Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 76 of 93
Found at i:29264122 original size:78 final size:78
Alignment explanation
Indices: 29263984--29264134 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
29263974 TGCGAGTAGC
* * *
29263984 ATTTGGAACACCTCCATGAGAAGAAGAATTATGAGTAGTGTTCAGAACACTTCCAAAAGAAAAAA
1 ATTTGGAACACCTCCAGGAGAAAAAGAATTATGAGTAATGTTCAGAACACTTCCAAAAGAAAAAA
29264049 -AGTTATGAATAGT
66 CA-TTATGAATAGT
* * * * *
29264062 ATTTGGAACACC-CCAAGGGGAAAAAGCATTATGAGTAATGTTCAGAATAGC-TCTAGAAGAAAA
1 ATTTGGAACACCTCC-AGGAGAAAAAGAATTATGAGTAATGTTCAGAACA-CTTCCAAAAGAAAA
29264125 AACATTATGA
64 AACATTATGA
29264135 GAAACATTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
77 2 0.03
78 58 0.94
79 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (78 bp):
ATTTGGAACACCTCCAGGAGAAAAAGAATTATGAGTAATGTTCAGAACACTTCCAAAAGAAAAAA
CATTATGAATAGT
Found at i:29266756 original size:2 final size:2
Alignment explanation
Indices: 29266749--29266785 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
29266739 AAAACAATAC
*
29266749 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29266786 AATTTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:29268414 original size:17 final size:19
Alignment explanation
Indices: 29268392--29268431 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
29268382 AACAAATTTT
*
29268392 ATAATAACAAAA-AAATG-
1 ATAATAAAAAAATAAATGC
29268409 ATAATAAAAAAATAAATGC
1 ATAATAAAAAAATAAATGC
29268428 ATAA
1 ATAA
29268432 ATTTGCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ATAATAAAAAAATAAATGC
Found at i:29269519 original size:20 final size:20
Alignment explanation
Indices: 29269454--29269520 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
29269444 TATTCTCATG
29269454 ATGAACATATT-TTTCCATA
1 ATGAACATATTCTTTCCATA
* * * *
29269473 ATGGACTTGTTCTTGT-CATG
1 ATGAACATATTCTT-TCCATA
*
29269493 ATAAACATATTCTTTCCATA
1 ATGAACATATTCTTTCCATA
29269513 ATGAACAT
1 ATGAACAT
29269521 GTTTTCCTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
19 9 0.26
20 25 0.71
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGAACATATTCTTTCCATA
Found at i:29297566 original size:28 final size:28
Alignment explanation
Indices: 29297499--29297566 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
29297489 TAATTTTTTG
*
29297499 AAAATTTTTATTTTAATAATCTAACTTT
1 AAAATTATTATTTTAATAATCTAACTTT
* *
29297527 AAAATTAATATTTTAATTAT-TAACATTT
1 AAAATTATTATTTTAATAATCTAAC-TTT
29297555 ATAAA-TATTATT
1 A-AAATTATTATT
29297567 ATGTTAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.12
28 27 0.79
29 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAATTATTATTTTAATAATCTAACTTT
Found at i:29298147 original size:18 final size:19
Alignment explanation
Indices: 29298114--29298152 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
29298104 GAAATTCTTT
* *
29298114 AAAGAAACGTAGGATGGAG
1 AAAGAAAAGTAGGATGAAG
29298133 AAAGAAAAG-AGGATGAAG
1 AAAGAAAAGTAGGATGAAG
29298151 AA
1 AA
29298153 CCAACAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.03, G:0.33, T:0.08
Consensus pattern (19 bp):
AAAGAAAAGTAGGATGAAG
Found at i:29298294 original size:2 final size:2
Alignment explanation
Indices: 29298287--29298326 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29298277 AGTTAAGACT
29298287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29298327 ATGTGATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29322909 original size:4 final size:4
Alignment explanation
Indices: 29322900--29322928 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
29322890 TAGTTTAAGC
29322900 TTCT TTCT TTCT TTCT TTCT TT-T TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
29322929 TTCCGCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:29323198 original size:2 final size:2
Alignment explanation
Indices: 29323191--29323217 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29323181 GATGATCGCC
29323191 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
29323218 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29323222 original size:2 final size:2
Alignment explanation
Indices: 29323217--29323255 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29323207 ATATATATAT
29323217 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
29323256 CATTGAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29325189 original size:6 final size:6
Alignment explanation
Indices: 29325178--29325204 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29325168 GTTTATAGTT
29325178 TAAATA TAAATA TAAATA TAAATA TAA
1 TAAATA TAAATA TAAATA TAAATA TAA
29325205 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:29343467 original size:21 final size:21
Alignment explanation
Indices: 29343442--29343497 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
29343432 CAAGTCTAAG
29343442 ACATTTTTGTATTAATTAATA
1 ACATTTTTGTATTAATTAATA
* * *
29343463 CCATTTTTTTATTAATTTATA
1 ACATTTTTGTATTAATTAATA
*
29343484 AAATATTTTGTATT
1 ACAT-TTTTGTATT
29343498 CTTAAACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (21 bp):
ACATTTTTGTATTAATTAATA
Found at i:29365038 original size:19 final size:17
Alignment explanation
Indices: 29365007--29365041 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
29364997 TTACACTAAT
29365007 TATAAAAAATTAATATA
1 TATAAAAAATTAATATA
29365024 TATAATAAAATTTAATAT
1 TATAA-AAAA-TTAATAT
29365042 TAAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAAAAATTAATATA
Found at i:29368487 original size:2 final size:2
Alignment explanation
Indices: 29368480--29368510 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29368470 AACAAGTAGA
29368480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29368511 GTAGTAGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29372710 original size:33 final size:33
Alignment explanation
Indices: 29372657--29372753 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
29372647 TATTAGATAT
* * **
29372657 AACTA-TTGAATAGTTGTATTATGAAAGGAAAC
1 AACTATTTGAAAAGTTATATTATGAAAAAAAAC
* *
29372689 AACTATTTGAAGAGTTATATTATGAAAAAAAAT
1 AACTATTTGAAAAGTTATATTATGAAAAAAAAC
*
29372722 AACTATTTGAAAAGTCATATTATGAAAAAAAA
1 AACTATTTGAAAAGTTATATTATGAAAAAAAA
29372754 ATAGATCTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 5 0.09
33 52 0.91
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (33 bp):
AACTATTTGAAAAGTTATATTATGAAAAAAAAC
Found at i:29373440 original size:21 final size:22
Alignment explanation
Indices: 29373386--29373442 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
29373376 NNTATAAAGG
* *
29373386 AATATAATTACTATTATATATA
1 AATATATTTACTTTTATATATA
* *
29373408 TATATATATACTTTTA-ATATA
1 AATATATTTACTTTTATATATA
29373429 AATATATTTACTTT
1 AATATATTTACTTT
29373443 CTATTTTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATATTTACTTTTATATATA
Found at i:29379155 original size:4 final size:4
Alignment explanation
Indices: 29379148--29379196 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
29379138 TGAGGAAGGA
* *
29379148 AAAG AAAG AAAG AAAG AAAG AAAG -AA- AAAG AGAG AAAG AAAG AGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
29379194 AAA
1 AAA
29379197 AATATGGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 4 0.10
4 35 0.90
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:29379183 original size:22 final size:22
Alignment explanation
Indices: 29379152--29379198 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
29379142 GAAGGAAAAG
29379152 AAAGAAAGAAAGAAAGAAAGAA
1 AAAGAAAGAAAGAAAGAAAGAA
* *
29379174 AAAGAGAGAAAGAAAGAGAGAA
1 AAAGAAAGAAAGAAAGAAAGAA
29379196 AAA
1 AAA
29379199 TATGGGCACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAGAAAGAA
Found at i:29381605 original size:44 final size:44
Alignment explanation
Indices: 29381555--29381642 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
29381545 ATAGGAAATA
*
29381555 ACTATTTAAAGAGTTATATTATGAAAAGAAATAAGTCTTTTCAT
1 ACTATTTAAAGAGTCATATTATGAAAAGAAATAAGTCTTTTCAT
* * *
29381599 ACTATTTGAAGAGTCATATTATGAAAGGAAATAAGTTTTTTCAT
1 ACTATTTAAAGAGTCATATTATGAAAAGAAATAAGTCTTTTCAT
29381643 TAAAAGACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (44 bp):
ACTATTTAAAGAGTCATATTATGAAAAGAAATAAGTCTTTTCAT
Found at i:29390830 original size:6 final size:6
Alignment explanation
Indices: 29390797--29390826 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
29390787 GCCCACCGAA
*
29390797 AAGCAG AAGCAG AAGCAG AAGCAG CAGCAG
1 AAGCAG AAGCAG AAGCAG AAGCAG AAGCAG
29390827 CAGCTGGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGCAG
Found at i:29391421 original size:24 final size:24
Alignment explanation
Indices: 29391394--29391440 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
29391384 AGCGTGTTAT
* *
29391394 ACGCTATGTATAAAAATATGTGAC
1 ACGCTATGTACAAAAACATGTGAC
29391418 ACGCTATGTACAAAAACATGTGA
1 ACGCTATGTACAAAAACATGTGA
29391441 TAAGTCATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (24 bp):
ACGCTATGTACAAAAACATGTGAC
Found at i:29391530 original size:138 final size:138
Alignment explanation
Indices: 29391285--29391556 Score: 352
Period size: 138 Copynumber: 2.0 Consensus size: 138
29391275 GTTACACGTC
*
29391285 ATGTACAAAAACCTGTGACAAGCCATAGTTAGCGTGTTATACATTATGTACAAAAATATATAACA
1 ATGTACAAAAACATGTGACAAGCCATAGTTAGCGTGTTATACATTATGTACAAAAATATATAACA
* * * * * * *
29391350 CGTCATATATAAAAATCTGTGACAAGCTATAGTTAGCGTGTTATACGCTATGTATAAAAATATGT
66 AGCCATATATAAAAACCTGTGACAAGCTATAGTTAGCGTGTTACACGCCATATACAAAAATATGT
29391415 GACACGCT
131 GACACGCT
* * * * *
29391423 ATGTACAAAAACATGTGATAAGTCATGGTTAGCTTG-T-TACATGTCATGTACAAAAATATATGA
1 ATGTACAAAAACATGTGACAAGCCATAGTTAGCGTGTTATACAT-T-ATGTACAAAAATATATAA
* * *
29391486 CAAGCCATGTATAAAAACCTGTGACAAGCTAT-GATTAGCTTGTTACACGCCATATACAAAAATC
64 CAAGCCATATATAAAAACCTGTGACAAGCTATAG-TTAGCGTGTTACACGCCATATACAAAAATA
29391550 TGTGACA
128 TGTGACA
29391557 AGCCATGGTT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
136 5 0.04
137 3 0.03
138 107 0.93
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (138 bp):
ATGTACAAAAACATGTGACAAGCCATAGTTAGCGTGTTATACATTATGTACAAAAATATATAACA
AGCCATATATAAAAACCTGTGACAAGCTATAGTTAGCGTGTTACACGCCATATACAAAAATATGT
GACACGCT
Found at i:29391531 original size:69 final size:69
Alignment explanation
Indices: 29391284--29391563 Score: 278
Period size: 69 Copynumber: 4.1 Consensus size: 69
29391274 TGTTACACGT
* * * * *
29391284 CATGTACAAAAACCTGTGACAAGCCATAGTTAGCGTGTTATACATTATGTACAAAAATATATAAC
1 CATGTACAAAAACCTGTGACAAGCTATAGTTAGCGTGTTACACGTCATGTACAAAAATATATGAC
* *
29391349 ACGT
66 AAGC
* * * * * *
29391353 CATATATAAAAATCTGTGACAAGCTATAGTTAGCGTGTTATACG-CTATGTATAAAAATATGTGA
1 CATGTACAAAAACCTGTGACAAGCTATAGTTAGCGTGTTACACGTC-ATGTACAAAAATATATGA
*
29391417 CACGC
65 CAAGC
* * * * * *
29391422 TATGTACAAAAACATGTGATAAG-TCATGGTTAGCTTGTTACATGTCATGTACAAAAATATATGA
1 CATGTACAAAAACCTGTGACAAGCT-ATAGTTAGCGTGTTACACGTCATGTACAAAAATATATGA
29391486 CAAGC
65 CAAGC
* * * * * *
29391491 CATGTATAAAAACCTGTGACAAGCTAT-GATTAGCTTGTTACACGCCATATACAAAAATCTGTGA
1 CATGTACAAAAACCTGTGACAAGCTATAG-TTAGCGTGTTACACGTCATGTACAAAAATATATGA
29391555 CAAGC
65 CAAGC
29391560 CATG
1 CATG
29391564 GTTAGCGTGT
Statistics
Matches: 174, Mismatches: 32, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
68 2 0.01
69 170 0.98
70 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (69 bp):
CATGTACAAAAACCTGTGACAAGCTATAGTTAGCGTGTTACACGTCATGTACAAAAATATATGAC
AAGC
Found at i:29391553 original size:45 final size:45
Alignment explanation
Indices: 29391489--29391602 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
29391479 TATATGACAA
* * * *
29391489 GCCATGTATAAAAACCTGTGACAAGCTATGATTAGCTTGTTACAC
1 GCCATGTACAAAAATCTGTGACAAGCCATGATTAGCGTGTTACAC
* *
29391534 GCCATATACAAAAATCTGTGACAAGCCATGGTTAGCGTGTTACAC
1 GCCATGTACAAAAATCTGTGACAAGCCATGATTAGCGTGTTACAC
** *
29391579 GTTATGTACAAAATATATGTGACA
1 GCCATGTACAAAA-ATCTGTGACA
29391603 GGTCATGTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
45 49 0.84
46 9 0.16
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCATGTACAAAAATCTGTGACAAGCCATGATTAGCGTGTTACAC
Found at i:29391659 original size:115 final size:114
Alignment explanation
Indices: 29391416--29391662 Score: 325
Period size: 115 Copynumber: 2.2 Consensus size: 114
29391406 AAAATATGTG
