13339630 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
13339649 TGCATATCATATCT
1 TACAAATCATATCT
13339663 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:13339610 original size:23 final size:22
Alignment explanation
Indices: 13339567--13339624 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13339557 AAAGGGTATC
* *
13339567 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13339588 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13339611 TGCATATCATATCT
1 TACAAATCATATCT
13339625 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13339627 original size:19 final size:19
Alignment explanation
Indices: 13339603--13339675 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
13339593 AATCATATCT
13339603 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
13339622 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
13339641 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13339660 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13339676 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13340480 original size:27 final size:25
Alignment explanation
Indices: 13340440--13340489 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
13340430 TAAAACTATG
*
13340440 TTTATGAATATAAATTATAAAATAA
1 TTTATGAATATAAATTAAAAAATAA
13340465 TTTATAGAATATTAAATTAAAAAAT
1 TTTAT-GAATA-TAAATTAAAAAAT
13340490 TATTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTATGAATATAAATTAAAAAATAA
Found at i:13340487 original size:26 final size:25
Alignment explanation
Indices: 13340426--13340487 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
13340416 ATAAGTCACA
* *
13340426 AAATTAAAACTATGTTTATGAATAT
1 AAATTAAAAATATATTTATGAATAT
13340451 AAATTATAAAATA-ATTTATAGAATATT
1 AAATTA-AAAATATATTTAT-GAATA-T
13340478 AAATTAAAAA
1 AAATTAAAAA
13340488 ATTATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 11 0.34
26 14 0.44
27 7 0.22
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (25 bp):
AAATTAAAAATATATTTATGAATAT
Found at i:13340501 original size:26 final size:26
Alignment explanation
Indices: 13340445--13340501 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
13340435 CTATGTTTAT
* *
13340445 GAATATAAATTATAAAATAATTTATA
1 GAATATAAATTAAAAAATAATTAATA
*
13340471 GAATATTAAATTAAAAAATTATTAATA
1 GAATA-TAAATTAAAAAATAATTAATA
13340498 -AATA
1 GAATA
13340502 AATGAGGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
GAATATAAATTAAAAAATAATTAATA
Found at i:13343710 original size:44 final size:44
Alignment explanation
Indices: 13343647--13343822 Score: 217
Period size: 44 Copynumber: 3.9 Consensus size: 44
13343637 GTAGTGGAGA
* *
13343647 AGAGGAACAAAGCACCAGCAGAGGAAGAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
* *
13343691 AGAGGAACAAATAACCAGCAGAGGAACAAAGAACCTGCACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
* * *
13343735 AGAAGAACAAAGAACTAGCACCAGCAGAAGAACAAAGAACTAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGCAGAGGAACAAAGAACCAGCACCAGC
* *
13343785 AGAGGATCAAAGAAGCAGCAGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGC
13343823 GATGAGAGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
44 72 0.64
46 1 0.01
48 1 0.01
50 38 0.34
ACGTcount: A:0.49, C:0.23, G:0.24, T:0.03
Consensus pattern (44 bp):
AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
Found at i:13343725 original size:19 final size:19
Alignment explanation
Indices: 13343647--13343725 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 19
13343637 GTAGTGGAGA
*
13343647 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
*
13343666 AGAGGAAGAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
*
13343691 AGAGGAACAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
13343710 AGAGGAACAAAGAACC
1 AGAGGAACAAAGAACC
13343726 TGCACCAGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 32 0.65
21 1 0.02
25 16 0.33
ACGTcount: A:0.51, C:0.23, G:0.25, T:0.01
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:13343795 original size:25 final size:25
Alignment explanation
Indices: 13343657--13343798 Score: 181
Period size: 25 Copynumber: 5.9 Consensus size: 25
13343647 AGAGGAACAA
* *
13343657 AGCACCAGCAGAGGAAGAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACT
13343682 AGCACCAGCAGAGGAAC--A-AA-T
1 AGCACCAGCAGAGGAACAAAGAACT
13343703 A--ACCAGCAGAGGAACAAAGAACCT
1 AGCACCAGCAGAGGAACAAAGAA-CT
*
13343727 -GCACCAGCAGAAGAACAAAGAACT
1 AGCACCAGCAGAGGAACAAAGAACT
*
13343751 AGCACCAGCAGAAGAACAAAGAACT
1 AGCACCAGCAGAGGAACAAAGAACT
*
13343776 AGCACCAGCAGAGGATCAAAGAA
1 AGCACCAGCAGAGGAACAAAGAA
13343799 GCAGCAGAGG
Statistics
Matches: 104, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.13
21 2 0.02
22 4 0.04
23 1 0.01
24 3 0.03
25 80 0.77
ACGTcount: A:0.49, C:0.24, G:0.23, T:0.04
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACT
Found at i:13343804 original size:25 final size:24
Alignment explanation
Indices: 13343657--13343818 Score: 164
Period size: 25 Copynumber: 7.0 Consensus size: 24
13343647 AGAGGAACAA
*
13343657 AGCACCAGCAGAGGAAGAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAA-C
*
13343682 AGCACCAGCAGAGGAAC--A-AAT
1 AGCACCAGCAGAGGAACAAAGAAC
13343703 A--ACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAA-C
* *
13343726 TGCACCAGCAGAAGAACAAAGAAC
1 AGCACCAGCAGAGGAACAAAGAAC
*
13343750 TAGCACCAGCAGAAGAACAAAGAAC
1 -AGCACCAGCAGAGGAACAAAGAAC
*
13343775 TAGCACCAGCAGAGGATCAAAG-A-
1 -AGCACCAGCAGAGGAACAAAGAAC
13343798 AG---CAGCAGAGGAACAAAGAAC
1 AGCACCAGCAGAGGAACAAAGAAC
13343819 CAGCGATGAG
Statistics
Matches: 119, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
19 29 0.24
20 1 0.01
21 2 0.02
22 6 0.05
23 1 0.01
24 2 0.02
25 78 0.66
ACGTcount: A:0.49, C:0.23, G:0.24, T:0.03
Consensus pattern (24 bp):
AGCACCAGCAGAGGAACAAAGAAC
Found at i:13343805 original size:19 final size:19
Alignment explanation
Indices: 13343779--13343822 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13343769 AAGAACTAGC
*