* * * *
29391416 ACACGCTATGTACAAAAACATGTGATAAGTCATGGTTAGCTTGTTACATGTCATGTACAAAAATA
1 ACACGCTATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGTCATGTACAAAAATA
* * *
29391481 TATGACAAGCCATGTATAAAAACCTGTGACAAGCTATGATTAGCTTGTT
66 TATGACAAGCCATGTACAAAAACCTATGACAAGCTATGATTAGCGTGTT
* * *
29391530 ACACGCCATATACAAAAATC-TGTGACAAGCCATGGTTAGCGTGTTACACGTTATGTACAAAATA
1 ACACGCTATGTACAAAAA-CATGTGACAAGCCATGGTTAGCGTGTTACACGTCATGTACAAAA-A
* * * * *
29391594 TATGTGACAGGTCATGTACAAAAACCTATGACAAGTTATGGTTAGCGTGTT
64 TATATGACAAGCCATGTACAAAAACCTATGACAAGCTATGATTAGCGTGTT
*
29391645 ATACGCTATGTACAAAAA
1 ACACGCTATGTACAAAAA
29391663 AATACGACAC
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
114 53 0.47
115 60 0.53
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (114 bp):
ACACGCTATGTACAAAAACATGTGACAAGCCATGGTTAGCGTGTTACACGTCATGTACAAAAATA
TATGACAAGCCATGTACAAAAACCTATGACAAGCTATGATTAGCGTGTT
Found at i:29391700 original size:65 final size:67
Alignment explanation
Indices: 29391540--29391787 Score: 320
Period size: 65 Copynumber: 3.7 Consensus size: 67
29391530 ACACGCCATA
* * * *
29391540 TACAAAAATCTGTGACAAGCCATGGTTAGCGTGTTACACGTTATGTACAAAATATATGTGACAGG
1 TACAAAAACCTATGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAA-ATATATGACA-G
29391605 TCATG
64 -CATG
** * * *
29391610 TACAAAAACCTATGACAAGTTATGGTTAGCGTGTTATACGCTATGTACAAAAAAATACGACA-C-
1 TACAAAAACCTATGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACAGCA
29391673 TG
66 TG
*
29391675 TACAAAAACCTATGACAAGTCATGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACACGT
1 TACAAAAACCTATGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACA-G-
29391740 CATG
64 CATG
* * *
29391744 TACAAAAACCTGTGACAAGCCATGGTTAGCATGTTACACTCTAT
1 TACAAAAACCTATGACAAGCCATGGTTAGCGTGTTACACGCTAT
29391788 ATACNTCTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
65 60 0.38
66 1 0.01
68 1 0.01
69 49 0.31
70 46 0.29
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (67 bp):
TACAAAAACCTATGACAAGCCATGGTTAGCGTGTTACACGCTATGTACAAAAATATATGACAGCA
TG
Found at i:29391767 original size:24 final size:24
Alignment explanation
Indices: 29391717--29391767 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
29391707 GTTACACGCT
* * *
29391717 ATGTACAAAAATATATGACACGTC
1 ATGTACAAAAACATATGACAAGCC
* *
29391741 ATGTACAAAAACCTGTGACAAGCC
1 ATGTACAAAAACATATGACAAGCC
29391765 ATG
1 ATG
29391768 GTTAGCATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
ATGTACAAAAACATATGACAAGCC
Found at i:29391868 original size:45 final size:45
Alignment explanation
Indices: 29391802--29391956 Score: 181
Period size: 45 Copynumber: 3.4 Consensus size: 45
29391792 NTCTATATAC
29391802 AAAATATGTGACAAGTCATGGTTAGCTTGTTATC-TGTCATGTACA
1 AAAATATGTGACAAGTCATGGTTAGCTTGTTA-CATGTCATGTACA
*
29391847 AAAATATGTGACAAG-CTATGGTTAGCTTATTACATGTCATGTACA
1 AAAATATGTGACAAGTC-ATGGTTAGCTTGTTACATGTCATGTACA
** * * * *
29391892 AAAACCTGTGATAAGTCATGGTTAACGTGTTACACG-CTATGTACA
1 AAAATATGTGACAAGTCATGGTTAGCTTGTTACATGTC-ATGTACA
* *
29391937 AAAATATGTGATACGTCATG
1 AAAATATGTGACAAGTCATG
29391957 TACAAAAATC
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
44 3 0.03
45 91 0.96
46 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (45 bp):
AAAATATGTGACAAGTCATGGTTAGCTTGTTACATGTCATGTACA
Found at i:29391962 original size:24 final size:24
Alignment explanation
Indices: 29391930--29391980 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
29391920 GTTACACGCT
* *
29391930 ATGTACAAAAATATGTGATACGTC
1 ATGTACAAAAATATGTGACAAGTC
*
29391954 ATGTACAAAAATCTGTGACAAGTC
1 ATGTACAAAAATATGTGACAAGTC
29391978 ATG
1 ATG
29391981 GTTAGCGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (24 bp):
ATGTACAAAAATATGTGACAAGTC
Found at i:29391962 original size:69 final size:69
Alignment explanation
Indices: 29391882--29392078 Score: 247
Period size: 69 Copynumber: 2.9 Consensus size: 69
29391872 CTTATTACAT
*
29391882 GTCATGTACAAAAACCTGTGATAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAATATGTG
1 GTCATGTACAAAAACCTGTGACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAATATGTG
* *
29391947 ATAC
66 ACAA
* * * * *
29391951 GTCATGTACAAAAATCTGTGACAAGTCATGGTTAGCGTGTTATATGCTATGTATAAAAATATGTG
1 GTCATGTACAAAAACCTGTGACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAATATGTG
29392016 ACAA
66 ACAA
* * *
29392020 GACAAGTACAAAAACCTATGACAAG-CTATGGTTAA-GTTGTTACACG-TCATGTACAAAAA
1 GTCATGTACAAAAACCTGTGACAAGTC-ATGGTTAACG-TGTTACACGCT-ATGTACAAAAA
29392079 CTTATGACAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 3 0.03
69 106 0.97
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (69 bp):
GTCATGTACAAAAACCTGTGACAAGTCATGGTTAACGTGTTACACGCTATGTACAAAAATATGTG
ACAA
Found at i:29392123 original size:45 final size:45
Alignment explanation
Indices: 29392025--29392114 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
29392015 GACAAGACAA
*
29392025 GTACAAAAACCTATGACAAGCTATGGTTAAGTTGTTACACGTCAT
1 GTACAAAAACCTATGACAAGCCATGGTTAAGTTGTTACACGTCAT
* * *
29392070 GTACAAAAACTTATGACAAGCCATGGTTAGGTTGTTTCACGTCAT
1 GTACAAAAACCTATGACAAGCCATGGTTAAGTTGTTACACGTCAT
29392115 TTTGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (45 bp):
GTACAAAAACCTATGACAAGCCATGGTTAAGTTGTTACACGTCAT
Found at i:29392175 original size:25 final size:24
Alignment explanation
Indices: 29392147--29392204 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
29392137 ATACGTCATG
29392147 TAAAAAAAATGTTACACGCTATGGT
1 TAAAAAAAATGTTACACGCTAT-GT
**
29392172 TAAAAAAGGTTGTTACACGCTATGT
1 TAAAAAA-AATGTTACACGCTATGT
*
29392197 TGAAAAAA
1 TAAAAAAA
29392205 TATTGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (24 bp):
TAAAAAAAATGTTACACGCTATGT
Found at i:29392210 original size:26 final size:25
Alignment explanation
Indices: 29392147--29392211 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
29392137 ATACGTCATG
*
29392147 TAAAAAAAATGTTACACGCTATGGT
1 TAAAAAAATTGTTACACGCTATGGT
*
29392172 TAAAAAAGGTTGTTACACGCTAT-GT
1 TAAAAAA-ATTGTTACACGCTATGGT
29392197 TGAAAAAATATTGTT
1 T-AAAAAA-ATTGTT
29392212 GTTACACGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.29
26 24 0.71
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (25 bp):
TAAAAAAATTGTTACACGCTATGGT
Found at i:29392231 original size:29 final size:28
Alignment explanation
Indices: 29392156--29392244 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 28
29392146 GTAAAAAAAA
*
29392156 TGTTACACGCTATGGTT-AAAAA-A-GGT
1 TGTTACACGCTAT-GTTGAAAAACATTGT
*
29392182 TGTTACACGCTATGTTGAAAAAATATTGT
1 TGTTACACGCTATGTTG-AAAAACATTGT
29392211 TGTTACACGACATAT-TT-AAAAACATT-T
1 TGTTACACG-C-TATGTTGAAAAACATTGT
29392238 TGTTACA
1 TGTTACA
29392245 TTTTAATGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
25 3 0.05
26 13 0.24
27 13 0.24
28 9 0.16
29 11 0.20
30 3 0.05
31 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (28 bp):
TGTTACACGCTATGTTGAAAAACATTGT
Found at i:29401770 original size:30 final size:30
Alignment explanation
Indices: 29401734--29401792 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
29401724 ATGGCCACCT
29401734 CCTTCTTCTCTCTGTGATAATCTTCACATG
1 CCTTCTTCTCTCTGTGATAATCTTCACATG
29401764 CCTTCTTCTCTCTGTGATAATCTTCACAT
1 CCTTCTTCTCTCTGTGATAATCTTCACAT
29401793 TTCCTCCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.08, T:0.44
Consensus pattern (30 bp):
CCTTCTTCTCTCTGTGATAATCTTCACATG
Found at i:29403785 original size:35 final size:35
Alignment explanation
Indices: 29403734--29403811 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
29403724 TTGTTACCCC
*
29403734 ATTCTTTAGCAACACAATGCTACACGCTCTTCAAT
1 ATTCCTTAGCAACACAATGCTACACGCTCTTCAAT
* * *
29403769 ATTCCTTAGCAACACAATGCTATATGCTCTTCGAT
1 ATTCCTTAGCAACACAATGCTACACGCTCTTCAAT
29403804 ATTCCTTA
1 ATTCCTTA
29403812 AAAGGAGGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (35 bp):
ATTCCTTAGCAACACAATGCTACACGCTCTTCAAT
Found at i:29409714 original size:15 final size:14
Alignment explanation
Indices: 29409691--29409720 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
29409681 GGAAAAAAAA
29409691 TAAAAATTAATATT
1 TAAAAATTAATATT
29409705 TAAAATATTAATATT
1 TAAAA-ATTAATATT
29409720 T
1 T
29409721 TATTTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAAATTAATATT
Found at i:29410095 original size:41 final size:41
Alignment explanation
Indices: 29410050--29410152 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
29410040 TTAATCATAA
* *
29410050 TAATATTAAATTATAAATAAAATATTAGTC-TTTTAAAATAT
1 TAATATTAAATTATAAATAAAATATTA-ACATTTAAAAATAT
*
29410091 TAATAATTAAATTAT-AATAATATATTAACATTTAAAAATAT
1 TAAT-ATTAAATTATAAATAAAATATTAACATTTAAAAATAT
**
29410132 TAATATTTAAAAAATAAATAA
1 TAATA-TTAAATTATAAATAA
29410153 TCATATATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 2 0.04
41 36 0.68
42 15 0.28
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (41 bp):
TAATATTAAATTATAAATAAAATATTAACATTTAAAAATAT
Found at i:29410147 original size:17 final size:16
Alignment explanation
Indices: 29410112--29410144 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29410102 TTATAATAAT
29410112 ATATTAACATTTAAAA
1 ATATTAACATTTAAAA
*
29410128 ATATTAATATTTAAAA
1 ATATTAACATTTAAAA
29410144 A
1 A
29410145 ATAAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATTAACATTTAAAA
Found at i:29413037 original size:123 final size:123
Alignment explanation
Indices: 29412818--29413050 Score: 339
Period size: 123 Copynumber: 1.9 Consensus size: 123
29412808 AAAAAATAAT
* *
29412818 CATATAAGATCATAGATCGAGTCAATGAATTGATTCGAAATAAAATTTTAATTATTTTTAAAATA
1 CATATAAGATCATAGATCGAGTCAATGAATTGATTCGAAATAAAATTTTAATCACTTTTAAAATA
*
29412883 AAATTAAATTATAACACAAAATTTCATTAACAATTTAAAAATAAAATTAAAAGGGAAC
66 AAATAAAATTATAACACAAAATTTCATTAACAATTTAAAAATAAAATTAAAAGGGAAC
*
29412941 CATATAAGATCAT-GCATCGAGTTAAT-AATTCGATTCAGAACA-AAAA-TTTAATCACTTTTAA
1 CATATAAGATCATAG-ATCGAGTCAATGAATT-GATTC-GAA-ATAAAATTTTAATCACTTTTAA
* * *
29413002 AATTAAATAAAATTATAATATAAAATTTCATTAACAATTTAAAAATAAA
62 AATAAAATAAAATTATAACACAAAATTTCATTAACAATTTAAAAATAAA
29413051 TTTTCAGATT
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
122 5 0.05
123 86 0.87
124 7 0.07
125 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (123 bp):
CATATAAGATCATAGATCGAGTCAATGAATTGATTCGAAATAAAATTTTAATCACTTTTAAAATA
AAATAAAATTATAACACAAAATTTCATTAACAATTTAAAAATAAAATTAAAAGGGAAC
Found at i:29415855 original size:24 final size:23
Alignment explanation
Indices: 29415828--29415879 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
29415818 AAAATATATA
29415828 AAATTAA-TAAATTAGTTAAATTTT
1 AAATTAATTAAATTAGTT-AA-TTT
29415852 AAA-TAATTAAATTAGTTAATTT
1 AAATTAATTAAATTAGTTAATTT
29415874 AAATTA
1 AAATTA
29415880 TTTTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.23
23 7 0.27
24 13 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATTAATTAAATTAGTTAATTT
Found at i:29415949 original size:22 final size:23
Alignment explanation
Indices: 29415915--29415957 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
29415905 TATAACTAAC
* *
29415915 TAATTAATTAATTAAT-TTAAAA
1 TAATCAATCAATTAATATTAAAA
29415937 TAATCAATCAATTAATATTAA
1 TAATCAATCAATTAATATTAA
29415958 TCACACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATCAATCAATTAATATTAAAA
Found at i:29418303 original size:22 final size:22
Alignment explanation
Indices: 29418278--29418334 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
29418268 TAATCACTGT
29418278 GTGACTAGTTTTTA-GTCATTAC
1 GTGACTAGTTTTTAGGT-ATTAC
* *
29418300 GTGA-TTGGTTTTAGGTATTAC
1 GTGACTAGTTTTTAGGTATTAC
*
29418321 ATGACTAGTTTTTA
1 GTGACTAGTTTTTA
29418335 TACATTATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (22 bp):
GTGACTAGTTTTTAGGTATTAC
Found at i:29418461 original size:26 final size:26
Alignment explanation
Indices: 29418387--29418670 Score: 205
Period size: 26 Copynumber: 11.7 Consensus size: 26
29418377 ATACCTTACT
* *
29418387 AACTAGTCACACAATGCCTTA-C--T
1 AACTAGTCACGCAATGCCTTATCAAA
* *
29418410 AACAAGTCACACAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
29418432 AACTAGTCATGCAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
**
29418458 AACTAGTCAATCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
29418484 AACTAGTCACGCAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