13343779 ACCAGCAGAGGATCAAAGA
1 ACCAGCAGAGGAACAAAGA
*
13343798 AGCAGCAGAGGAACAAAGA
1 ACCAGCAGAGGAACAAAGA
13343817 ACCAGC
1 ACCAGC
13343823 GATGAGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.23, G:0.27, T:0.02
Consensus pattern (19 bp):
ACCAGCAGAGGAACAAAGA
Found at i:13344679 original size:8 final size:10
Alignment explanation
Indices: 13344652--13344687 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
13344642 ATCCTCTAAT
13344652 ATTTCCTCTCA
1 ATTT-CTCTCA
13344663 ATTTCTCTCA
1 ATTTCTCTCA
13344673 ATTTCTCTCA
1 ATTTCTCTCA
13344683 ATTTC
1 ATTTC
13344688 CTTCTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:13344703 original size:22 final size:20
Alignment explanation
Indices: 13344657--13344705 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
13344647 CTAATATTTC
* *
13344657 CTCTCAATTTCTCTCAATTT
1 CTCTCAATTTCTCTAAAATT
13344677 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTT-C-TCTAAAATT
13344699 CTCTCAA
1 CTCTCAA
13344706 ACTCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (20 bp):
CTCTCAATTTCTCTAAAATT
Found at i:13344737 original size:51 final size:50
Alignment explanation
Indices: 13344670--13344789 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 50
13344660 TCAATTTCTC
* *
13344670 TCAATTTCTCTCAATTTCCTTCTAAAATTCTCTCAAA-CTCATATTTCATT
1 TCAATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATC-CATATTTAATT
*
13344720 TCAATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATT
1 TCAATTT-CTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATT
*
13344771 TCAATTTTCTCTAAATTTC
1 TCAA-TTTCTCTCAATTTC
13344790 TGTTTTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
50 7 0.11
51 52 0.83
52 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.47
Consensus pattern (50 bp):
TCAATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATT
Found at i:13345532 original size:27 final size:27
Alignment explanation
Indices: 13345494--13345546 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13345484 ATTACCGTCA
13345494 TCTCTTGAAGATATACGACTTCTATTG
1 TCTCTTGAAGATATACGACTTCTATTG
* *
13345521 TCTCTTGAAGATGTACGGCTTCTATT
1 TCTCTTGAAGATATACGACTTCTATT
13345547 TGACCAACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
TCTCTTGAAGATATACGACTTCTATTG
Found at i:13345630 original size:7 final size:7
Alignment explanation
Indices: 13345618--13345642 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13345608 AGTCGATTAA
13345618 TATTTAG
1 TATTTAG
13345625 TATTTAG
1 TATTTAG
13345632 TATTTAG
1 TATTTAG
13345639 TATT
1 TATT
13345643 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:13346760 original size:25 final size:25
Alignment explanation
Indices: 13346731--13346843 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 25
13346721 TATTTAAATA
13346731 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
13346756 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
13346781 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
13346800 ATTATTTGATGTAATAACATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
13346826 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
13346844 ACTCTAACCT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.01
20 5 0.07
21 8 0.11
22 1 0.01
23 1 0.01
24 8 0.11
25 46 0.65
26 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:13346873 original size:13 final size:13
Alignment explanation
Indices: 13346851--13346894 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
13346841 AAAACTCTAA
*
13346851 CCTAAATAAAAAC
1 CCTAATTAAAAAC
13346864 CCTAATTAAAAAC
1 CCTAATTAAAAAC
13346877 CCTAATTAAAAAC
1 CCTAATTAAAAAC
13346890 CCTAA
1 CCTAA
13346895 CCCTAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (13 bp):
CCTAATTAAAAAC
Found at i:13346940 original size:6 final size:6
Alignment explanation
Indices: 13346929--13347006 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
13346919 CTTAATTAAA
** * **
13346929 AACCCT AACCCT AACCCT AA-CCT AAACCCT AA-TTT AAAACCCT AATTCAA
1 AACCCT AACCCT AACCCT AACCCT -AACCCT AACCCT --AACCCT AA-CCCT
*
13346979 AACCCT AACCCT AACACT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
13347007 TAAATTAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 8 0.15
8 1 0.02
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:13346970 original size:13 final size:13
Alignment explanation
Indices: 13346952--13346986 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13346942 ACCCTAACCT
*
13346952 AAACCCTAATTTA
1 AAACCCTAATTCA
13346965 AAACCCTAATTCA
1 AAACCCTAATTCA
13346978 AAACCCTAA
1 AAACCCTAA
13346987 CCCTAACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCCTAATTCA
Found at i:13347040 original size:54 final size:54
Alignment explanation
Indices: 13346887--13347391 Score: 401
Period size: 54 Copynumber: 8.9 Consensus size: 54
13346877 CCTAATTAAA
13346887 AACCCTAACCCTAACCTAAATTAATTC-AAAACCTTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACC-TAATTAAAAACCCTAACCCT
* *
13346941 AACCCTAA-CCTAAACCCT-AA-T--TT-AAAACCCTAATTCAAAACCCTAACCCT
1 AACCCTAACCCT-AA-CCTAAATTAATTCAAAAACCTAATTAAAAACCCTAACCCT
* * *
13346991 AACACTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAATACCCTAATTAAAAATCCT
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCC----T---AACCCT
* *
13347052 AGCCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAACCCT
1 A------ACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAACCCT
*
13347112 AA-CCT-----TAACCTAAATTAATTCAAAACCCTAATTAAAAACCCTAACCCT
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAACCCT
* * * ****
13347160 AACTCTAACCCTAACCTAAATTAATTCCAAAACCTAATTAAATACCCTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAA-CCCT
* *
13347215 AACCCTAACCCTAACCT-AATTAATTCAAAATCCTAATTAAATACCCTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCC----T---AACCCT
*
13347275 AACCCTAACCCTAACCATAACCTAAATTAATTCAAAATCCTAATTAAAAACCCTAATTAAAAACC
1 AACCCTAA--C---CC-TAACCTAAATTAATTCAAAAACCTAATTAAAAACCC----T---AACC