29418506 AACTAGTCACACAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
*
29418532 AATTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
29418558 AATTAGTCACGCAATG-C---TCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
** *
29418580 TTC-AGTCACGCAATGCC-TAT---T
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
29418601 AATTAGTCACACAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
29418627 AACTAATCACGCAATGCTTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
29418653 AA-TCAGTCACGTAATGCC
1 AACT-AGTCACGCAATGCC
29418671 CAAATTCAGT
Statistics
Matches: 209, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
21 12 0.06
22 51 0.24
23 29 0.14
24 1 0.00
25 6 0.03
26 110 0.53
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAAA
Found at i:29418507 original size:74 final size:74
Alignment explanation
Indices: 29418368--29418574 Score: 266
Period size: 74 Copynumber: 2.9 Consensus size: 74
29418358 GCAATGCATA
* * * *
29418368 AGTCACACAATACCTTA-C--TAACTAGTCACA-CAATGCCTTA-C--TAACAAGTCACACAATG
1 AGTCACACAATACCTTATCAGAAACTAGTCA-AGCAATGCCTTATCAAAAACTAGTCACGCAATG
29418426 CCTATCAACT
65 CCTATCAACT
** *
29418436 AGTCATGCAATACCTTATCAGAAACTAGTCAATCAATGCCTTATCAAAAACTAGTCACGCAATGC
1 AGTCACACAATACCTTATCAGAAACTAGTCAAGCAATGCCTTATCAAAAACTAGTCACGCAATGC
29418501 CTATCAACT
66 CTATCAACT
* * *
29418510 AGTCACACAATACCTTATCAGAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGC
1 AGTCACACAATACCTTATCAGAAACTAGTCAAGCAATGCCTTATCAAAAACTAGTCACGCAATGC
29418575 TCAAATTCAG
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
68 15 0.12
69 1 0.01
70 1 0.01
71 19 0.16
72 1 0.01
74 83 0.69
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (74 bp):
AGTCACACAATACCTTATCAGAAACTAGTCAAGCAATGCCTTATCAAAAACTAGTCACGCAATGC
CTATCAACT
Found at i:29418510 original size:48 final size:49
Alignment explanation
Indices: 29418387--29418652 Score: 207
Period size: 48 Copynumber: 5.5 Consensus size: 49
29418377 ATACCTTACT
* * *
29418387 AACTAGTCACACAATGCCT-TACTAACAAGTCACACAATGCC-TATC---
1 AACTAGTCACGCAATGCCTAT-CAAACTAGTCACACAATGCCTTATCAAA
* *
29418432 AACTAGTCATGCAATACCTTATCAGAAACTAGTCA-ATCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCC-TATC--AAACTAGTCACA-CAATGCCTTATCAAA
* *
29418484 AACTAGTCACGCAATGCCTATC-AACTAGTCACACAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTATCAAACTAGTCACACAATGCCTTATCAAA
* * *
29418532 AATTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATG-C---TCAAA
1 AACTAGTCACGCAATGCC-TATC--AAACTAGTCACACAATGCCTTATCAAA
** * * *
29418580 TTC-AGTCACGCAATGCCTAT-TAATTAGTCACACAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTATCAAACTAGTCACACAATGCCTTATCAAA
* *
29418627 AACTAATCACGCAATGCTTTATCAAA
1 AACTAGTCACGCAATGC-CTATCAAA
29418653 AATCAGTCAC
Statistics
Matches: 175, Mismatches: 25, Indels: 37
0.74 0.11 0.16
Matches are distributed among these distances:
43 15 0.09
44 1 0.01
45 15 0.09
46 5 0.03
47 21 0.12
48 70 0.40
49 12 0.07
50 2 0.01
51 5 0.03
52 29 0.17
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.26
Consensus pattern (49 bp):
AACTAGTCACGCAATGCCTATCAAACTAGTCACACAATGCCTTATCAAA
Found at i:29418587 original size:21 final size:20
Alignment explanation
Indices: 29418557--29418617 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
29418547 GCCTTATCAA
29418557 AAATTAGTCACGCAATGCTC
1 AAATTAGTCACGCAATGCTC
29418577 AAATTCAGTCACGCAATGC-C
1 AAATT-AGTCACGCAATGCTC
*
29418597 TATTAATTAGTCACACAATGC
1 -A--AATTAGTCACGCAATGC
29418618 CTTATCAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 6 0.17
21 14 0.39
22 12 0.33
23 4 0.11
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATTAGTCACGCAATGCTC
Found at i:29418621 original size:95 final size:95
Alignment explanation
Indices: 29418488--29418684 Score: 313
Period size: 95 Copynumber: 2.1 Consensus size: 95
29418478 ATCAAAAACT
* *
29418488 AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAATTAGTCACGCAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACTAATCACGCAATGCCTTA
* *
29418553 TCAAAAATTAGTCACGCAATGCTCAAATTC
66 TCAAAAATCAGTCACGCAATGCCCAAATTC
* * * *
29418583 AGTCACGCAATGCCTATTAATTAGTCACACAATGCCTTATCAGAAACTAATCACGCAATGCTTTA
1 AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACTAATCACGCAATGCCTTA
*
29418648 TCAAAAATCAGTCACGTAATGCCCAAATTC
66 TCAAAAATCAGTCACGCAATGCCCAAATTC
29418678 AGTCACG
1 AGTCACG
29418685 TAATATCCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACTAATCACGCAATGCCTTA
TCAAAAATCAGTCACGCAATGCCCAAATTC
Found at i:29418679 original size:21 final size:21
Alignment explanation
Indices: 29418655--29418712 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
29418645 TTATCAAAAA
*
29418655 TCAGTCACGTAATGCCCAAAT
1 TCAGTCACGTAATGCCCAAAG
**
29418676 TCAGTCACGTAATATCCAAAG
1 TCAGTCACGTAATGCCCAAAG
29418697 TCAGTCACGTAATGCC
1 TCAGTCACGTAATGCC
29418713 TAAAAACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (21 bp):
TCAGTCACGTAATGCCCAAAG
Found at i:29419326 original size:58 final size:58
Alignment explanation
Indices: 29419257--29419373 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
29419247 TCAAATTATG
29419257 AGCGATAAAGCTTATGACTAAAATATGAGTAACGAACTATTGCCAAAGAATAGGCGAT
1 AGCGATAAAGCTTATGACTAAAATATGAGTAACGAACTATTGCCAAAGAATAGGCGAT
*
29419315 AGCGATAAAGCTTATGACTAAAATATGAGTAATGAACTATTGCCAAAGAATAGGCGAT
1 AGCGATAAAGCTTATGACTAAAATATGAGTAACGAACTATTGCCAAAGAATAGGCGAT
29419373 A
1 A
29419374 AAACTTGCAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (58 bp):
AGCGATAAAGCTTATGACTAAAATATGAGTAACGAACTATTGCCAAAGAATAGGCGAT
Found at i:29422450 original size:20 final size:21
Alignment explanation
Indices: 29422415--29422453 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29422405 AAAACTAATA
*
29422415 AATAACAATCAAATTAAAAGG
1 AATAACAATAAAATTAAAAGG
29422436 AATAAC-ATAAAATTAAAA
1 AATAACAATAAAATTAAAA
29422454 TAACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (21 bp):
AATAACAATAAAATTAAAAGG
Found at i:29422966 original size:172 final size:172
Alignment explanation
Indices: 29422680--29423021 Score: 603
Period size: 172 Copynumber: 2.0 Consensus size: 172
29422670 AACAGCATGA
*
29422680 GAAGAGAATGAAGGAGACCATTGGGGGAAAATATGGAAGGCCGTGGTTCCTTTCAAAGTGGAAAT
1 GAAGAGAATGAAGGAGACCATTGGGGGAAAATATGGAAGGCCGTGGCTCCTTTCAAAGTGGAAAT
29422745 CTTCTGTTAAAGGGTAATGAAAGGTAGGATTGCAATTAAGGCAGAACTAGTGAAGAGAAATCTCA
66 CTTCTGTTAAAGGGTAATGAAAGGTAGGATTGCAATTAAGGCAGAACTAGTGAAGAGAAATCTCA
* *
29422810 TAACTGCTGATACAGCCAATTGTGTTTTGTACAGAGGGACAG
131 TAACTACTGAAACAGCCAATTGTGTTTTGTACAGAGGGACAG
* *
29422852 GAAGAGAATGAAGGAGACCATTGGGGGAAAATATGGAAGGTCGTGGCTCTTTTCAAAGTGGAAAT
1 GAAGAGAATGAAGGAGACCATTGGGGGAAAATATGGAAGGCCGTGGCTCCTTTCAAAGTGGAAAT
* *
29422917 CTTCTGTTAAAGGGTAATGAGAGGTAGGATTGCAGTTAAGGCAGAACTAGTGAAGAGAAATCTCA
66 CTTCTGTTAAAGGGTAATGAAAGGTAGGATTGCAATTAAGGCAGAACTAGTGAAGAGAAATCTCA
* *
29422982 TAACTACTGAAATAGCCAATTGTGTTTTGTATAGAGGGAC
131 TAACTACTGAAACAGCCAATTGTGTTTTGTACAGAGGGAC
29423022 GGGATAGGAA
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 161 1.00
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (172 bp):
GAAGAGAATGAAGGAGACCATTGGGGGAAAATATGGAAGGCCGTGGCTCCTTTCAAAGTGGAAAT
CTTCTGTTAAAGGGTAATGAAAGGTAGGATTGCAATTAAGGCAGAACTAGTGAAGAGAAATCTCA
TAACTACTGAAACAGCCAATTGTGTTTTGTACAGAGGGACAG
Found at i:29424602 original size:31 final size:31
Alignment explanation
Indices: 29424567--29424794 Score: 222
Period size: 31 Copynumber: 7.4 Consensus size: 31
29424557 TCTAACAAAA
* *
29424567 CAGTGTGTCACGTCATAAATTTGCTACCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* *
29424598 CAGTGTGTCACGCCATAAATCTACTATCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* * ** *
29424629 CAGCGTGTCATGTAATAAATCTACTACCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* * ** *
29424660 TAGCGTGTCACATCATAAATATGCTACCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* *
29424691 TAGTGTGTCACACCATAAATCTGCTACCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* * **
29424722 CAATGTGTCACGCCATAAATCAGCTTGCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
* ** * *
29424753 CAGAGTGTGGCCCCATGAATCTGCTACCACT
1 CAGTGTGTCACGCCATAAATCTGCTACCACT
*
29424784 TAGTGTGTCAC
1 CAGTGTGTCAC
29424795 CACAAGGTGT
Statistics
Matches: 160, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
CAGTGTGTCACGCCATAAATCTGCTACCACT
Found at i:29424740 original size:93 final size:93
Alignment explanation
Indices: 29424571--29424742 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
29424561 ACAAAACAGT
* * * * *
29424571 GTGTCACGTCATAAATTTGCTACCACTCAGTGTGTCACGCCATAAATCTACTATCACTCAGCGTG
1 GTGTCACATCATAAATATGCTACCACTCAGTGTGTCACACCATAAATCTACTACCACTCAACGTG
* *
29424636 TCATGTAATAAATCTACTACCACTTAGC
66 TCACGCAATAAATCTACTACCACTTAGC
* * *
29424664 GTGTCACATCATAAATATGCTACCACTTAGTGTGTCACACCATAAATCTGCTACCACTCAATGTG
1 GTGTCACATCATAAATATGCTACCACTCAGTGTGTCACACCATAAATCTACTACCACTCAACGTG
*
29424729 TCACGCCATAAATC
66 TCACGCAATAAATC
29424743 AGCTTGCACT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (93 bp):
GTGTCACATCATAAATATGCTACCACTCAGTGTGTCACACCATAAATCTACTACCACTCAACGTG
TCACGCAATAAATCTACTACCACTTAGC
Found at i:29424982 original size:106 final size:106
Alignment explanation
Indices: 29424770--29425218 Score: 531
Period size: 106 Copynumber: 4.2 Consensus size: 106
29424760 TGGCCCCATG
* * ** * * *
29424770 AATCTGCTACCACTTAGTGTGTCACCACAAGGTGTCATCGACATATGACAATTGGGGCGTGGTGT
1 AATCTGCTTCCACTCAACGTGTCACCACAAGGTGTCATCGACACATGACAATTAGGGCGTGGCGT
* *
29424835 GTCACCCTACAATATTAGACAAGTCAGCGTGTTACGTGATA
66 GTCACCCTACAATATTAGACAAGTCAGCGTGTCACGCGATA
* * * * * *
29424876 AATTTGCTTTCACTCAGCGTGTCATCACAAGGTGTCATCGACACATGATAATTAGGGCGTGGTGT
1 AATCTGCTTCCACTCAACGTGTCACCACAAGGTGTCATCGACACATGACAATTAGGGCGTGGCGT
* * *
29424941 GTCACCCTACAATATTGGACAAGTCAACGTGTCACACGATA
66 GTCACCCTACAATATTAGACAAGTCAGCGTGTCACGCGATA
* * * *
29424982 AATATGCTTCCACTCAACGTGTCACCACAAGGTGTCATCAATACATGACAA-TAGGGGCTTGGCG
1 AATCTGCTTCCACTCAACGTGTCACCACAAGGTGTCATCGACACATGACAATTA-GGGCGTGGCG
**
29425046 TGTCACCCTACAATATTAGACAAGTCAGCGTGTCACGTAATA
65 TGTCACCCTACAATATTAGACAAGTCAGCGTGTCACGCGATA
* * * * * * * * *
29425088 TATCTACTTCCACTTAACGTGTCACCACAAGATGTCATAGACACCTGACAATTGGGGCATGGCAT
1 AATCTGCTTCCACTCAACGTGTCACCACAAGGTGTCATCGACACATGACAATTAGGGCGTGGCGT
* * * *
29425153 GTCACCCTATAATATTGGATAAGTCAGCATGTCACGCGATA
66 GTCACCCTACAATATTAGACAAGTCAGCGTGTCACGCGATA
**
29425194 AATCTGCTTCCACTCAGTGTGTCAC
1 AATCTGCTTCCACTCAACGTGTCAC
29425219 TATAGTAACG
Statistics
Matches: 290, Mismatches: 51, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
105 2 0.01
106 287 0.99
107 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (106 bp):
AATCTGCTTCCACTCAACGTGTCACCACAAGGTGTCATCGACACATGACAATTAGGGCGTGGCGT
GTCACCCTACAATATTAGACAAGTCAGCGTGTCACGCGATA
Found at i:29428030 original size:13 final size:12
Alignment explanation
Indices: 29427961--29428039 Score: 58
Period size: 13 Copynumber: 6.4 Consensus size: 12
29427951 TTCATCCATT
29427961 TTTTTATTAATT-
1 TTTTTATT-ATTA
**
29427973 TTTTTAAAATTTA
1 TTTTTATTA-TTA
29427986 TTTCTTACTT-TTA
1 TTT-TTA-TTATTA
29427999 TTTTT-TTATTA
1 TTTTTATTATTA
29428010 TATTTTATTATTA
1 T-TTTTATTATTA
29428023 TTTATTATTATT-
1 TTT-TTATTATTA
29428035 TTTTT
1 TTTTT
29428040 GAAATAGGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
10 2 0.04
11 7 0.13
12 19 0.35
13 24 0.44
14 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:29428032 original size:10 final size:10
Alignment explanation
Indices: 29427995--29428035 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
29427985 ATTTCTTACT
29427995 TTTATT-TT-
1 TTTATTATTA
29428003 TTTATTA-TA
1 TTTATTATTA
29428012 TTTTATTATTA
1 -TTTATTATTA
29428023 TTTATTATTA
1 TTTATTATTA
29428033 TTT
1 TTT
29428036 TTTTGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.24
10 20 0.69
11 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTATTA
Found at i:29431959 original size:22 final size:22
Alignment explanation
Indices: 29431911--29432152 Score: 161
Period size: 22 Copynumber: 10.6 Consensus size: 22
29431901 AGTCATGTTA
* * *
29431911 TTACACGTCATGTTTAAAAAATA
1 TTACACGCCATG-TTCAAAAATG
29431934 TTACACGCCATGTTCAAAAATG
1 TTACACGCCATGTTCAAAAATG
* * *
29431956 TTACATG-CAAGTTCAACACTATG
1 TTACACGCCATGTTCAA-A-AATG
* * *
29431979 CTATTTATACG-CATTATTCAAGAATG
1 ----TTACACGCCA-TGTTCAAAAATG
*
29432005 TTACACG-CAAGTTCAAAAATTG
1 TTACACGCCATGTTCAAAAA-TG
* *
29432027 TTACACTCCTTG-TCAAAAATG
1 TTACACGCCATGTTCAAAAATG
* *
29432048 TTACACG-CAAGTTCACAAATTG
1 TTACACGCCATGTTCA-AAAATG
*
29432070 TTACACGCCTTGTTCAAAAATG
1 TTACACGCCATGTTCAAAAATG
*
29432092 TTACACGCCATGTTCACAACATG
1 TTACACGCCATGTTCA-AAAATG
*
29432115 TTACACGCCATGTTAAATAAAAATG
1 TTACACGCCATGTT---CAAAAATG
*
29432140 TTAGACGCCATGT
1 TTACACGCCATGT
29432153 GCTAACACAT
Statistics
Matches: 172, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.01
21 26 0.15
22 70 0.41
23 41 0.24
25 17 0.10
26 4 0.02
27 7 0.04
28 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (22 bp):
TTACACGCCATGTTCAAAAATG
Found at i:29432062 original size:43 final size:44
Alignment explanation
Indices: 29431911--29432128 Score: 197
Period size: 43 Copynumber: 4.8 Consensus size: 44
29431901 AGTCATGTTA
* * * * *
29431911 TTACACGTCATGTTTAAAAAATATTACACGCCATGTTCAAAAATG
1 TTACACG-CAAGTTCAAAAATTGTTACACGCCTTGTTCAAAAATG
* * * * * * *
29431956 TTACATGCAAGTTCAACACTATGCTATTTATACGCATTATTCAAGAATG
1 TTACACGCAAGTTCAA-A-AAT--T-GTTACACGCCTTGTTCAAAAATG
*
29432005 TTACACGCAAGTTCAAAAATTGTTACACTCCTTG-TCAAAAATG
1 TTACACGCAAGTTCAAAAATTGTTACACGCCTTGTTCAAAAATG
*
29432048 TTACACGCAAGTTCACAAATTGTTACACGCCTTGTTCAAAAATG
1 TTACACGCAAGTTCAAAAATTGTTACACGCCTTGTTCAAAAATG
* * *
29432092 TTACACGCCATGTTCACAACA-TGTTACACGCCATGTT
1 TTACACG-CAAGTTCA-AAAATTGTTACACGCCTTGTT
29432129 AAATAAAAAT
Statistics
Matches: 140, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
43 40 0.29
44 31 0.22
45 30 0.21
46 3 0.02
47 2 0.01
48 2 0.01
49 32 0.23
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (44 bp):
TTACACGCAAGTTCAAAAATTGTTACACGCCTTGTTCAAAAATG
Found at i:29432128 original size:12 final size:12
Alignment explanation
Indices: 29432089--29432129 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
29432079 TTGTTCAAAA
29432089 ATGTTACACGCC
1 ATGTTACACGCC
**
29432101 ATGTT-CACAAC
1 ATGTTACACGCC
29432112 ATGTTACACGCC
1 ATGTTACACGCC
29432124 ATGTTA
1 ATGTTA
29432130 AATAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (12 bp):
ATGTTACACGCC
Found at i:29432456 original size:63 final size:63
Alignment explanation
Indices: 29432383--29432506 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
29432373 ACCACAGCAC
* * * *
29432383 GATGACGATGGTGCTCAA-AAGATAATTGACAAAGCTCATATAGTTTAGAGAGCTGAGAGAGCT
1 GATGACGATGGCGCTCAACAA-AGAATTGACAAAGCTCATACAGTTCAGAGAGCTGAGAGAGCT
* * * * *
29432446 GATGATGATGGCGCTTAACAAAGAGTTGACAAAGTTGATACAGTTCAGAGAGCTGAGAGAG
1 GATGACGATGGCGCTCAACAAAGAATTGACAAAGCTCATACAGTTCAGAGAGCTGAGAGAG
29432507 AAAGATGAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 49 0.96
64 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (63 bp):
GATGACGATGGCGCTCAACAAAGAATTGACAAAGCTCATACAGTTCAGAGAGCTGAGAGAGCT
Found at i:29436117 original size:3 final size:3
Alignment explanation
Indices: 29436109--29436134 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29436099 TTAGTTTAGC
29436109 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
29436135 GTGAATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29451981 original size:32 final size:32
Alignment explanation
Indices: 29451941--29452005 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
29451931 ACCACAAACA
*
29451941 AAAAGCTGTATCTTGTCAATCCGAAGGAGTTC
1 AAAAGCTGTATCTTGTCAATCCGAAAGAGTTC
29451973 AAAAGCTGTATCTTGTCAATCCGAAAGAGTTC
1 AAAAGCTGTATCTTGTCAATCCGAAAGAGTTC
29452005 A
1 A
29452006 GTTGGGTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (32 bp):
AAAAGCTGTATCTTGTCAATCCGAAAGAGTTC
Found at i:29452991 original size:15 final size:16
Alignment explanation
Indices: 29452971--29453002 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29452961 TGTTATTATG
29452971 ATTA-TTTATTTTTAA
1 ATTATTTTATTTTTAA
29452986 ATTATTTTATTTTTAA
1 ATTATTTTATTTTTAA
29453002 A
1 A
29453003 CATTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTTTATTTTTAA
Found at i:29453063 original size:118 final size:117
Alignment explanation
Indices: 29452932--29453287 Score: 385
Period size: 118 Copynumber: 2.9 Consensus size: 117
29452922 TAATATTAAA
* *
29452932 AAATACTAATATTTTATTCATAATTTAAATGTTATTATGATTATTTATTTTTAAATT-ATTTTAT
1 AAATATTAATATTTTATTCATAATTTAAATGTTATTATGATTATTTATTTTT-ATTTAATTTTAT
*
29452996 TTTTAAACATTAATAATGTATAATTTATTTAAAAATATTAAAAATTGAT-AGTTT
65 TTTTAAATATTAATAATGTATAATTTATTT-AAAATATTAAAAATTGATCA-TTT
29453050 AAATATTAATATTTTATTTATACTTTAATCATTAATATTAAATGTTATTATGATTATTTATTTTT
1 AAATATT-A-A---TATTT-TA---T--TCA-TAAT-TTAAATGTTATTATGATTATTTATTTTT
* * * * *
29453115 ATTTCAA-TTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAATAATTTATCAT
53 ATTT-AATTTTA-TTTTTAAATATTAATAATGTATAATTTATTTAAAATATTAAAAATTGATCAT
29453179 TT
116 TT
* *
29453181 AAATATTAATATTTTATTTATAATTTAAATTTTATTATGATTATTTATTTTTATTTAATTTTATC
1 AAATATTAATATTTTATTCATAATTTAAATGTTATTATGATTATTTATTTTTATTTAATTTTAT-
* * *
29453246 TTTTAAATATTAATAATTNTTATAATTGATTGAAAATATTAA
65 TTTTAAATATTAATAA-T-GTATAATTTATTTAAAATATTAA
29453288 TAATGGGTAA
Statistics
Matches: 203, Mismatches: 14, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
117 3 0.01
118 57 0.28
119 6 0.03
120 22 0.11
122 1 0.00
123 5 0.02
124 2 0.01
125 2 0.01
126 5 0.02
127 1 0.00
129 4 0.02
130 8 0.04
131 57 0.28
132 30 0.15
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (117 bp):
AAATATTAATATTTTATTCATAATTTAAATGTTATTATGATTATTTATTTTTATTTAATTTTATT
TTTAAATATTAATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTT
Found at i:29453103 original size:131 final size:129
Alignment explanation
Indices: 29452944--29453208 Score: 374
Period size: 131 Copynumber: 2.0 Consensus size: 129
29452934 ATACTAATAT
* *
29452944 TTTATTCATAATTTAAATGTTATTATGATTATTTATTTTTAAATT-ATTTTA-TTTTTAAACATT
1 TTTAATCATAATTTAAATGTTATTATGATTATTTATTTTT-AATTCAATTTATTTTTTAAACATT
29453007 AATAATGTATAATTTATTTAAAAATATTAAAAATTGAT-AGTTTAAATATTAATATTTTATTTAT
65 AATAATGTATAATTTATTT-AAAATATTAAAAATTGATCA-TTTAAATATTAATATTTTATTTAT
*
29453071 AC
128 AA
* *
29453073 TTTAATCATTAATATTAAATGTTATTATGATTATTTATTTTTATTTCAATTTATTTTTTAAATAT
1 TTTAATCA-TAAT-TTAAATGTTATTATGATTATTTATTTTTAATTCAATTTATTTTTTAAACAT
* * * * *
29453138 TAATAATTTATATTTTATTTATAATATTAATAATTTATCATTTAAATATTAATATTTTATTTATA
64 TAATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTTAAATATTAATATTTTATTTATA
29453203 A
129 A
29453204 TTTAA
1 TTTAA
29453209 ATTTTATTAT
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
129 7 0.06
130 7 0.06
131 78 0.64
132 29 0.24
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (129 bp):
TTTAATCATAATTTAAATGTTATTATGATTATTTATTTTTAATTCAATTTATTTTTTAAACATTA
ATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTTAAATATTAATATTTTATTTATAA
Found at i:29453147 original size:22 final size:22
Alignment explanation
Indices: 29453120--29453199 Score: 88
Period size: 22 Copynumber: 3.4 Consensus size: 22
29453110 TTTTTATTTC
29453120 AATTTATTTTTTAAATATTAAT
1 AATTTATTTTTTAAATATTAAT
29453142 AATTTATATTTTATTTATAATATTAAT
1 AA-TT-TA-TTT-TTTA-AATATTAAT
**
29453169 AATTTATCATTTAAATATTAAT
1 AATTTATTTTTTAAATATTAAT
*
29453191 ATTTTATTT
1 AATTTATTT
29453200 ATAATTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 17 0.35
23 6 0.12
24 3 0.06
25 5 0.10
26 6 0.12
27 11 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTTATTTTTTAAATATTAAT
Found at i:29453163 original size:27 final size:27
Alignment explanation
Indices: 29453129--29453180 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
29453119 CAATTTATTT
29453129 TTTAAATATTAATAATTTAT-ATTTTA
1 TTTAAATATTAATAATTTATCATTTTA
29453155 TTTATAATATTAATAATTTATCATTT
1 TTTA-AATATTAATAATTTATCATTT
29453181 AAATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 4 0.17
27 16 0.67
28 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTAAATATTAATAATTTATCATTTTA
Found at i:29453236 original size:42 final size:42
Alignment explanation
Indices: 29453134--29453241 Score: 94
Period size: 42 Copynumber: 2.6 Consensus size: 42
29453124 TATTTTTTAA
* * * * *
29453134 ATATTAATAATTTATATTTTATTTATAATATTAATAATTTATC
1 ATATTATTTATTTATATTTAATTTATAATATTAA-ATTTTATT
** * *
29453177 AT-TTAAATATTAATATTTTATTTATAAT-TTAAATTTTATT
1 ATATTATTTATTTATATTTAATTTATAATATTAAATTTTATT
*
29453217 ATGATTATTTATTTTTATTTAATTT
1 AT-ATTATTTATTTATATTTAATTT
29453242 TATCTTTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
40 8 0.15
41 4 0.08
42 39 0.74
43 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (42 bp):
ATATTATTTATTTATATTTAATTTATAATATTAAATTTTATT
Found at i:29453489 original size:1 final size:1
Alignment explanation
Indices: 29453355--29453471 Score: 225
Period size: 1 Copynumber: 117.0 Consensus size: 1
29453345 TAAATTTAAA
29453355 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
29453420 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
29453472 AATAATTAAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 114 1.00
ACGTcount: A:0.00, C:0.01, G:0.00, T:0.99
Consensus pattern (1 bp):
T
Found at i:29453595 original size:23 final size:24
Alignment explanation
Indices: 29453534--29453597 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
29453524 TAAATTTTTA
29453534 TAATTTTA-AAATATTAAAAATATTT
1 TAATTTTATAAAT-TTAAAAATA-TT
*
29453559 TAATTTT-T-AGTTTAAAAATA-T
1 TAATTTTATAAATTTAAAAATATT
29453580 TAATTTTATAAATTTAAA
1 TAATTTTATAAATTTAAA
29453598 TTTGTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.24
22 1 0.03
23 16 0.47
24 2 0.06
25 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTTATAAATTTAAAAATATT
Found at i:29462573 original size:13 final size:13
Alignment explanation
Indices: 29462555--29462579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29462545 CTAAAATTAT
29462555 AACTTATAAAAAA
1 AACTTATAAAAAA
29462568 AACTTATAAAAA
1 AACTTATAAAAA
29462580 GAAATTTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AACTTATAAAAAA
Found at i:29464621 original size:251 final size:251
Alignment explanation
Indices: 29464178--29464764 Score: 892
Period size: 251 Copynumber: 2.3 Consensus size: 251
29464168 GTAACAAGTC
* * *
29464178 ATCTAATTTTAATGAAAAGTAAATATTTAAATTTATATTTTCAGACTAAAAGTGTTTAACTATAT
1 ATCTAATTTTAATGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAACAATAT
*
29464243 ACAAATTTTAATTTTTAAATAAAAATAATAATAATAAAAATAATTATAGTTCAAAATTGACATAA
66 ACAAATTTTAATTTTTAAATAAAAATAATAAGAATAAAAATAATTATAGTTCAAAATTGACATAA
* * *
29464308 ATAAGTCTTGACGTAAAATTGTAACAATTGACGTAAAAACTTATAAAGGTAGAATAACTAAATTT
131 ATAAGCCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTAGAATAACTAAATTT
* * * * *
29464373 TAAATCTTAACGTAAATGTGTGAGAGTTAACGTAACCA-GTCAATTAAG-CAAAAAA
196 TAAATCTTAACGTAAATATGTGAAAATTAAAGTAA-CATGTCAATTAAGAAAAAAAA
* * *
29464428 ATCTAATTTTAATGAAAAACAAACATTTAAATTTATATTCTCAGATTAAAAGTGTTTAACAATAT
1 ATCTAATTTTAATGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAACAATAT
*
29464493 ACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGACATA
66 ACAAATTTTAATTTTTAAATAAA-AATAATAAGAATAAAAATAATTATAGTTCAAAATTGACATA
* * * *
29464558 GAA-AAGCCTTGACGTTAAACTGTAAGAATTGATGTAAAAACTTATAAAAGTGGAATAACTAAAT
130 -AATAAGCCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTAGAATAACTAAAT
*
29464622 TTTAAATGTTAACGTAAATATGTGAAAATTAAAGTAACATGTCAATTAAGTAAAAAAAAA
194 TTTAAATCTTAACGTAAATATGTGAAAATTAAAGTAACATGTCAATTAAG--AAAAAAAA
* * *
29464682 ATCTAATTTTAATGAAATATAAATATTTAAATTTATATTCTCAGACTAAAAGTATTTAACGATAT
1 ATCTAATTTTAATGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAACAATAT
29464747 ACAAATTTTAATTTTTAA
66 ACAAATTTTAATTTTTAA
29464765 GTTTGAGATA
Statistics
Matches: 304, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
250 84 0.28
251 135 0.44
252 2 0.01
254 83 0.27
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (251 bp):
ATCTAATTTTAATGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAACAATAT
ACAAATTTTAATTTTTAAATAAAAATAATAAGAATAAAAATAATTATAGTTCAAAATTGACATAA
ATAAGCCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAAGTAGAATAACTAAATTT
TAAATCTTAACGTAAATATGTGAAAATTAAAGTAACATGTCAATTAAGAAAAAAAA
Found at i:29464858 original size:190 final size:186
Alignment explanation
Indices: 29464591--29464950 Score: 492
Period size: 190 Copynumber: 1.9 Consensus size: 186
29464581 AAGAATTGAT
* *