13347340 CT
53 CT
13347342 AACCCTAACCCTAACCTAAATTAATTC-AAAACCATAATTAAAAACCCTAA
1 AACCCTAACCCTAACCTAAATTAATTCAAAAACC-TAATTAAAAACCCTAA
13347392 TTAAAAACCC
Statistics
Matches: 378, Mismatches: 29, Indels: 88
0.76 0.06 0.18
Matches are distributed among these distances:
48 45 0.12
49 5 0.01
50 30 0.08
51 11 0.03
53 9 0.02
54 95 0.25
55 19 0.05
57 1 0.00
58 2 0.01
60 19 0.05
61 37 0.10
62 3 0.01
63 1 0.00
65 3 0.01
66 6 0.02
67 92 0.24
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (54 bp):
AACCCTAACCCTAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAACCCT
Found at i:13347041 original size:67 final size:66
Alignment explanation
Indices: 13346956--13347107 Score: 223
Period size: 67 Copynumber: 2.3 Consensus size: 66
13346946 TAACCTAAAC
* *
13346956 CCTAATTTAAAACCCTAATTCAAAACCCTAACCCTAACACTAACCCTAACCTAAATTAATTCAAA
1 CCTAA-TTAAAACCCTAATTAAAAACCCTAACCCTAACACTAACCATAACCTAAATTAATTCAAA
13347021 AA
65 AA
* * *
13347023 CCTAATTAAATACCCTAATTAAAAATCCTAGCCCTAACCCTAACCATAACCTAAATTAATTCAAA
1 CCTAATTAAA-ACCCTAATTAAAAACCCTAACCCTAACACTAACCATAACCTAAATTAATTCAAA
*
13347088 AC
65 AA
13347090 CCTAATTAAAAACCCTAA
1 CCTAATT-AAAACCCTAA
13347108 CCCTAACCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
66 5 0.06
67 69 0.90
68 3 0.04
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (66 bp):
CCTAATTAAAACCCTAATTAAAAACCCTAACCCTAACACTAACCATAACCTAAATTAATTCAAAA
A
Found at i:13347109 original size:48 final size:48
Alignment explanation
Indices: 13347054--13347263 Score: 235
Period size: 48 Copynumber: 4.1 Consensus size: 48
13347044 AAAATCCTAG
13347054 CCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
1 CCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
*
13347102 CCCTAACCCTAACCTTAACCTAAATTAATTCAAAACCCTAATTAAAAA
1 CCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
*
13347150 CCCTAACCCTAACTCTAACCCTAACCTAAATTAATTCCAAAA-CCTAATTAAATA
1 CCCTAACCCTAAC-C--A---TAACCTAAATTAATT-CAAAACCCTAATTAAAAA
* * *
13347204 CCCTAATTAAAAACCCTAACCCTAACCT-AATTAATTCAAAATCCTAATTAAATA
1 CCC----T---AACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
13347258 CCCTAA
1 CCCTAA
13347264 TTAAAAACCC
Statistics
Matches: 143, Mismatches: 4, Indels: 31
0.80 0.02 0.17
Matches are distributed among these distances:
47 2 0.01
48 60 0.42
49 1 0.01
50 1 0.01
53 5 0.03
54 52 0.36
55 11 0.08
58 1 0.01
60 1 0.01
61 9 0.06
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (48 bp):
CCCTAACCCTAACCATAACCTAAATTAATTCAAAACCCTAATTAAAAA
Found at i:13347208 original size:13 final size:13
Alignment explanation
Indices: 13347192--13347276 Score: 57
Period size: 13 Copynumber: 6.4 Consensus size: 13
13347182 AATTCCAAAA
13347192 CCTAATTAAATAC
1 CCTAATTAAATAC
*
13347205 CCTAATTAAAAAC
1 CCTAATTAAATAC
* *
13347218 CCTAACCCTAACCTA-
1 CCTAA--TTAA-ATAC
** *
13347233 ATTAATTCAAA-AT
1 CCTAATT-AAATAC
13347246 CCTAATTAAATAC
1 CCTAATTAAATAC
*
13347259 CCTAATTAAAAAC
1 CCTAATTAAATAC
13347272 CCTAA
1 CCTAA
13347277 CCCTAACCCT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
12 4 0.07
13 41 0.76
14 2 0.04
15 6 0.11
16 1 0.02
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (13 bp):
CCTAATTAAATAC
Found at i:13347229 original size:67 final size:65
Alignment explanation
Indices: 13347127--13347488 Score: 377
Period size: 67 Copynumber: 5.6 Consensus size: 65
13347117 TAACCTAAAT
*
13347127 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACTCTAACCCTAACCTAAATTAATTCCAAAA
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAAC-CTAACCCTAACCTAAATTAATT-CAAAA
13347192 CC
64 CC
* * * *
13347194 TAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAA--TTAATTCAAAATCCTAATT-AAA
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCTAACCCTAA-CCTAAAT--TAATTCAAA
13347256 TACCC
63 -A-CC
13347261 TAATTAAAAACCC----T---AACCCTAACCCTAACC--A---TAACCTAAATTAATTCAAAATC
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCTAACCCTAACCTAAATTAATTCAAAA-C
13347314 C
65 C
13347315 TAATTAAAAACCCTAATTAAAAACCCTAA--C---CCTAACCCTAACCTAAATTAATTCAAAACC
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCTAACCCTAACCTAAATTAATTCAAAACC
13347375 ATAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAATCGTAACCTAAATTAAT
1 -TAATTAAAAACCCTAATTAAAAACCCTAACCCTAA-CCTAA-CC----C-TAACCTAAATTAAT
13347440 TCAAAAACC
58 TC-AAAACC
*
13347449 TAATTAAATACCCTAATTAAAAACCCTAACCCTAACCTAA
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCTAA
13347489 TTTAATTAAA
Statistics
Matches: 253, Mismatches: 10, Indels: 59
0.79 0.03 0.18
Matches are distributed among these distances:
54 21 0.08
55 3 0.01
56 7 0.03
57 3 0.01
58 3 0.01
59 1 0.00
60 18 0.07
61 57 0.23
63 2 0.01
64 3 0.01
65 8 0.03
66 5 0.02
67 58 0.23
68 2 0.01
72 6 0.02
73 50 0.20
74 6 0.02
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (65 bp):
TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCTAACCCTAACCTAAATTAATTCAAAACC
Found at i:13347324 original size:13 final size:13
Alignment explanation
Indices: 13347302--13347404 Score: 72
Period size: 13 Copynumber: 8.2 Consensus size: 13
13347292 TAACCTAAAT
* *
13347302 TAATTCAAAATCC
1 TAATTAAAAACCC
13347315 TAATTAAAAACCC
1 TAATTAAAAACCC
13347328 TAATTAAAAACCC
1 TAATTAAAAACCC
****
13347341 TAA-CCCTAACCC
1 TAATTAAAAACCC
* *
13347353 TAACCT--AAA--T
1 TAA-TTAAAAACCC
* *
13347363 TAATTCAAAACCA
1 TAATTAAAAACCC
13347376 TAATTAAAAACCC
1 TAATTAAAAACCC
13347389 TAATTAAAAACCC
1 TAATTAAAAACCC
13347402 TAA
1 TAA
13347405 CCCTAACCCT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
9 1 0.01
10 3 0.04
11 3 0.04
12 10 0.14
13 54 0.76
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:13347408 original size:6 final size:6
Alignment explanation
Indices: 13347397--13347422 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13347387 CCTAATTAAA
13347397 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
13347423 TCGTAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:13347463 original size:13 final size:13