29464591 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATGTTAACGTAAATATGTGAAAATTAAAG
1 GTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAATTAAAG
* *
29464656 TAACATGTCAATTAAGTAAAAAAAAAATCTAATTTTAATGAAATATAAATATTTAAATTTATATT
66 TAACAAGTCAATTAAGT---AAAAAAATCTAATTTTAATGAAA-AAAAATATTTAAATTTATATT
* *
29464721 CTC-AGACTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
127 CTCGAG-CTAAAAGTAGTTAACAATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
* * * *
29464781 GTAAAAGCTTAT-AAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
1 GTAAAAACTTATAAAAG-TGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAATTAA-
* * * *
29464845 A-TAATAAGTCAATTAAGTAAAAAAATTTAATTTTAGTGAAAAAAAATATTTAAATTTATATTTT
64 AGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAAAAATATTTAAATTTATATTCT
* *
29464909 CGAGCTAAAAGTGGTTAACAATATATAAATTTTAATTTTTAA
129 CGAGCTAAAAGTAGTTAACAATATACAAATTTTAATTTTTAA
29464951 ATAAAGAATA
Statistics
Matches: 151, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
186 56 0.37
187 23 0.15
189 4 0.03
190 67 0.44
191 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.36
Consensus pattern (186 bp):
GTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAATTAAAG
TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAATGAAAAAAAATATTTAAATTTATATTCTCG
AGCTAAAAGTAGTTAACAATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
Found at i:29465025 original size:20 final size:20
Alignment explanation
Indices: 29464996--29465033 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29464986 ATTGACATAG
*
29464996 ATAAGCATTGACGTAAAATT
1 ATAAGAATTGACGTAAAATT
*
29465016 ATAAGAATTGATGTAAAA
1 ATAAGAATTGACGTAAAA
29465034 ACTTATAAAA
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:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (20 bp):
ATAAGAATTGACGTAAAATT
Found at i:29465108 original size:437 final size:437
Alignment explanation
Indices: 29464340--29465198 Score: 1246
Period size: 437 Copynumber: 2.0 Consensus size: 437
29464330 AACAATTGAC
* *
29464340 GTAAAAACTTATAAAGGTAGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACG
1 GTAAAAACTTATAAAGATAGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
*
29464405 TAACCAGTCAATTAAGCAAAAAAATCTAATTTTAATGAAAAACAAACATTTAAATTTATATTCTC
66 TAACAAGTCAATTAAGCAAAAAAATCTAATTTTAATGAAAAACAAACATTTAAATTTATATTCTC
* *
29464470 AGATTAAAAGTGTTTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATAAAAAT
131 AGACTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGA-AAAAAT
* * * *
29464535 AATTATAGTTCAAAATTGACATAGAAAAGCCTTGACGTTAAACTGTAAGAATTGATGTAAAAACT
195 AATTATAATTCAAAATTGACATAGAAAAGCATTGACGTAAAACTATAAGAATTGATGTAAAAACT
* * *
29464600 TATAAAAGTGGAATAACTAAATTTTAAATGTTAACGTAAATATGTGAAAATTAAAGTAACATGTC
260 TATAAAAGTGAAATAACTAAATTTTAAATGTTAACCTAAATATGTGAAAATTAAAGTAACAAGTC
* * *
29464665 AATTAAGTAAAAAAAAAATCTAATTTTAATGAAATATAAATATTTAAATTTATATTCTC-AGACT
325 AATTAAGT---AAAAAAATCTAATTTTAATAAAAAATAAATATTTAAATTTATATTATCAAG-CT
*
29464729 AAAAGTATTTAACGATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
386 AAAAGTATGTAACGATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
*
29464781 GTAAAAGCTTATAAAGAT-GAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
1 GTAAAAACTTATAAAGATAG-AATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
* * * * * *
29464845 ATAATAAGTCAATTAAGTAAAAAAATTTAATTTTAGTGAAAAA-AAATATTTAAATTTATATTTT
65 ATAACAAGTCAATTAAGCAAAAAAATCTAATTTTAATGAAAAACAAACATTTAAATTTATATTCT
* *
29464909 C-GAGCTAAAAGTGGTTAACAATATATAAATTTTAATTTTTAAATAAAGAATAATAATG-AAAAA
130 CAGA-CTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAA
* *
29464972 -AATTATAATTCAAAATTGACATAGATAAGCATTGACGTAAAATTATAAGAATTGATGTAAAAAC
194 TAATTATAATTCAAAATTGACATAGAAAAGCATTGACGTAAAACTATAAGAATTGATGTAAAAAC
* * * *
29465036 TTATAAAAGTGAAATAACTAAATTTTAAATTTTAACCTAAATAT-TTAAAAGTTAATGTAATAAG
259 TTATAAAAGTGAAATAACTAAATTTTAAATGTTAACCTAAATATGTGAAAA-TTAAAGTAACAAG
* * *
29465100 TTAATTAAGTAAAAAAATTTAATTTTAATAAAAAATAAATATTTATATTTATATTATCAAGCTAA
323 TCAATTAAGTAAAAAAATCTAATTTTAATAAAAAATAAATATTTAAATTTATATTATCAAGCTAA
* ** * *
29465165 AAGTATGTAATGATATTTAGATTTTTATTTTTAA
388 AAGTATGTAACGATATACAAATTTTAATTTTTAA
29465199 ATAAAGAATA
Statistics
Matches: 375, Mismatches: 39, Indels: 15
0.87 0.09 0.03
Matches are distributed among these distances:
434 75 0.20
435 2 0.01
436 5 0.01
437 118 0.31
438 5 0.01
439 2 0.01
440 71 0.19
441 97 0.26
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (437 bp):
GTAAAAACTTATAAAGATAGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
TAACAAGTCAATTAAGCAAAAAAATCTAATTTTAATGAAAAACAAACATTTAAATTTATATTCTC
AGACTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGAAAAAATA
ATTATAATTCAAAATTGACATAGAAAAGCATTGACGTAAAACTATAAGAATTGATGTAAAAACTT
ATAAAAGTGAAATAACTAAATTTTAAATGTTAACCTAAATATGTGAAAATTAAAGTAACAAGTCA
ATTAAGTAAAAAAATCTAATTTTAATAAAAAATAAATATTTAAATTTATATTATCAAGCTAAAAG
TATGTAACGATATACAAATTTTAATTTTTAAGTTTGAGATAAAACTG
Found at i:29465293 original size:251 final size:251
Alignment explanation
Indices: 29464781--29466968 Score: 2342
Period size: 251 Copynumber: 8.8 Consensus size: 251
29464771 GATAAAACTG
* * * * *
29464781 GTAAAAGCTTAT-AAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAAC
1 GTAAAAACTTATAAAAG-TGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAAC
* * * *
29464845 ATAATAAGTCAATTAAGTAAAAAAATTTAATTTTAGTGAAAAA-AAATATTTAAATTTATATTTT
65 GTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCT
* * * *
29464909 CGAGCTAAAAGTGGTTAACAATATATAAATTTTAATTTTTAAATAAAGAATAATAATG--AAAAA
130 CAAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAA
* * * * * *
29464972 -AATTATAATTCAAAATTGACATAGATAAGCATTGACGTAAAATTATAAGAATTGAT
195 TAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * * *
29465028 GTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATTTTAACCTAAATATTTAAAAGTTAATG
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
* * * * * * * *
29465093 TAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATAAAAAATAAATATTTATATTTATATTATC
66 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
* * * * * * *
29465158 AAGCTAAAAGTATGTAATGATATTTAGATTTTTATTTTTAAATAAAGAATAATAAGGATAAAAAT
131 AAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
* *
29465223 AATTATAGTTCAAAATTGATATAAAAAAGCCTTGACGTAAAATTGTAAGAATTAAC
196 AATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * * * * *
29465279 GTAAAAACTTATAAAGGTAGAATAACTAAATTTTAAATTTTAACATAAACGTGTGAGAA-TTAAC
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGT-TTAAAAGTTAAC
* * * * *
29465343 TTAACAAATCAATTAAGTAAAAAAATATAATTTTAGTGAAAAATAAATATTTAAATTTATATGCT
65 GTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCT
* *
29465408 C-AGACTAAAAGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAAT-AAGTATAAA
130 CAAG-CTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAG-ATAAA
* * *
29465471 AATAATTATAGTTCAAAATGGACATAGAAAAA-CTTTGACGTAAAACTGTAAGAATTGAC
193 AATAATTATAGTTCAAAATTGACATA-AAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * ** * * * * *
29465530 GTAAAACCTTATAAATGTGGAATAATTAAATTTTAAATCTTAAAATAAATATGTGAGAGTTAACA
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
* *
29465595 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTATTGAAAAACAAATATTTAAATTTATATTGTC
66 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
** * *
29465660 AAAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAA-AATAATAAAGATAAAAAT
131 AAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
**
29465724 AATTATA-TGTCAAAATTG--AT-----A----T-A-G----A---TAAGCCTTGAC
196 AATTATAGT-TCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * ** * * * *
29465760 GT-AAAACTTATAAAGGTGGAATAACTAAATTGTAAATTTTAATATAAACGTGTGAGAGTTAACG
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
* * *
29465824 TAACAAGTCAATTAAGT-AAAAAATATAATTTTAGTAAAAAATAAATATTTAAATTTATATTCTC
66 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
* * ** *
29465888 AGGCTAAATGTGTTTAATAATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
131 AAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
* * * * * *
29465953 AATTATAGTTTAAAATTAACA-AAGATAAGCCTTGATGTAAAACTGTAACAATTGAC
196 AATTATAGTTCAAAATTGACATAA-AAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * * * * * *
29466009 ATAAAAACTTATGAATGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGCTGACA
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
*
29466074 TAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCT
66 TAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCT
* * * *
29466139 CGAA-ATAAAAGTGTTTAATGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAAGATAACA
130 C-AAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAA
* * * * * * *
29466203 GTAATCATAGTT-AAAAGTT-ACTATTAAAAAGGCTTGACGTGAAGTTATAAGAATTGAC
194 ATAATTATAGTTCAAAA-TTGAC-ATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * * * * *
29466261 ATAAAATCTTATAAAAATGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAA-TTAAC
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGT-TTAAAAGTTAAC
* *
29466325 GTAACAAG-CTAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATAATTAAATTTATATTC
65 GTAACAAGTC-AATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTC
* * *
29466389 TCAAACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAATAATAATAAGGATAAAA
129 TCAAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAA
* * * * *
29466454 ATAATTATAGTTCAAAATTGACATAAATAAGTCTTGACATAAAACTGTAACAATTGAC
194 ATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* ** * * * * *
29466512 GTAACAACCCATAAATGTGGAATAACTAAATTTTAAATCTAAACGTAAATGTGTAAGAGTTAATG
1 GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
* *
29466577 TAACAAGTCAATTAAGTAAAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATATTC
66 TAACAAGTCAATTAAGT--AAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTC
* *
29466642 TCAAGTTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAATA-ATAAA
129 TCAAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAA-AGATAAA
* * * * * * *
29466706 AATAATTATAGTTCAAAATTAACATAAATAAGTCTTGACGTAAAACTATAACAATTAAC
193 AATAATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
* * *
29466765 GTAAAAA-TCTATAAAGGTGGAATAAGTAAATTTTAAATCTTAACGTAAATGTGTTAGAA-TTAA
1 GTAAAAACT-TATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGT-TTAAAAGTTAA
* * * * ** * *
29466828 CGTGATAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAACGTTTATATTTATATTA
64 CGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTC
* * * *
29466893 TCATA-CTAAAAGTATGTAACGATAT-TCAAATTTTTA-TTTTAAACAAAGAATAATAAAGATAA
129 TCA-AGCTAAAAGTGTTTAACGATATAT-AAATTTTAATTTTTAAATAAAGAATAATAAAGATAA
**
29466955 CGATAATTATAGTT
192 AAATAATTATAGTT
29466969 GAAAGTTACT
Statistics
Matches: 1648, Mismatches: 235, Indels: 113
0.83 0.12 0.06
Matches are distributed among these distances:
228 80 0.05
229 102 0.06
230 12 0.01
231 1 0.00
233 1 0.00
236 1 0.00
237 1 0.00
238 1 0.00
239 1 0.00
240 1 0.00
241 1 0.00
242 2 0.00
246 1 0.00
247 90 0.05
248 73 0.04
249 11 0.01
250 146 0.09
251 678 0.41
252 218 0.13
253 224 0.14
254 3 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (251 bp):
GTAAAAACTTATAAAAGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTTTAAAAGTTAACG
TAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
AAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
AATTATAGTTCAAAATTGACATAAAAAAGCCTTGACGTAAAATTGTAAGAATTGAC
Found at i:29465873 original size:19 final size:18
Alignment explanation
Indices: 29465838--29465873 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29465828 AAGTCAATTA
*
29465838 AGTAAAAAATATAATTTT
1 AGTAAAAAATAAAATTTT
29465856 AGTAAAAAATAAATATTT
1 AGTAAAAAATAAA-ATTT
29465874 AAATTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
AGTAAAAAATAAAATTTT
Found at i:29466242 original size:731 final size:730
Alignment explanation
Indices: 29464781--29466999 Score: 2586
Period size: 731 Copynumber: 3.0 Consensus size: 730
29464771 GATAAAACTG
* * *
29464781 GTAAAAGCTTATAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
1 GTAAAACCTTATAAAG-TGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
* * *
29464846 TAATAAGTCAATTAAGTAAAAAAATTTAATTTTAGTGAAAAA-AAATATTTAAATTTATATTTTC