Alignment explanation
Indices: 13347436--13347477 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
13347426 TAACCTAAAT
13347436 TAATTCAAAAA-CC
1 TAATT-AAAAACCC
*
13347449 TAATTAAATACCC
1 TAATTAAAAACCC
13347462 TAATTAAAAACCC
1 TAATTAAAAACCC
13347475 TAA
1 TAA
13347478 CCCTAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (13 bp):
TAATTAAAAACCC
Found at i:13347465 original size:73 final size:73
Alignment explanation
Indices: 13347302--13347485 Score: 262
Period size: 73 Copynumber: 2.5 Consensus size: 73
13347292 TAACCTAAAT
* * ****
13347302 TAATTCAAAATCCTAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAAT
1 TAATTAAAAACCCTAATTAAAAACCCTAA-CCCTAACCCTAACCCTAACCCTAACCTAAATTAAT
13347367 TCAAAACCA
65 TCAAAACCA
* *
13347376 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAATCGTAACCTAAATTAATT
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCCTAACCTAAATTAATT
13347441 CAAAAACC-
66 C-AAAACCA
*
13347449 TAATTAAATACCCTAATTAAAAACCCTAACCCTAACC
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACC
13347486 TAATTTAATT
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 67 0.67
74 33 0.33
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (73 bp):
TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAACCCTAACCTAAATTAATT
CAAAACCA
Found at i:13347484 original size:134 final size:128
Alignment explanation
Indices: 13347127--13347485 Score: 538
Period size: 121 Copynumber: 2.8 Consensus size: 128
13347117 TAACCTAAAT
* * *
13347127 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACTCTAACC-CTAACCTAAATTAATTCCAAA
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCACTAACCTAAATTAATTCAAAA
13347191 ACCTAATTAAATACCCTAATT--AAA----AACCCTAACCCTAACCTAATTAATTCAAAATCC
66 ACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAATTAATTCAAAATCC
*
13347248 TAATTAAATACCCTAATTAAAAACCCTAACCCTAACCCTAACCA-TAACCTAAATTAATTCAAAA
1 TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCACTAACCTAAATTAATTCAAAA
* *
13347312 TCCTAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTCAAAA-CC
66 ACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCCTAACCT-AATTAATTCAAAATCC
13347375 ATAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCCTAATCGTAACCTAAATTAAT
1 -TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAA-CC--A-C-TAACCTAAATTAAT
13347440 TCAAAAACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACC
60 TCAAAAACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACC
13347486 TAATTTAATT
Statistics
Matches: 214, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
121 78 0.36
123 3 0.01
127 19 0.09
128 53 0.25
129 2 0.01
131 1 0.00
134 58 0.27
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.25
Consensus pattern (128 bp):
TAATTAAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCACTAACCTAAATTAATTCAAAA
ACCTAATTAAATACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAATTAATTCAAAATCC
Found at i:13347487 original size:24 final size:25
Alignment explanation
Indices: 13347458--13347571 Score: 86
Period size: 25 Copynumber: 4.1 Consensus size: 25
13347448 CTAATTAAAT
13347458 ACCCTAATTAAAAACCCTAACCCTA
1 ACCCTAATTAAAAACCCTAACCCTA
*
13347483 ACCTAATTTAATTAAAAACCCTAAAAACCCTA
1 ACC----CTAATTAAAAACCCT---AACCCTA
13347515 ATCCCAATTTAATTAAAAACCCTAA-CCTAA
1 A-CCC----TAATTAAAAACCCTAACCCT-A
*
13347545 ACCCTAATTAAATACCCTAACCCTA
1 ACCCTAATTAAAAACCCTAACCCTA
13347570 AC
1 AC
13347572 TTAATTTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 28
0.70 0.03 0.27
Matches are distributed among these distances:
25 21 0.29
26 3 0.04
29 20 0.28
30 4 0.06
32 8 0.11
33 16 0.22
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (25 bp):
ACCCTAATTAAAAACCCTAACCCTA
Found at i:13347497 original size:29 final size:29
Alignment explanation
Indices: 13347462--13347657 Score: 213
Period size: 29 Copynumber: 6.6 Consensus size: 29
13347452 TTAAATACCC
13347462 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCCTAACCTAATT
*
13347491 TAATTAAAAACCCTAAAAACCCTAATCCCAATT
1 TAATTAAAAACCCT---AACCCTAA-CCTAATT
*
13347524 TAATTAAAAACCCTAA-CCTAAACC----C
1 TAATTAAAAACCCTAACCCT-AACCTAATT
* *
13347549 TAATTAAATACCCTAACCCTAACTTAATT
1 TAATTAAAAACCCTAACCCTAACCTAATT
13347578 TAATTAAAAACCCTAAAAACCCTAATCCTAATT
1 TAATTAAAAACCCT---AACCCTAA-CCTAATT
*
13347611 TAATTAAAGACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCCTAACCTAATT
* *
13347640 TAATTCAAAACCTTAACC
1 TAATTAAAAACCCTAACC
13347658 TAAATTATTT
Statistics
Matches: 142, Mismatches: 11, Indels: 28
0.78 0.06 0.15
Matches are distributed among these distances:
25 18 0.13
26 3 0.02
29 54 0.38
30 12 0.08
32 16 0.11
33 39 0.27
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (29 bp):
TAATTAAAAACCCTAACCCTAACCTAATT
Found at i:13347539 original size:62 final size:58
Alignment explanation
Indices: 13347462--13347657 Score: 213
Period size: 62 Copynumber: 3.3 Consensus size: 58
13347452 TTAAATACCC
*
13347462 TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCCAATT
1 TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT---AACCCTAA-CCTAATT
* * *
13347524 TAATTAAAAACCCTAA-CCTAAACC----CTAATTAAATACCCTAACCCTAACTTAATT
1 TAATTAAAAACCCTAACCCT-AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
*
13347578 TAATTAAAAACCCTAAAAACCCTAATCCTAATTTAATTAAAGACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCT---AACCCTAA-CCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
* *
13347640 TAATTCAAAACCTTAACC
1 TAATTAAAAACCCTAACC
13347658 TAAATTATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
54 19 0.17
55 8 0.07
57 4 0.03
58 18 0.16
59 4 0.03
61 3 0.03
62 59 0.51
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (58 bp):
TAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
Found at i:13347544 original size:134 final size:130
Alignment explanation
Indices: 13347148--13347502 Score: 459
Period size: 134 Copynumber: 2.8 Consensus size: 130
13347138 CCTAATTAAA