65 TAACAAGTCAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
* * * * * *
29464910 GAGCTAAAAGTGGTTAACAATATATAAATTTTAATTTTTAAATAAAGAATAATAATGAAAAAAAT
130 AAACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAG-ATAAAA-
* * * * *
29464975 TATAATTCAAAATTGACATAGATAAGCATTGACGTAAAATTATAAGAATTGATGTAAAAACTTAT
193 -ATAATT--ATA-TG--AT-CA-AA--ATTGA--TATAA--ATAAGACTTGACGT-AAAACTTAT
* * * ** * * * * *
29465040 AAAAGTGAAATAACTAAATTTTAAATTTTAACCTAAATATTTAAAAGTTAATGTAATAAGTTAAT
243 -AAAGTGGAATAACTAAATTGTAAATTTTAATCTAAACGTGTGAGAGTTAATGTAACAAGTCAAT
* * * * *
29465105 TAAGTAAAAAAATTTAATTTTAATAAAAAATAAATATTTATATTTATATTATCAAGCTAAAAGTA
307 TAAGTAAAAAAATATAATTTTAGTAAAAAATAAATATTTAAATTTATATTCTCAAGCTAAAAGTG
* * * * *
29465170 TGTAATGATATTTAGATTTTTATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCA
372 TTTAATGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCA
* * * *
29465235 AAATTGATATAAAA-AAGCCTTGACGTAAAATTGTAAGAATTAACGTAAAAACTTATAAAGGTAG
437 AAATT-A-ACAAAATAAGCCTTGACGTAAAACTGTAACAATTAACGTAAAAACTTATAAAGGTGG
* * * * *
29465299 AATAACTAAATTTTAAATTTTAACATAAACGTGTGAGAATTAACTTAACAAATCAATTAAGTAAA
500 AATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACATAACAAGTCAATTAAGTAAA
* * * *
29465364 AAAATATAATTTTAGTGAAAAATAAATATTTAAATTTATATGCTCAGACTAAAAGTGTTTAATGA
565 AAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCAGACTAAAAGTGTTTAATGA
* * *
29465429 TATACAAATTTTAATTTTTAAATAAAGAATAAT-AAGTATAAAAATAATTATAGTTCAAAA-TGG
630 TATACAAATTTTAATTTTTAAATAAAGAATAATAAAG-ATAACAGTAATTATAGTT-AAAAGT-T
*
29465492 AC-A-TAGAAAA-ACTTTGACGTAAAACTGTAAGAATTGAC
692 ACTATTA-AAAAGAC-TTGACGTAAAACTATAAGAATTGAC
** *
29465530 GTAAAACCTTATAAATGTGGAATAATTAAATTTTAAATCTTAAAATAAATATGTGAGAGTTAACA
1 GTAAAACCTTATAAA-GTGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
* * *
29465595 TAACAAGTCAATTAAGTAAAAAAATCTAATTTTATTGAAAAACAAATATTTAAATTTATATTGTC
65 TAACAAGTCAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTC
* * *
29465660 AAAATAAAAGTATTTAACGATATAAAAATTTTAATTTTTAAATAAA-AATAATAAAGATAAAAAT
130 AAACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAAT
* *
29465724 AATTATATG-TCAAAATTGATATAGATAAGCCTTGACGTAAAACTTATAAAGGTGGAATAACTAA
195 AATTATATGATCAAAATTGATATAAATAAGACTTGACGTAAAACTTATAAA-GTGGAATAACTAA
* *
29465788 ATTGTAAATTTTAATATAAACGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAATATAA
259 ATTGTAAATTTTAATCTAAACGTGTGAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATATAA
* * * *
29465852 TTTTAGTAAAAAATAAATATTTAAATTTATATTCTCAGGCTAAATGTGTTTAATAATATACAAAT
324 TTTTAGTAAAAAATAAATATTTAAATTTATATTCTCAAGCTAAAAGTGTTTAATGATATATAAAT
*
29465917 TTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTAACAAAGATAAG
389 TTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTAACAAA-ATAAG
* * * * *
29465982 CCTTGATGTAAAACTGTAACAATTGACATAAAAACTTATGAATGTGGAATAACTAAATTTTAAAT
453 CCTTGACGTAAAACTGTAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAAT
* *
29466047 CTTAACGTAAATGTGTGA-AAGCTGACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGT
518 CTTAACGTAAATGTGTGAGAA-TTAACATAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAGT
* *
29466111 GAAAAACAAACATTTAAATTTATATTCTC-GAAATAAAAGTGTTTAATGATATAAAAATTTTAAT
581 GAAAAACAAACATTTAAATTTATATTCTCAG-ACTAAAAGTGTTTAATGATATACAAATTTTAAT
* *
29466175 TTTTAAATAAAGAATAATAAAGATAACAGTAATCATAGTTAAAAGTTACTATTAAAAAGGCTTGA
645 TTTTAAATAAAGAATAATAAAGATAACAGTAATTATAGTTAAAAGTTACTATTAAAAAGACTTGA
* **
29466240 CGTGAAGTTATAAGAATTGAC
710 CGTAAAACTATAAGAATTGAC
* * * * *
29466261 ATAAAATCTTATAAAAATGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACG
1 GTAAAACCTTAT-AAAGTGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACA
*
29466326 TAACAAG-CTAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATAATTAAATTTATATTCT
65 TAACAAGTC-AATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCT
* *
29466390 CAAACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAATAATAATAAGGATAAAAA
129 CAAACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAA
* * * * * *
29466455 TAATTATA-GTTCAAAATTGACATAAATAAGTCTTGACATAAAACTGTA-ACAATTGACGTAACA
194 TAATTATATGATCAAAATTGATATAAATAAGACTTGACGTAAAACT-TATA-AAGTG--G-AATA
29466518 ACCCATAAATGTGGAATAACTAAATTTTAAATCTAAACGTAAATGTGTAAGAGTTAATGTAACAA
254 A--C-TAAAT-T-G------TAAATTTT-AATCTAAACG----TGTG--AGAGTTAATGTAACAA
* * * *
29466583 GTCAATTAAGTAAAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATATTCTCAAGT
301 GTCAATTAAGT--AAAAAAATATAATTTTAGTAAAAAATAAATATTTAAATTTATATTCTCAAGC
* *
29466648 TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAATA-ATAAAAATAAT
364 TAAAAGTGTTTAATGATATATAAATTTTAATTTTTAAATAAAGAATAATAA-AGATAAAAATAAT
* *
29466712 TATAGTTCAAAATTAACATAAATAAGTCTTGACGTAAAACTATAACAATTAACGTAAAAA-TCTA
428 TATAGTTCAAAATTAACA-AAATAAGCCTTGACGTAAAACTGTAACAATTAACGTAAAAACT-TA
* * * * * *
29466776 TAAAGGTGGAATAAGTAAATTTTAAATCTTAACGTAAATGTGTTAGAATTAACGTGATAAGTTAA
491 TAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACATAACAAGTCAA
* * * * *
29466841 TTAAGTAAAAAAATCTAATTTTAATGAAAAACAAACGTTTATATTTATATTATCATACTAAAAGT
556 TTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCAGACTAAAAGT
* * * * * *
29466906 ATGTAACGATATTCAAATTTTTA-TTTTAAACAAAGAATAATAAAGATAAC-GATAATTATAGTT
621 GTTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAACAG-TAATTATAGTT
* * *
29466969 GAAAGTTACTATTGAAAAGACTTGATGTAAA
685 AAAAGTTACTATTAAAAAGACTTGACGTAAA
29467000 GTTGTACGAA
Statistics
Matches: 1268, Mismatches: 153, Indels: 93
0.84 0.10 0.06
Matches are distributed among these distances:
728 4 0.00
729 4 0.00
730 219 0.17
731 354 0.28
732 78 0.06
733 4 0.00
734 4 0.00
735 4 0.00
736 5 0.00
737 1 0.00
738 7 0.01
739 2 0.00
740 2 0.00
743 2 0.00
744 2 0.00
746 14 0.01
747 9 0.01
748 5 0.00
749 105 0.08
750 61 0.05
751 4 0.00
753 27 0.02
754 62 0.05
755 70 0.06
756 214 0.17
757 5 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (730 bp):
GTAAAACCTTATAAAGTGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACAT
AACAAGTCAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCA
AACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATA
ATTATATGATCAAAATTGATATAAATAAGACTTGACGTAAAACTTATAAAGTGGAATAACTAAAT
TGTAAATTTTAATCTAAACGTGTGAGAGTTAATGTAACAAGTCAATTAAGTAAAAAAATATAATT
TTAGTAAAAAATAAATATTTAAATTTATATTCTCAAGCTAAAAGTGTTTAATGATATATAAATTT
TAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTAACAAAATAAGCCT
TGACGTAAAACTGTAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTT
AACGTAAATGTGTGAGAATTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAA
ACAAACATTTAAATTTATATTCTCAGACTAAAAGTGTTTAATGATATACAAATTTTAATTTTTAA
ATAAAGAATAATAAAGATAACAGTAATTATAGTTAAAAGTTACTATTAAAAAGACTTGACGTAAA
ACTATAAGAATTGAC
Found at i:29466871 original size:504 final size:503
Alignment explanation
Indices: 29464790--29466968 Score: 2355
Period size: 504 Copynumber: 4.4 Consensus size: 503
29464780 GGTAAAAGCT
* * * * * *
29464790 TATAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAATAAGTC
1 TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGTT
* * * *
29464855 AATTAAGTAAAAAAATTTAATTTTAGTGAAAAA-AAATATTTAAATTTATATTTTCGAGCTAAAA
66 AATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAAA
* * * *
29464919 GTGGTTAACAATATATAAATTTTAATTTTTAAATAAAGAATAATAATG--AAAAA-AATTATAAT
131 GTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGT
* * * * * * * ** ** *
29464981 TCAAAATTGACATAGATAAGCATTGACGTAAAATTATAAGAATTGATGTAAAAACTTATAAAAGT
196 TCAAAATTAACAAAGATAAGCCTTGACATAAAACTGTAACAATTGACATAAAAACCCATAAATGT
* * * * * * * * ** * *
29465046 GAAATAACTAAATTTTAAATTTTAACCTAAATATTTAAAAGTTAATGTAATAAGTTAATTAAGT-
261 GGAATAACTAAATTTTAAATCTAAACGTAAATGTGTGAAAGCTAACATAACAAGTCAATTAAGTA
* * * * * * * * * *
29465110 AAAAAAATTTAATTTTAATAAAAAATAAATATTTATATTTATATTATC-AAGCTAAAAGTATGTA
326 AAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAA-ATAAAAGTGTTTA
* ** * * * * *
29465174 ATGATATTTAGATTTTTATTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAA-
390 ACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATCATAGTT-AAAAG
* * * * *
29465238 TTGA-TATAAAAAAGCCTTGACGTAAAATTGTAAGAATTAACGTAAAAA-C
454 TT-ACTATTAAAAAGGCTTGACGTAAAACTATAACAATTAACGTAAAAATC
* * * * * *
29465287 TTATAAAGGTAGAATAACTAAATTTTAAATTTTAACATAAACGTGTGAGAATTAACTTAACAAAT
1 -TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGT
* * * *
29465352 CAATTAAGTAAAAAAATATAATTTTAGTGAAAAATAAATATTTAAATTTATATGCTCAGACTAAA
65 TAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAA
* *
29465417 AGTGTTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAAT-AAGTATAAAAATAATTATA
130 AGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAG-ATAAAAATAATTATA
** * * * * * * * *
29465481 GTTCAAAATGGACATAGAAAAACTTTGACGTAAAACTGTAAGAATTGACGT-AAAACCTTATAAA
194 GTTCAAAATTAACAAAGATAAGCCTTGACATAAAACTGTAACAATTGACATAAAAACC-CATAAA
* * * * *
29465545 TGTGGAATAATTAAATTTTAAATCTTAAA-ATAAATATGTGAGAGTTAACATAACAAGTCAATTA
258 TGTGGAATAACTAAATTTTAAATC-TAAACGTAAATGTGTGAAAGCTAACATAACAAGTCAATTA
* * * * *
29465609 AGT-AAAAAAATCTAATTTTATTGAAAAACAAATATTTAAATTTATATTGTCAAAATAAAAGTAT
322 AGTAAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAAATAAAAGTGT
29465673 TTAACGATATAAAAATTTTAATTTTTAAAT-AAAAATAATAAAGATAAAAATAAT--TA--T--A
387 TTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATCATAGTTAAA
* * * * * *
29465731 TG-T-C-----AAAA---TTGA--TATAGA-TA-AGC-CTTGACGTAAAACT-
452 AGTTACTATTAAAAAGGCTTGACGTA-AAACTATAACAATTAACGTAAAAATC
* * ** * * *
29465768 TATAAAGGTGGAATAACTAAATTGTAAATTTTAATATAAACGTGTGAGAGTTAACGTAACAAGTC
1 TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGTT
* * ** *
29465833 AATTAAGT-AAAAAATATAATTTTAGTAAAAAATAAATATTTAAATTTATATTCTCAGGCTAAAT
66 AATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAAA
** *
29465897 GTGTTTAATAATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGT
131 GTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGT
* ** ** *
29465962 TTAAAATTAACAAAGATAAGCCTTGATGTAAAACTGTAACAATTGACATAAAAACTTATGAATGT
196 TCAAAATTAACAAAGATAAGCCTTGACATAAAACTGTAACAATTGACATAAAAACCCATAAATGT
* *
29466027 GGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGCTGACATAACAAGTCAATTAAGTA
261 GGAATAACTAAATTTTAAATCTAAACGTAAATGTGTGAAAGCTAACATAACAAGTCAATTAAGTA
29466092 AAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAAATAAAAGTGTTTAA
326 AAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAAATAAAAGTGTTTAA
* * * *
29466157 TGATATAAAAATTTTAATTTTTAAATAAAGAATAATAAAGATAACAGTAATCATAGTTAAAAGTT
391 CGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATCATAGTTAAAAGTT
* ** * * *
29466222 ACTATTAAAAAGGCTTGACGTGAAGTTATAAGAATTGACAT-AAAATC
456 ACTATTAAAAAGGCTTGACGTAAAACTATAACAATTAACGTAAAAATC
** * *
29466269 TTATAAAAATGGAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGC
1 -TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGT
*
29466334 TAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATAATTAAATTTATATTCTCAAACTAAA
65 TAATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAA
* *
29466399 AGTGTTTAACGATATATAAATTTTAATTTTTAAATAAATAATAATAAGGATAAAAATAATTATAG
130 AGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAG
* * * *
29466464 TTCAAAATTGACATAA-ATAAGTCTTGACATAAAACTGTAACAATTGACGTAACAACCCATAAAT
195 TTCAAAATTAACA-AAGATAAGCCTTGACATAAAACTGTAACAATTGACATAAAAACCCATAAAT
* **
29466528 GTGGAATAACTAAATTTTAAATCTAAACGTAAATGTGT-AAGAGTTAATGTAACAAGTCAATTAA
259 GTGGAATAACTAAATTTTAAATCTAAACGTAAATGTGTGAA-AGCTAACATAACAAGTCAATTAA
* *
29466592 GTAAAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATATTCTC-AAGTTAAAAGTG
323 GT-AAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAA-ATAAAAGTG
* *
29466656 TTTAACGATATATAAATTTTAATTTTTAAATAAAAAATAATAATA-ATAAAAATAATTATAGTTC
386 TTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAA-AGATAAAAATAATCATAGTT-
*
29466720 AAAA-TTAAC-A-TAAATAAGTCTTGACGTAAAACTATAACAATTAACGTAAAAATC
449 AAAAGTT-ACTATTAAA-AAGGCTTGACGTAAAACTATAACAATTAACGTAAAAATC
* * * *
29466774 TATAAAGGTGGAATAAGTAAATTTTAAATCTTAACGTAAATGTGTTAGAATTAACGTGATAAGTT
1 TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGTT
* * ** * * *
29466839 AATTAAGTAAAAAAATCTAATTTTAATGAAAAACAAACGTTTATATTTATATTATCATACTAAAA
66 AATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAAA
* * * * **
29466904 GTATGTAACGATAT-TCAAATTTTTA-TTTTAAACAAAGAATAATAAAGATAACGATAATTATAG