* * * *
13347148 AACCCTAACCCTAACTCTAACCCTAACCTAAATTAATTCCAAAACCTAATTAAATACCCTAATTA
1 AACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAATTA
* *
13347213 AAAACCCTAACCCTAA-CCT-A--ATTAATTCAAAATCC-TAATTAAATACCCTAATT--AAA--
66 AAAACCCTAACCCTAACCCTAACTATTAATT-AAAAACCATAA-TAAAAACCCTAATTAAAAACC
13347269 --
129 CT
*
13347269 AACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAATCCTAATTAAAAACCCTAATTA
1 AACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAATTA
*
13347334 AAAACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCATAATTAAAAACCCTAATTAAAAA
66 AAAACCCTAACCCTAACCCTAA-CT--ATTAATTAAAAACCATAA-TAAAAACCCTAATTAAAAA
13347399 CCCT
127 CCCT
* * *
13347403 AACCCTAACCCTAACCCTAATCGTAACCTAAATTAATTCAAAAACCTAATTAAATACCCTAATTA
1 AACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAATTA
13347468 AAAACCCTAACCCTAA-CCTAA-T-TTAATTAAAAACC
66 AAAACCCTAACCCTAACCCTAACTATTAATTAAAAACC
13347503 CTAAAAACCC
Statistics
Matches: 207, Mismatches: 13, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
121 76 0.37
122 3 0.01
123 1 0.00
127 5 0.02
128 36 0.17
130 3 0.01
131 1 0.00
133 5 0.02
134 77 0.37
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.25
Consensus pattern (130 bp):
AACCCTAACCCTAACCCTAACCATAACCTAAATTAATTCAAAAACCTAATTAAAAACCCTAATTA
AAAACCCTAACCCTAACCCTAACTATTAATTAAAAACCATAATAAAAACCCTAATTAAAAACCCT
Found at i:13347554 original size:87 final size:87
Alignment explanation
Indices: 13347458--13347679 Score: 306
Period size: 87 Copynumber: 2.6 Consensus size: 87
13347448 CTAATTAAAT
13347458 ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCCAAT
1 ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCCAAT
13347523 TTAATTAAAAACCCTAA-CCTAA
66 TTAATTAAAAACCCTAACCCT-A
* * *
13347545 ACCCTAATTAAATACCCTAACCCTAACTTAATTTAATTAAAAACCCTAAAAACCCTAATCCTAAT
1 ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCCAAT
*
13347610 TTAATTAAAGACCCTAACCCTA
66 TTAATTAAAAACCCTAACCCTA
* ** ** * * *
13347632 A-CCTAATT-TAATTCAAAACCTTAACCTAAATTATTTAAAAACCCTAAA
1 ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
13347680 GTAAGTTAAC
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
85 30 0.25
86 7 0.06
87 80 0.67
88 3 0.03
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (87 bp):
ACCCTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAAAACCCTAATCCCAAT
TTAATTAAAAACCCTAACCCTA
Found at i:13347577 original size:24 final size:24
Alignment explanation
Indices: 13347504--13347577 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
13347494 TTAAAAACCC
*
13347504 TAAAAACCCTAATCCC-AATTTAAT
1 TAAAAACCCTAA-CCCTAACTTAAT
*
13347528 TAAAAACCCTAA-CCTAAACCCTAAT
1 TAAAAACCCTAACCCT-AA-CTTAAT
*
13347553 TAAATACCCTAACCCTAACTTAAT
1 TAAAAACCCTAACCCTAACTTAAT
13347577 T
1 T
13347578 TAATTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.05
24 20 0.48
25 17 0.40
26 3 0.07
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAACCCTAACCCTAACTTAAT
Found at i:13347618 original size:24 final size:24
Alignment explanation
Indices: 13347591--13347678 Score: 79
Period size: 29 Copynumber: 3.5 Consensus size: 24
13347581 TTAAAAACCC
13347591 TAAAAACCCTAATCCTAATTTAAT
1 TAAAAACCCTAATCCTAATTTAAT
*
13347615 TAAAGACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA---T--CCTAATTTAAT
* * * *
13347644 TCAAAACCTTAA-CCTAAATTATT
1 TAAAAACCCTAATCCTAATTTAAT
13347667 TAAAAACCCTAA
1 TAAAAACCCTAA
13347679 AGTAAGTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
23 19 0.37
24 11 0.22
27 1 0.02
29 20 0.39
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (24 bp):
TAAAAACCCTAATCCTAATTTAAT
Found at i:13347656 original size:23 final size:23
Alignment explanation
Indices: 13347625--13347678 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
13347615 TAAAGACCCT
* *
13347625 AACCCTAACCTAATTTAATTCAA
1 AACCCTAACCTAAATTAATTAAA
* *
13347648 AACCTTAACCTAAATTATTTAAA
1 AACCCTAACCTAAATTAATTAAA
13347671 AACCCTAA
1 AACCCTAA
13347679 AGTAAGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (23 bp):
AACCCTAACCTAAATTAATTAAA
Found at i:13347849 original size:116 final size:116
Alignment explanation
Indices: 13347685--13347909 Score: 326
Period size: 116 Copynumber: 1.9 Consensus size: 116
13347675 CTAAAGTAAG
*
13347685 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAA
* * *
13347750 GAACTTTACA-TAATTTGATAGTTTTACTAACCATTAACACAATTTTTTGAC
66 GAAATTTACACT-ATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
* * * *
13347801 TTAATAATTTTACATTCACATAATGTTAGATTTGGTAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAA
* * * *
13347866 TAAATTTATACTATTTGATAATTTTAGTAACAATTAATACAATT
66 GAAATTTACACTATTTGATAATTTTACTAACAATTAACACAATT
13347910 ATCAATTAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 95 0.99
117 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (116 bp):
TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAA
GAAATTTACACTATTTGATAATTTTACTAACAATTAACACAATTTTTTGAC
Found at i:13349761 original size:15 final size:15
Alignment explanation
Indices: 13349741--13349769 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13349731 CCTTTTCTTT
13349741 AACGAGGCGTAGATA
1 AACGAGGCGTAGATA
13349756 AACGAGGCGTAGAT
1 AACGAGGCGTAGAT
13349770 TTTCCATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.34, T:0.14
Consensus pattern (15 bp):
AACGAGGCGTAGATA
Found at i:13350936 original size:126 final size:126
Alignment explanation
Indices: 13350641--13351116 Score: 722
Period size: 126 Copynumber: 3.8 Consensus size: 126
13350631 CCCAAACATG
* * * *
13350641 CTACTGTAGCAAAATCACGTCCACGACGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * *** *
13350706 TAGAAGCGATTTTACACTATTTGCTCAGAAATGTCAACTCAA-AATTATTTCTTCCAG-GAC
66 TACAAGCGATTTTACACTATTTGCTCAAAAACGTAAAAAAAATAATTATTTCTT-CTGTGAC
* *
13350766 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATATCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
13350831 TACAAGCGATTTTACACTATTTTCTCAAAAACGTAAAAAAAATAATTATTTCTTCTGTGAC
66 TACAAGCGATTTTACACTATTTGCTCAAAAACGTAAAAAAAATAATTATTTCTTCTGTGAC
* *
13350892 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
13350957 TACAAGCGATTTTACACTATTTTCTCAAAAACGTAAAAAAAATAATTATTTCTTCTGTGAC
66 TACAAGCGATTTTACACTATTTGCTCAAAAACGTAAAAAAAATAATTATTTCTTCTGTGAC
* *
13351018 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
13351083 TAGAAGCGATTTTATACTATTTGATCAAAAACGT
66 TACAAGCGATTTTACACTATTTGCTCAAAAACGT
13351117 TAACTCAAAA
Statistics
Matches: 326, Mismatches: 23, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
125 95 0.29
126 231 0.71
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TACAAGCGATTTTACACTATTTGCTCAAAAACGTAAAAAAAATAATTATTTCTTCTGTGAC
Found at i:13352253 original size:23 final size:23
Alignment explanation
Indices: 13352225--13352269 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13352215 GTTCAAAATT
* *
13352225 TTAAAATAAACAATCTATATGAG
1 TTAAAACAAACAATATATATGAG
*
13352248 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
13352270 ATGTACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:13352356 original size:24 final size:24
Alignment explanation
Indices: 13352318--13352569 Score: 152
Period size: 24 Copynumber: 10.8 Consensus size: 24
13352308 TGAATTGGAT
* *
13352318 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
13352343 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
13352367 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
13352387 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
13352412 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
13352436 AATTT-AAA-AATACTA-ATGATA
1 AATTTAAAATAATAATATATGATA
*
13352457 AATTTAAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** ** *
13352481 AATTTAAAATAATGTTA-ACAATG
1 AATTTAAAATAATAATATATGATA
13352504 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
13352527 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
*
13352551 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
13352570 CAATACACTT
Statistics
Matches: 173, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 5 0.03
21 13 0.08
22 19 0.11
23 48 0.28
24 74 0.43
25 14 0.08
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:13352413 original size:69 final size:69
Alignment explanation
Indices: 13352340--13352608 Score: 190
Period size: 69 Copynumber: 3.9 Consensus size: 69
13352330 ATAATATATA
* ** * *
13352340 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCTAGAATA-ATC
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATACTAATGATAAATT-TAAAATAGAT-
*
13352402 ATACGTG
63 ATACATG
** * *
13352409 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATACTAATGATAAATTTAAAATAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATACTAATGATAAATTTAAAATAGATATA
13352474 CATG
66 CATG
** * * * *
13352478 ATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAA-TTACAAATA-AT
1 ATAAATTTAAAATAATAATACATAATAAATTT-AAA-AATACTAATGATAAATTTA-AAATAGAT
*
13352540 AAAACATG
63 -ATACATG
* * * * * * * *
13352548 ATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTTAATAATA
1 ATAAATTTAAAATAATAATACATAATAAATTTA-AAAATACTAATGATAAATTTAA-AATA
13352609 AGTATAAACA
Statistics
Matches: 160, Mismatches: 29, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
68 9 0.06
69 72 0.45
70 63 0.39
71 16 0.10
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATACTAATGATAAATTTAAAATAGATATA
CATG
Found at i:13352559 original size:47 final size:46
Alignment explanation
Indices: 13352407--13352568 Score: 127
Period size: 47 Copynumber: 3.5 Consensus size: 46
13352397 TAATCATACG
* * * * **
13352407 TGATAAATCCAAAATAATAGTATATAATAAATTTAAA-AATACTA-A
1 TGATAAATCTAAAATAATAATAT-TGATAAATTAAAATAATAAAACA
* * **
13352452 TGATAAATTTAAAATAGAT-ATACATGATAAATTTAAAATAATGTTAACA
1 TGATAAATCTAAAATA-ATAATA-TTGATAAA-TTAAAATAAT-AAAACA
* *
13352501 --ATGAATTTAAAATAATAATATTGATAAATTACAAATAATAAAACA
1 TGATAAATCTAAAATAATAATATTGATAAATTA-AAATAATAAAACA
13352546 TGATAAATCTAAAATAATAATAT
1 TGATAAATCTAAAATAATAATAT
13352569 ACAATACACT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
45 29 0.32
46 23 0.25
47 38 0.41
48 1 0.01
49 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.33
Consensus pattern (46 bp):
TGATAAATCTAAAATAATAATATTGATAAATTAAAATAATAAAACA
Found at i:13352586 original size:70 final size:68
Alignment explanation
Indices: 13352407--13352619 Score: 189
Period size: 70 Copynumber: 3.0 Consensus size: 68
13352397 TAATCATACG
* * * * *
13352407 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATACTAATGATAAATTTAAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTTAAAATAGATA
*
13352472 TACA
65 AACA
* ** *
13352476 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAA-TTACAAATA-
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTTA-AAATAG
13352538 ATAAAACA
62 AT-AAACA
* * *
13352546 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTTAATAATAAG
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATTTAA-AAT-AG
13352611 TATAAACA
62 -ATAAACA
13352619 T
1 T
13352620 TCAAATAATA
Statistics
Matches: 115, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
68 9 0.08
69 24 0.21
70 59 0.51
71 14 0.12
72 1 0.01
73 6 0.05
74 2 0.02
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTTAAAATAGATAA
ACA
Found at i:13353970 original size:44 final size:43
Alignment explanation
Indices: 13353887--13354015 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 43
13353877 TCCTCAGTCT
* * * *
13353887 ACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
1 ACTCCACTGCAACTTCAAGGAGATAAGA-TTGTATCTTCAA-CCG
* *
13353932 TCT-CACTGCAACTTTAAGGAGATAAGATTGATATCTTCAACCG
1 ACTCCACTGCAACTTCAAGGAGATAAGATTG-TATCTTCAACCG
* * *
13353975 ACTCCACTGTAACTTCAATGAGATAAGGTTAGTTATCTTCA
1 ACTCCACTGCAACTTCAAGGAGATAAGATT-G-TATCTTCA
13354016 GTCTTGATCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 7 0.10
44 51 0.74
45 11 0.16
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (43 bp):