131 GTGTTTAACGATATAT-AAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAG
29466967 TT
195 TT
29466969 GAAAGTTACT
Statistics
Matches: 1441, Mismatches: 189, Indels: 97
0.83 0.11 0.06
Matches are distributed among these distances:
478 3 0.00
479 212 0.15
480 160 0.11
481 31 0.02
482 1 0.00
483 5 0.00
484 2 0.00
485 5 0.00
487 2 0.00
488 5 0.00
489 1 0.00
494 6 0.00
497 5 0.00
498 90 0.06
499 71 0.05
500 5 0.00
501 38 0.03
502 245 0.17
503 265 0.18
504 276 0.19
505 13 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (503 bp):
TATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAGAATTAACGTAACAAGTT
AATTAAGTAAAAAAATATAATTTTAGTGAAAAACAAATATTTAAATTTATATTCTCAAACTAAAA
GTGTTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGT
TCAAAATTAACAAAGATAAGCCTTGACATAAAACTGTAACAATTGACATAAAAACCCATAAATGT
GGAATAACTAAATTTTAAATCTAAACGTAAATGTGTGAAAGCTAACATAACAAGTCAATTAAGTA
AAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATTTATATTCTCGAAATAAAAGTGTTTAA
CGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATCATAGTTAAAAGTT
ACTATTAAAAAGGCTTGACGTAAAACTATAACAATTAACGTAAAAATC
Found at i:29467038 original size:20 final size:20
Alignment explanation
Indices: 29466985--29467039 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
29466975 TACTATTGAA
* *
29466985 AAGACTTGATGTAAAGTTGT
1 AAGAATTGACGTAAAGTTGT
* * *
29467005 ACGAATTAAGGTAAAGTTGT
1 AAGAATTGACGTAAAGTTGT
29467025 AAGAATTGACGTAAA
1 AAGAATTGACGTAAA
29467040 ATCTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (20 bp):
AAGAATTGACGTAAAGTTGT
Found at i:29467711 original size:22 final size:22
Alignment explanation
Indices: 29467693--29467818 Score: 110
Period size: 22 Copynumber: 5.8 Consensus size: 22
29467683 CGATTTTTGG
*
29467693 GTATTGTGTGACTAGTTTTTAA
1 GTATTGCGTGACTAGTTTTTAA
* * * * *
29467715 GCATTACGTTACTAATTTTTAG
1 GTATTGCGTGACTAGTTTTTAA
* ** **
29467737 GTATTGTGTGACT-GACTTTGG
1 GTATTGCGTGACTAGTTTTTAA
**
29467758 GTATTGTATGACTAGTTTTTAA
1 GTATTGCGTGACTAGTTTTTAA
*
29467780 GTATTGCGTGACTAATTTTTAA
1 GTATTGCGTGACTAGTTTTTAA
*
29467802 GTATTACGTGACTAGTT
1 GTATTGCGTGACTAGTT
29467819 AATATGGCAT
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
21 16 0.20
22 63 0.80
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (22 bp):
GTATTGCGTGACTAGTTTTTAA
Found at i:29467813 original size:65 final size:65
Alignment explanation
Indices: 29467688--29467814 Score: 191
Period size: 65 Copynumber: 2.0 Consensus size: 65
29467678 GTAATCGATT
* * * **
29467688 TTTGGGTATTGTGTGACTAGTTTTTAAGCATTACGTTACTAATTTTTAGGTATTGTGTGACTGAC
1 TTTGGGTATTGTATGACTAGTTTTTAAGCATTACGTGACTAATTTTTAAGTATTACGTGACTGAC
* *
29467753 TTTGGGTATTGTATGACTAGTTTTTAAGTATTGCGTGACTAATTTTTAAGTATTACGTGACT
1 TTTGGGTATTGTATGACTAGTTTTTAAGCATTACGTGACTAATTTTTAAGTATTACGTGACT
29467815 AGTTAATATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (65 bp):
TTTGGGTATTGTATGACTAGTTTTTAAGCATTACGTGACTAATTTTTAAGTATTACGTGACTGAC
Found at i:29467858 original size:22 final size:23
Alignment explanation
Indices: 29467808--29467864 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
29467798 TTAAGTATTA
*
29467808 CGTGACTAGTTAATATGGCATTG
1 CGTGACTAGTTAATATGACATTG
* *
29467831 CATGACTAGTTGATA-GACATTG
1 CGTGACTAGTTAATATGACATTG
*
29467853 CGTGACTTGTTA
1 CGTGACTAGTTA
29467865 GTAAAGCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (23 bp):
CGTGACTAGTTAATATGACATTG
Found at i:29467875 original size:23 final size:23
Alignment explanation
Indices: 29467848--29467906 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
29467838 AGTTGATAGA
29467848 CATTGCGTGACTTGTTAGTAAAG
1 CATTGCGTGACTTGTTAGTAAAG
* * *
29467871 CATTGCGTGAATGGTTAGTAAGG
1 CATTGCGTGACTTGTTAGTAAAG
*
29467894 CATTGTGTGACTT
1 CATTGCGTGACTT
29467907 AGGCAATGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (23 bp):
CATTGCGTGACTTGTTAGTAAAG
Found at i:29467942 original size:22 final size:21
Alignment explanation
Indices: 29467909--29467987 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
29467899 TGTGACTTAG
29467909 GCAATGCTTAAAAATCAATCAC
1 GCAATGC-TAAAAATCAATCAC
29467931 GCAATGTCTAAAAATCAATCAC
1 GCAATG-CTAAAAATCAATCAC
* * *
29467953 ACAATGCCTAAAACT-AGTCAC
1 GCAATG-CTAAAAATCAATCAC
*
29467974 GTAATGCTTAAAAA
1 GCAATGC-TAAAAA
29467988 CTAGTCACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 14 0.29
22 32 0.67
23 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.23
Consensus pattern (21 bp):
GCAATGCTAAAAATCAATCAC
Found at i:29467990 original size:22 final size:22
Alignment explanation
Indices: 29467933--29468015 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
29467923 TCAATCACGC
* *
29467933 AATGTCTAAAAA-TCAATCACAC
1 AATGTCTAAAAACT-AGTCACAT
* *
29467955 AATGCCT-AAAACTAGTCACGT
1 AATGTCTAAAAACTAGTCACAT
29467976 AATG-CTTAAAAACTAGTCACAT
1 AATGTC-TAAAAACTAGTCACAT
29467998 AATGTCTAAAAACTAGTC
1 AATGTCTAAAAACTAGTC
29468016 TTGCAATACT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.02
21 14 0.27
22 36 0.69
23 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (22 bp):
AATGTCTAAAAACTAGTCACAT
Found at i:29468053 original size:44 final size:44
Alignment explanation
Indices: 29467939--29468054 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 44
29467929 ACGCAATGTC
* * *
29467939 TAAAAATCAATCACACAATGCCT-AAAACTAGTCACGTAATGCT
1 TAAAAACCAATCACACAATGCCTAAAAACTAGTCACGCAATACT
* * * * **
29467982 TAAAAACTAGTCACATAATGTCTAAAAACTAGTCTTGCAATACT
1 TAAAAACCAATCACACAATGCCTAAAAACTAGTCACGCAATACT
* *
29468026 TAAAAACCAATGACACAATACCTAAAAAC
1 TAAAAACCAATCACACAATGCCTAAAAAC
29468055 CAGTAATGTA
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
43 18 0.32
44 39 0.68
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (44 bp):
TAAAAACCAATCACACAATGCCTAAAAACTAGTCACGCAATACT
Found at i:29470551 original size:16 final size:16
Alignment explanation
Indices: 29470530--29470563 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29470520 GACTAAAAAC
29470530 AATATTAAAAGTTAAA
1 AATATTAAAAGTTAAA
* *
29470546 AATATTTAAATTTAAA
1 AATATTAAAAGTTAAA
29470562 AA
1 AA
29470564 ATCCAGAAAC
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:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATATTAAAAGTTAAA
Found at i:29473450 original size:3 final size:3
Alignment explanation
Indices: 29473436--29473476 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
29473426 GAGTGAGAGT
* *
29473436 TTC TTT TTC TTC TTC TTC TTCC TTC TTC TTC TTG TTC TTC T
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC T
29473477 GGTGAACGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:29473462 original size:13 final size:13
Alignment explanation
Indices: 29473444--29473468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29473434 GTTTCTTTTT
29473444 CTTCTTCTTCTTC
1 CTTCTTCTTCTTC
29473457 CTTCTTCTTCTT
1 CTTCTTCTTCTT
29473469 GTTCTTCTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
CTTCTTCTTCTTC
Found at i:29477880 original size:15 final size:15
Alignment explanation
Indices: 29477860--29477910 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
29477850 ATAATATAAA
* *
29477860 GTGATTACAGGTAAT
1 GTGATTACAAGCAAT
*
29477875 GTGATTGCAAGCAAT
1 GTGATTACAAGCAAT
29477890 GTGATTACAAGCAAT
1 GTGATTACAAGCAAT
29477905 GTGATT
1 GTGATT
29477911 GCAAAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (15 bp):
GTGATTACAAGCAAT
Found at i:29478169 original size:34 final size:34
Alignment explanation
Indices: 29478135--29478216 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
29478125 TGTCATATAT
*
29478135 TTTTATTTTTATTT-TTTATTATAATTTTAAATA
1 TTTTATTTTTATTTCTTTAATATAATTTTAAATA
**
29478168 TTTTATTTTTATTTCTTTAATATAATTTTTTATA
1 TTTTATTTTTATTTCTTTAATATAATTTTAAATA
*
29478202 TTATATATTTTATTT
1 TTTTAT-TTTTATTT
29478217 TAATTTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 14 0.33
34 21 0.49
35 8 0.19
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (34 bp):
TTTTATTTTTATTTCTTTAATATAATTTTAAATA
Found at i:29478186 original size:14 final size:13
Alignment explanation
Indices: 29478158--29478227 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 13
29478148 TTTTATTATA
*
29478158 ATTTTAAATATTTT
1 ATTTT-AATTTTTT
*
29478172 ATTTTTATTTCTTT
1 ATTTTAATTT-TTT
* *
29478186 AATATAATTTTTT
1 ATTTTAATTTTTT
* *
29478199 ATATTATATATTTT
1 ATTTTA-ATTTTTT
29478213 ATTTTAATTTCTTT
1 ATTTTAATTT-TTT
29478227 A
1 A
29478228 CCTATATTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
13 12 0.29
14 30 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:29478213 original size:27 final size:26
Alignment explanation
Indices: 29478146--29478227 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 26
29478136 TTTATTTTTA
29478146 TTTTTTATTATA-ATTTTAA-AT-AT
1 TTTTTTATTATATATTTTAATATAAT
29478169 TTTATTT-TTAT-T-TCTTTAATATAAT
1 TTT-TTTATTATATAT-TTTAATATAAT
* *
29478194 TTTTTATATTATATATTTTATTTTAAT
1 TTTTT-TATTATATATTTTAATATAAT
*
29478221 TTCTTTA
1 TTTTTTA
29478228 CCTATATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
22 1 0.02
23 12 0.26
24 7 0.15
25 6 0.13
26 6 0.13
27 14 0.30
28 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTTATTATATATTTTAATATAAT
Found at i:29478303 original size:33 final size:32
Alignment explanation
Indices: 29478250--29478312 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 32
29478240 AAATTTTAAT
29478250 TTCTTATATTTTATTTTATTTTAAT-TTTTGA
1 TTCTTATATTTTATTTTATTTTAATATTTTGA
29478281 TTCTTATATTATATATTTTATTTTAATATTTT
1 TTCTTATATT-T-TATTTTATTTTAATATTTT
29478313 TTATTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 10 0.34
32 1 0.03
33 14 0.48
34 4 0.14
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (32 bp):
TTCTTATATTTTATTTTATTTTAATATTTTGA
Found at i:29478314 original size:15 final size:15
Alignment explanation
Indices: 29478291--29478322 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29478281 TTCTTATATT
29478291 ATATATTTTATTTTA
1 ATATATTTTATTTTA
*
29478306 ATATTTTTTATTTTA
1 ATATATTTTATTTTA
29478321 AT
1 AT
29478323 TATAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATATTTTATTTTA
Found at i:29478320 original size:53 final size:53
Alignment explanation
Indices: 29478198--29478320 Score: 133
Period size: 53 Copynumber: 2.3 Consensus size: 53
29478188 TATAATTTTT
**
29478198 TATATTATATATTTTATTTTAATTTCTTTACCTATATTATATAAATTTTAATTTCT
1 TATATT-T-TATTTTATTTTAATTTCTTTACCTATATTATAT-AATTTTAATTTAA
* * *
29478254 TATATTTTATTTTATTTTAATTT-TTGATTCTTATATTATAT-ATTTTATTTTAA
1 TATATTTTATTTTATTTTAATTTCTT--TACCTATATTATATAATTTTAATTTAA
*
29478307 TATTTTTTATTTTA
1 TATATTTTATTTTA
29478321 ATTATAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
53 24 0.41
54 16 0.27
55 13 0.22
56 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (53 bp):
TATATTTTATTTTATTTTAATTTCTTTACCTATATTATATAATTTTAATTTAA
Found at i:29478325 original size:33 final size:34
Alignment explanation
Indices: 29478250--29478331 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
29478240 AAATTTTAAT
29478250 TTCTTATATT-T--TATTTTATTTTAATTTTTGA
1 TTCTTATATTATAATATTTTATTTTAATTTTTGA
*
29478281 TTCTTATATTAT-ATATTTTATTTTAATATTTTTTA
1 TTCTTATATTATAATATTTTATTTT-A-ATTTTTGA
29478316 TT-TTA-ATTATAATATT
1 TTCTTATATTATAATATT
29478332 ATAAAATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 10 0.22
32 1 0.02
33 16 0.36
34 9 0.20
35 9 0.20
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (34 bp):
TTCTTATATTATAATATTTTATTTTAATTTTTGA
Found at i:29480277 original size:159 final size:159
Alignment explanation
Indices: 29480078--29480396 Score: 593
Period size: 159 Copynumber: 2.0 Consensus size: 159
29480068 AACATACATG
29480078 TACATGTATATTAACTACTAGTTTGATGTATTATAATTTTTTTTAAAATATAAATTTTGTAAAGC
1 TACATGTATATTAACTACTAGTTTGATGTATTATAATTTTTTTTAAAATATAAATTTTGTAAAGC
*
29480143 AGTTTCCCTGTGTTTCTATATATATTTATCTTAATGCACGAGCTTGATGTATTATGTCAATAAAA
66 AGTTTCCCTGTGTTTCTACATATATTTATCTTAATGCACGAGCTTGATGTATTATGTCAATAAAA
29480208 GTCATTAGCAAAGTGTTAAAGACTTTGGA
131 GTCATTAGCAAAGTGTTAAAGACTTTGGA
* *
29480237 TACATGTATGTTAACTACTAGTTTGATGTATTATAATTTTTTTTTAAATATAAATTTTGTAAAGC
1 TACATGTATATTAACTACTAGTTTGATGTATTATAATTTTTTTTAAAATATAAATTTTGTAAAGC
* *
29480302 AGTTTCCCTGTGTTTCTACATTTATTTATCTTAATGCACGAGCTTGATGTATTATGTCAATAAAC
66 AGTTTCCCTGTGTTTCTACATATATTTATCTTAATGCACGAGCTTGATGTATTATGTCAATAAAA
29480367 GTCATTAGCAAAGTGTTAAAGACTTTGGA
131 GTCATTAGCAAAGTGTTAAAGACTTTGGA
29480396 T
1 T
29480397 GGCATGATGG
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (159 bp):
TACATGTATATTAACTACTAGTTTGATGTATTATAATTTTTTTTAAAATATAAATTTTGTAAAGC
AGTTTCCCTGTGTTTCTACATATATTTATCTTAATGCACGAGCTTGATGTATTATGTCAATAAAA
GTCATTAGCAAAGTGTTAAAGACTTTGGA
Found at i:29484172 original size:11 final size:12
Alignment explanation
Indices: 29484145--29484182 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29484135 ATGTGTTAGC
29484145 ACATGGTGTGTA
1 ACATGGTGTGTA
*
29484157 ACATGTTGTG-A
1 ACATGGTGTGTA
*
29484168 ACATGGCGTGTA
1 ACATGGTGTGTA
29484180 ACA
1 ACA
29484183 ATTTTGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (12 bp):
ACATGGTGTGTA
Found at i:29484178 original size:23 final size:21
Alignment explanation
Indices: 29484145--29484269 Score: 117
Period size: 23 Copynumber: 5.7 Consensus size: 21
29484135 ATGTGTTAGC
*
29484145 ACATGGTGTGTAACATGTTGTGA
1 ACATGGCGTGTAACAT-TT-TGA
29484168 ACATGGCGTGTAACAATTTTGA
1 ACATGGCGTGTAAC-ATTTTGA
* *
29484190 AC-TTGTGTGTAACATTTTTGA
1 ACATGGCGTGTAACA-TTTTGA
* *
29484211 AAATGACGTGTAACATTTTGA
1 ACATGGCGTGTAACATTTTGA
**
29484232 ACATGGTATGTAACATTTTTTGA
1 ACATGGCGTGTAACA--TTTTGA
*
29484255 ACATGGCATGTAACA
1 ACATGGCGTGTAACA
29484270 AATACTTGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
20 1 0.01
21 33 0.39
22 14 0.16
23 35 0.41
24 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (21 bp):
ACATGGCGTGTAACATTTTGA
Found at i:29484201 original size:21 final size:21
Alignment explanation
Indices: 29484175--29484256 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
29484165 TGAACATGGC
29484175 GTGTAACAATTTTGAACTTGT
1 GTGTAACAATTTTGAACTTGT
* ** *
29484196 GTGTAACATTTTTGAAAATGAC
1 GTGTAACAATTTTGAACTTG-T
*
29484218 GTGTAAC-ATTTTGAACATGGT
1 GTGTAACAATTTTGAAC-TTGT
* *
29484239 ATGTAACATTTTTTGAAC
1 GTGTAACA-ATTTTGAAC
29484257 ATGGCATGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 30 0.65
22 8 0.17
23 8 0.17
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (21 bp):
GTGTAACAATTTTGAACTTGT
Found at i:29492834 original size:22 final size:23
Alignment explanation
Indices: 29492789--29492834 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
29492779 GCTGAGCCTA
29492789 TTTGCCGAGCATAGAGTTCTTGT
1 TTTGCCGAGCATAGAGTTCTTGT
**
29492812 TTTGCCGAGGGTAGAG-TCTTGT
1 TTTGCCGAGCATAGAGTTCTTGT
29492834 T
1 T
29492835 GTCGAGCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.39
Consensus pattern (23 bp):
TTTGCCGAGCATAGAGTTCTTGT
Found at i:29498841 original size:27 final size:28
Alignment explanation
Indices: 29498811--29498888 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
29498801 GCTAGGTCAT
*
29498811 ACACCAAGCCTT-TCAGGCTATATCAAA
1 ACACCAAGCCTTATCAGGATATATCAAA
** *
29498838 ACACCAAGTTTTATCATGATATATCAAA
1 ACACCAAGCCTTATCAGGATATATCAAA
** *
29498866 ACACCAAGTTTTATCATGATATA
1 ACACCAAGCCTTATCAGGATATA
29498889 ATAGAATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 10 0.22
28 36 0.78
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (28 bp):
ACACCAAGCCTTATCAGGATATATCAAA
Found at i:29498864 original size:28 final size:28
Alignment explanation
Indices: 29498829--29498888 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
29498819 CCTTTCAGGC
29498829 TATATCAAAACACCAAGTTTTATCATGA
1 TATATCAAAACACCAAGTTTTATCATGA
29498857 TATATCAAAACACCAAGTTTTATCATGA
1 TATATCAAAACACCAAGTTTTATCATGA
29498885 TATA
1 TATA
29498889 ATAGAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (28 bp):
TATATCAAAACACCAAGTTTTATCATGA
Found at i:29504895 original size:42 final size:43
Alignment explanation
Indices: 29504848--29504930 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
29504838 TTGTGTGATA
*
29504848 ATGATGACCCAACTATGTGC-ATGT-GGGAGTGCACATGAGTTG
1 ATGATGACCCAACTATGTACGA-GTAGGGAGTGCACATGAGTTG
*
29504890 ATGATGACCCAGCTATGTACGAGTAGGGAGTGCACATGAGT
1 ATGATGACCCAACTATGTACGAGTAGGGAGTGCACATGAGT
29504931 GGAGTGTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 20 0.54
43 17 0.46
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAACTATGTACGAGTAGGGAGTGCACATGAGTTG
Found at i:29507592 original size:30 final size:30
Alignment explanation
Indices: 29507558--29507625 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
29507548 CTTGATTGAG
*
29507558 GATGAAGAAGATGACATGCAAAGAGATGAA
1 GATGAAGAAAATGACATGCAAAGAGATGAA
* *
29507588 GATGAAGAAAATGACATGGAAGGAGATGAA
1 GATGAAGAAAATGACATGCAAAGAGATGAA
*
29507618 AATGAAGA
1 GATGAAGA
29507626 TGACCATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.51, C:0.04, G:0.31, T:0.13
Consensus pattern (30 bp):
GATGAAGAAAATGACATGCAAAGAGATGAA
Found at i:29507639 original size:15 final size:14
Alignment explanation
Indices: 29507559--29507640 Score: 55
Period size: 15 Copynumber: 5.7 Consensus size: 14
29507549 TTGATTGAGG
29507559 ATGAAGAAGATGAC
1 ATGAAGAAGATGAC
*
29507573 ATGCAA-AGAGATGAAG
1 ATG-AAGA-AGATG-AC
*
29507589 ATGAAGAAAATGAC
1 ATGAAGAAGATGAC
*
29507603 ATGGAAGGAGATGA-
1 AT-GAAGAAGATGAC
29507617 A--AATGAAGATGACC
1 ATGAA-GAAGATGA-C
29507631 ATGAAGAAGA
1 ATGAAGAAGA
29507641 AGATGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 19
0.68 0.08 0.25
Matches are distributed among these distances:
11 2 0.04
12 7 0.13
14 9 0.17
15 27 0.52
16 7 0.13
ACGTcount: A:0.51, C:0.06, G:0.29, T:0.13
Consensus pattern (14 bp):
ATGAAGAAGATGAC
Found at i:29507653 original size:18 final size:18
Alignment explanation
Indices: 29507621--29507655 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29507611 AGATGAAAAT
*
29507621 GAAGATGACCATGAAGAA
1 GAAGATGAACATGAAGAA
*
29507639 GAAGATGAACTTGAAGA
1 GAAGATGAACATGAAGA
29507656 CGACACTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.29, T:0.14
Consensus pattern (18 bp):
GAAGATGAACATGAAGAA
Found at i:29517211 original size:15 final size:17
Alignment explanation
Indices: 29517187--29517219 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29517177 AATAATTTTT
29517187 TTTTAGATAAATA-ATG
1 TTTTAGATAAATAGATG
29517203 TTTTA-ATAAATAGATG
1 TTTTAGATAAATAGATG
29517219 T
1 T
29517220 AGAAGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTTAGATAAATAGATG
Found at i:29517988 original size:21 final size:22
Alignment explanation
Indices: 29517954--29517997 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
29517944 TTTCTCAACT
*
29517954 CCTTAATTTTGTGCAACGTTCA
1 CCTTAATTTGGTGCAACGTTCA
*
29517976 CCTT-ATTTGGTGCAACTTTCA
1 CCTTAATTTGGTGCAACGTTCA
29517997 C
1 C
29517998 ATCATACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (22 bp):
CCTTAATTTGGTGCAACGTTCA
Found at i:29527851 original size:117 final size:116
Alignment explanation
Indices: 29527414--29527871 Score: 477
Period size: 117 Copynumber: 3.9 Consensus size: 116
29527404 TGATCCCTCT
* * * ** * * * *
29527414 GCACCTTGGTTGGTCTGCCACGTTTATGCTTTGACTCCTTACTCCCCTCACCATC-AGACTGATC
1 GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCACTTCACCATCTA-AGTGATC
* * * * ** ** * *
29527478 ACTCTCTCCTGCTCCCACCTTAACCACCGTCTTCTCAAACCCACCATTCACCT
65 ATTCTCTCCTGCTTCCATCTCAACTGCTTTCTTCTCAAACCCACCTTTC-CCA
* * * ** * * * * *
29527531 GCACCTTTGGCGGTCTCCCACGCTTACGCTTTGACTGCTTACTCACATCACCACCAAAGTGATCA
1 GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCACTTCACCATCTAAGTGATCA
* * *
29527596 TTCTCTCCTGCTTCCATCTTAACTGCTTTCTTGTCAAACCCACCATTCCCCA
66 TTCTCTCCTGCTTCCATCTCAACTGCTTTCTTCTCAAACCCACC-TTTCCCA
*
29527648 GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAGCTCCTTCCTCACTTCACCATCTAAGTGATCA
1 GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCACTTCACCATCTAAGTGATCA
* * *
29527713 TTCTCTCGTGCTTCCATCTCAACAGTTTTCTTCTCAAACCCACCTTTCCCA
66 TTCTCTCCTGCTTCCATCTCAACTGCTTTCTTCTCAAACCCACCTTTCCCA
*
29527764 GGCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCATTTCACCATCTAAGTGATC
1 -GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCACTTCACCATCTAAGTGATC
* ** * * * *
29527829 ACTCTCTCCCACTTGCAGCTCAACTGCCTTATTCTCAAACCCA
65 ATTCTCTCCTGCTTCCATCTCAACTGCTTTCTTCTCAAACCCA
29527872 TTATCTCTGT
Statistics
Matches: 287, Mismatches: 51, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
116 6 0.02
117 278 0.97
118 3 0.01
ACGTcount: A:0.19, C:0.38, G:0.12, T:0.31
Consensus pattern (116 bp):
GCACCTTGGGTGGTCTCCCACGCTTATGCTTAAACTCCTTCCTCACTTCACCATCTAAGTGATCA
TTCTCTCCTGCTTCCATCTCAACTGCTTTCTTCTCAAACCCACCTTTCCCA
Found at i:29533015 original size:25 final size:26
Alignment explanation
Indices: 29532981--29533042 Score: 117
Period size: 25 Copynumber: 2.4 Consensus size: 26
29532971 ACATGTTAAC
29532981 ATATCATAATTAATGAAGATG-CGGT
1 ATATCATAATTAATGAAGATGACGGT
29533006 ATATCATAATTAATGAAGATGACGGT
1 ATATCATAATTAATGAAGATGACGGT
29533032 ATATCATAATT
1 ATATCATAATT
29533043 GATCATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (26 bp):
ATATCATAATTAATGAAGATGACGGT
Found at i:29537456 original size:24 final size:25
Alignment explanation
Indices: 29537429--29537490 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
29537419 TTTATTATGT
* *
29537429 TTAATTAAATATTTATATTTTA-AA
1 TTAATTAAATATTTATAATTAATAA
* *
29537453 TTAAATAAATTTTTATAATTAATAA
1 TTAATTAAATATTTATAATTAATAA
*
29537478 TTAATTAATTATT
1 TTAATTAAATATT
29537491 ATTAATCAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTAATTAAATATTTATAATTAATAA
Found at i:29537492 original size:24 final size:23
Alignment explanation
Indices: 29537429--29537502 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
29537419 TTTATTATGT
* * *
29537429 TTAATTAAATATTTATATTTTAAA
1 TTAATTAATTA-TTATAATTAAAA
* *
29537453 TTAAATAAATTTTTATAATTAATAA
1 TT-AATTAATTATTATAATTAA-AA
*
29537478 TTAATTAATTATTATTAATCAAAA
1 TTAATTAATTATTA-TAATTAAAA
29537502 T
1 T
29537503 ATTACTTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTAATTATTATAATTAAAA
Found at i:29537627 original size:33 final size:33
Alignment explanation
Indices: 29537590--29537665 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
29537580 ATTATATCAA
* *
29537590 ATTAACATGTTAAGTCATCATCAATTATAATAT
1 ATTAACATATTAAATCATCATCAATTATAATAT
* * * * *
29537623 ATTAATATATTAAATTATTATTAATTATGATAT
1 ATTAACATATTAAATCATCATCAATTATAATAT
*
29537656 ATTAATATAT
1 ATTAACATAT
29537666 CATATCAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (33 bp):
ATTAACATATTAAATCATCATCAATTATAATAT
Found at i:29537630 original size:8 final size:8
Alignment explanation
Indices: 29537617--29537718 Score: 52
Period size: 8 Copynumber: 12.5 Consensus size: 8
29537607 TCATCAATTA
29537617 TAATATAT
1 TAATATAT
29537625 TAATATAT
1 TAATATAT
29537633 TAAATTATTAT
1 T-AA-TA-TAT
29537644 TAAT-TA-
1 TAATATAT
*
29537650 TGATATAT
1 TAATATAT
29537658 TAATATAT
1 TAATATAT
*
29537666 CATATCAGTAT
1 TA-AT-A-TAT
*
29537677 T-ATATAA
1 TAATATAT
*
29537684 TAATA-AA
1 TAATATAT
*
29537691 TAATATTT
1 TAATATAT
*
29537699 TAATTAAAT
1 TAA-TATAT
29537708 TAATA-AT
1 TAATATAT
29537715 TAAT
1 TAAT
29537719 TATAAAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
6 3 0.04
7 20 0.27
8 26 0.35
9 13 0.18
10 5 0.07
11 7 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
TAATATAT
Found at i:29537678 original size:33 final size:33
Alignment explanation
Indices: 29537612--29537696 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 33
29537602 AGTCATCATC
* * *
29537612 AATTATAATATATTAATATATTAAATTATTATT
1 AATTATAATATATTAATATATCAAATCAGTATT
* *
29537645 AATTATGATATATTAATATATCATATCAGTATT
1 AATTATAATATATTAATATATCAAATCAGTATT
* *
29537678 ATATAATAATA-AATAATAT
1 A-ATTATAATATATTAATAT
29537697 TTTAATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 36 0.84
34 7 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (33 bp):
AATTATAATATATTAATATATCAAATCAGTATT
Found at i:29545428 original size:39 final size:39
Alignment explanation
Indices: 29545365--29545456 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
29545355 CGAGATTGAA
* ** *
29545365 TCTCACTGCAGCGAAATTGTAACCCAGAAACAGAATGTT
1 TCTCGCTGCAGCGAAATTACAACCCAGAAACAGAAAGTT
29545404 TCTCGCTGCAGCGAAATTACAACCCAGAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTACAACCCAGAAACAGAAAGTT
29545443 TCTCGCTGCAGCGA
1 TCTCGCTGCAGCGA
29545457 GAATGTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTACAACCCAGAAACAGAAAGTT
Done.