ACTCCACTGCAACTTCAAGGAGATAAGATTGTATCTTCAACCG
Found at i:13354264 original size:132 final size:132
Alignment explanation
Indices: 13354096--13354635 Score: 782
Period size: 132 Copynumber: 4.1 Consensus size: 132
13354086 AATGCCAAGG
* * * * *
13354096 AGATAAGATTCGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGATACAGGATCTACAATCTTCT
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
*
13354161 ACCTACTCCACTGCTGCTCAGGGAGAAAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACTGCTGCTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
13354226 GA
131 GA
* *
13354228 AGATAGGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACAATCTTCA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* * *
13354293 ACCTACTCCACCGCTGCTCAAGGA-AATAGGACTGATGGCTTAAATCTGCTTCCCTACTACCTTG
66 ACCTACTCCACTGCTGCTCAGGGAGAA-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTG
13354357 GGA
130 GGA
* * * *
13354360 AGATAGGATTTGCTGCCTTCTATCTGCTCCACTACTGCTTAGGGAGACATGATCTACAATCTTCA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* *
13354425 ACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACTGCTGCTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
13354490 GA
131 GA
* * * * * *
13354492 AGATAAGATTTACCATCTTCGATCTGCTCTACTACTGCTTAGGGAGACAAGATTTACAATCTTTA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
* * * *
13354557 ACCTATTCCACTGCTACTCAGGGAGATAA-GATTGGTGGATTAAAT-TCGCTTCCCTACTACCTT
66 ACCTACTCCACTGCTGCTCAGGGAGA-AAGGACTGGTGGCTTAAATCT-GCTTCCCTACTACCTT
13354620 GGGA
129 GGGA
13354624 A-ATAAGATTTGC
1 AGATAAGATTTGC
13354636 CGTCTTCGAT
Statistics
Matches: 367, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
131 13 0.04
132 352 0.96
133 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
ACCTACTCCACTGCTGCTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
GA
Found at i:13354687 original size:45 final size:45
Alignment explanation
Indices: 13354638--13355312 Score: 628
Period size: 45 Copynumber: 15.1 Consensus size: 45
13354628 AGATTTGCCG
* * *
13354638 TCTTCGATCTACTGCGCTACTAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * *
13354683 TCTTCGATCTACTTCGTTGCCAATACAGAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * *
13354728 TCTTTGATCTACTTCACTGCTAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* ** * * *
13354773 TTTTTTTAACTTACTCTACTGCTG-C--T-CAGGGAGACAAG-GCTTG-TGA
1 -TCTTCGATC-TACT-T-C-GCTGCCAGTACAGGAAGACAAGATC-TGCT-A
* *
13354819 -CTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
*
13354863 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
13354908 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGATAAGATTTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * * *
13354953 TTTTCAACCTACTCTACTGCTG-C--T-CAAGG-AGATAAG-GCTGGTA
1 TCTTCGATCTACT-T-C-GCTGCCAGTAC-AGGAAGACAAGATCTGCTA
* * * *
13354996 TCTTCGATCTACTTTGCTGCTAGTACAGAAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * *
13355041 TCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* **
13355086 TTTTTTATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
*
13355131 TCTTCAATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
*
13355176 TCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * * * * * *
13355221 TTTTC-AACTTACTCCACTG-CTGCT-CAGGGAGATAAG-GCTGGTA
1 TCTTCGATC-TACTTCGCTGCCAG-TACAGGAAGACAAGATCTGCTA
* * * * * *
13355264 TTTTCGATCTACTTTGCTTCTAGTACAGAAAGACAAGATCTGATA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
13355309 TCTT
1 TCTT
13355313 TACTGATCTG
Statistics
Matches: 520, Mismatches: 80, Indels: 60
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.02
41 2 0.00
42 2 0.00
43 39 0.08
44 59 0.11
45 373 0.72
46 21 0.04
47 7 0.01
48 5 0.01
49 1 0.00
50 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
Found at i:13355115 original size:268 final size:268
Alignment explanation
Indices: 13354824--13355313 Score: 854
Period size: 268 Copynumber: 1.8 Consensus size: 268
13354814 TGTGACTTCG
* *
13354824 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATAC
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATAC
* * *
13354889 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAGTACAGGAAGATAAGATTTGCTAT
66 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTAT
*
13354954 TTTCAACCTACTCTACTGCTGCTCAAGGAGATAAGGCTGGTATCTTCGATCTACTTTGCTGCTAG
131 TTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTGGTATCTTCGATCTACTTTGCTGCTAG
* *
13355019 TACAGAAAGATAAGATCTGCTATCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
196 TACAGAAAGACAAGATCTGATATCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
13355084 TATTTTTT
261 TATTTTTT
* *
13355092 ATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAGTAC
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATAC
13355157 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTAT
66 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTAT
* * * *
13355222 TTTCAACTTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTATTTTCGATCTACTTTGCTTCTAG
131 TTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTGGTATCTTCGATCTACTTTGCTGCTAG
13355287 TACAGAAAGACAAGATCTGATATCTTT
196 TACAGAAAGACAAGATCTGATATCTTT
13355314 ACTGATCTGT
Statistics
Matches: 208, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
268 208 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (268 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATAC
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTAT
TTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTGGTATCTTCGATCTACTTTGCTGCTAG
TACAGAAAGACAAGATCTGATATCTTTGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
TATTTTTT
Found at i:13360155 original size:16 final size:16
Alignment explanation
Indices: 13360130--13360163 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13360120 TTCTATGATG
*
13360130 AAATGCCATGCAGTCA
1 AAATGCCATGCAGCCA
*
13360146 AAATGTCATGCAGCCA
1 AAATGCCATGCAGCCA
13360162 AA
1 AA
13360164 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:13361679 original size:23 final size:23
Alignment explanation
Indices: 13361651--13361695 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13361641 GTTCAAAATT
*
13361651 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
13361674 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
13361696 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:13361837 original size:69 final size:69
Alignment explanation
Indices: 13361763--13362020 Score: 177
Period size: 69 Copynumber: 3.7 Consensus size: 69
13361753 TAAATAATAT
* * * *
13361763 ATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCTAGAATA-ATCATACGTGATAA
1 ATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TAAAATAGAT-ATACATGATAA
13361825 ATCCAAA
63 ATCCAAA
* * *
13361832 ATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATACATGATAAATT
1 ATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATACATGATAAATC
*
13361897 TAAA
66 CAAA
** * * * * * *
13361901 ATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAA-TTACAAATA-CTAAAACATGATA
1 ATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTA-AAATAGAT-ATACATGATA
*
13361963 AATCTAAA
62 AATCCAAA
* * *** * *
13361971 ATAATAATATACAATACGCTTAGATAATATTAATGATTAATTTAATAATA
1 ATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTTAA-AATA
13362021 ATAAGTATAA
Statistics
Matches: 151, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
68 9 0.06
69 64 0.42
70 63 0.42
71 15 0.10
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (69 bp):
ATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATACATGATAAATC
CAAA
Found at i:13361856 original size:24 final size:24
Alignment explanation
Indices: 13361819--13361981 Score: 124
Period size: 24 Copynumber: 7.0 Consensus size: 24
13361809 TAATCATACG
** *
13361819 TGATAAATCCAAAATAATAGTATA
1 TGATAAATTTAAAATAATAATATA
* *
13361843 TAATAAATTT-AAA-AATATTA-A
1 TGATAAATTTAAAATAATAATATA
*
13361864 TGATAAATTTAAAATAGAT-ATACA
1 TGATAAATTTAAAATA-ATAATATA
**
13361888 TGATAAATTTAAAATAATGTTA-A
1 TGATAAATTTAAAATAATAATATA
** *
13361911 CAATGAATTTAAAATAATAATAT-
1 TGATAAATTTAAAATAATAATATA
* * *
13361934 TGATAAA-TTACAAATACTAAAACA
1 TGATAAATTTA-AAATAATAATATA
*
13361958 TGATAAATCTAAAATAATAATATA
1 TGATAAATTTAAAATAATAATATA
13361982 CAATACGCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
21 10 0.09
22 12 0.11
23 39 0.36
24 45 0.42
25 2 0.02
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (24 bp):
TGATAAATTTAAAATAATAATATA
Found at i:13362821 original size:17 final size:18
Alignment explanation
Indices: 13362780--13362821 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13362770 CTTATCTTCT
*
13362780 AAGATTGCATATCTTATTT
1 AAGATTGCATATC-TATTG
*
13362799 AAGATTGCATATC-CTTG
1 AAGATTGCATATCTATTG
13362816 AAGATT
1 AAGATT
13362822 ATGTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
AAGATTGCATATCTATTG
Found at i:13363291 original size:3 final size:3
Alignment explanation
Indices: 13363283--13363318 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13363273 AGATTCATCT
13363283 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13363319 CAACTTTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13367829 original size:19 final size:19
Alignment explanation
Indices: 13367805--13367917 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
13367795 AATTTTTGAG
13367805 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
13367824 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
13367843 GATATATGTAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
13367864 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
13367883 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13367902 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13367918 ATATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 64 0.80
21 16 0.20
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13367913 original size:38 final size:39
Alignment explanation
Indices: 13367812--13367917 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 39
13367802 GAGGATATGC
** *
13367812 AATCTTAGATATGATATGCAATCCAAGATATGATATATGT
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATA-GT
13367852 AATCTTAGATATGATATGCAATCTTAGAGATGATATA-T
1 AATCTTAGATATGATATGCAATCTTAGAGATGATATAGT
13367890 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
13367918 ATATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 29 0.46
40 34 0.54
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (39 bp):
AATCTTAGATATGATATGCAATCTTAGAGATGATATAGT
Found at i:13372989 original size:12 final size:12
Alignment explanation
Indices: 13372973--13373021 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
13372963 AAAATATTTC
*
13372973 AAAAAAAAAGAGG
1 AAAAAGAAA-AGG
13372986 AAAAAGAAAAGG
1 AAAAAGAAAAGG
*
13372998 AAAAAGGAAAAAAG
1 AAAAA-G-AAAAGG
13373012 AAAAAGAAAA
1 AAAAAGAAAA
13373022 AGTAAAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:13373004 original size:7 final size:7
Alignment explanation
Indices: 13372978--13373028 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
13372968 ATTTCAAAAA
13372978 AAAAGAGG
1 AAAA-AGG
13372986 AAAAA-G
1 AAAAAGG
13372992 -AAAAGG
1 AAAAAGG
13372998 AAAAAGG
1 AAAAAGG
*
13373005 AAAAAAG
1 AAAAAGG
13373012 AAAAA-G
1 AAAAAGG
*
13373018 AAAAAGT
1 AAAAAGG
13373025 AAAA
1 AAAA
13373029 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.11
6 8 0.21
7 22 0.58
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAAAAGG
Found at i:13373009 original size:20 final size:20
Alignment explanation
Indices: 13372973--13373028 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13372963 AAAATATTTC
13372973 AAAAA-AAAAGAGG-AAAAAG
1 AAAAAGAAAA-AGGAAAAAAG
*
13372992 AAAAGGAAAAAGGAAAAAAG
1 AAAAAGAAAAAGGAAAAAAG
*
13373012 AAAAAGAAAAAGTAAAA
1 AAAAAGAAAAAGGAAAA
13373029 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAAGGAAAAAAG
Done.