Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 152 of 310
Found at i:49913300 original size:120 final size:118
Alignment explanation
Indices: 49913082--49913326 Score: 341
Period size: 120 Copynumber: 2.1 Consensus size: 118
49913072 GGACTAAGAT
*
49913082 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
* ** *
49913147 ATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
49913201 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA
* * * *
49913266 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
49913320 CCGAAGG
1 CCGAAGG
49913327 TACGTGATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
119 51 0.46
120 59 0.53
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
ATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:49913307 original size:40 final size:40
Alignment explanation
Indices: 49913029--49913293 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
49913019 TTGAATGATG
* * * * *
49913029 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
49913069 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49913109 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49913148 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
49913188 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
49913228 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
49913269 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
49913294 AACGAGTAGC
Statistics
Matches: 206, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 35 0.17
40 161 0.78
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49918467 original size:27 final size:26
Alignment explanation
Indices: 49918397--49918486 Score: 117
Period size: 28 Copynumber: 3.3 Consensus size: 26
49918387 GGCGGAAGCC
*
49918397 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGGCTATGCCA-AAATATCT-G
49918425 TTCTGGTGGCTATGCCATAAATATCTG
1 TTCTGGTGGCTATGCCA-AAATATCTG
* *
49918452 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTATGCCAAAATATCTG
49918478 TATCTGGTG
1 T-TCTGGTG
49918487 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 9 0.16
27 23 0.40
28 25 0.44
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCAAAATATCTG
Found at i:49918491 original size:27 final size:26
Alignment explanation
Indices: 49918397--49918503 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 26
49918387 GGCGGAAGCC
*
49918397 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGGCTATGCCAC-AATATCT-G
*
49918425 TTCTGGTGGCTATGCCATAAATATCTG
1 TTCTGGTGGCTATGCCA-CAATATCTG
*
49918452 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * *
49918478 TATCTGGTGACTCTGTCACAATATCT
1 T-TCTGGTGGCTATGCCACAATATCT
49918504 ATTATGGTAG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 9 0.13
27 38 0.54
28 24 0.34
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:49930406 original size:14 final size:16
Alignment explanation
Indices: 49930382--49930414 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
49930372 ATTTTCAGTG
49930382 TTTATTATGTGT-GAA
1 TTTATTATGTGTGGAA
49930397 TTTA-TATGTGTGGAA
1 TTTATTATGTGTGGAA
49930412 TTT
1 TTT
49930415 TCGTGTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGGAA
Found at i:49931242 original size:15 final size:15
Alignment explanation
Indices: 49931222--49931252 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49931212 GTGAAAATAT
49931222 GTTTGAATAAGTTTA
1 GTTTGAATAAGTTTA
*
49931237 GTTTGAATATGTTTA
1 GTTTGAATAAGTTTA
49931252 G
1 G
49931253 ATCAAGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (15 bp):
GTTTGAATAAGTTTA
Found at i:49939436 original size:27 final size:28
Alignment explanation
Indices: 49939406--49939507 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 28
49939396 ACCCCGATTC
*
49939406 GTAAAATTACCGAAATACCCCCTA-TTT
1 GTAAAATTATCGAAATACCCCCTACTTT
* * *
49939433 GTAAAATTATCAAAATA-CCTCTACATT
1 GTAAAATTATCGAAATACCCCCTACTTT
* *
49939460 GTAAAATTATCGAAATACCCTC-AGTTT
1 GTAAAATTATCGAAATACCCCCTACTTT
*
49939487 GTAAAATTAGCGAAATACCCC
1 GTAAAATTATCGAAATACCCC
49939508 TGTAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.86
28 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (28 bp):
GTAAAATTATCGAAATACCCCCTACTTT
Found at i:49939517 original size:27 final size:27
Alignment explanation
Indices: 49939460--49939520 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
49939450 CCTCTACATT
* **
49939460 GTAAAATTATCGAAATACCCTCAGTTT
1 GTAAAATTAGCGAAATACCCTCAGTGG
*
49939487 GTAAAATTAGCGAAATACCC-CTGTAGG
1 GTAAAATTAGCGAAATACCCTCAGT-GG
49939514 GTAAAAT
1 GTAAAAT
49939521 GACTATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (27 bp):
GTAAAATTAGCGAAATACCCTCAGTGG
Found at i:49939518 original size:54 final size:54
Alignment explanation
Indices: 49939406--49939520 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
49939396 ACCCCGATTC
* * **
49939406 GTAAAATTACCGAAATACCCCCTATTTGTAAAATTATCAAAATACCTCTACATT
1 GTAAAATTACCGAAATACCCCCTATTTGTAAAATTAGCAAAATACCCCTACAGG
* * * **
49939460 GTAAAATTATCGAAATACCCTC-AGTTTGTAAAATTAGCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCCTA-TTTGTAAAATTAGCAAAATACCCCTACAGG
49939514 GTAAAAT
1 GTAAAAT
49939521 GACTATTTTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCCCTATTTGTAAAATTAGCAAAATACCCCTACAGG
Found at i:49939909 original size:22 final size:22
Alignment explanation
Indices: 49939881--49939939 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
49939871 TAATCTGATT
49939881 ATGGCTCTGTGCCAACCTAAAA
1 ATGGCTCTGTGCCAACCTAAAA
* * **
49939903 ATGGCTCTGTGCCATCCTGACT
1 ATGGCTCTGTGCCAACCTAAAA
*
49939925 ATGGCTTTGTGCCAA
1 ATGGCTCTGTGCCAA
49939940 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (22 bp):
ATGGCTCTGTGCCAACCTAAAA
Found at i:49942003 original size:159 final size:159
Alignment explanation
Indices: 49941711--49942032 Score: 491
Period size: 159 Copynumber: 2.0 Consensus size: 159
49941701 TGTGATTATG
*
49941711 TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACCGGCATGTGTTGCGGTTAC
1 TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACCGGCATGTGTTGCGATTAC
* * * *
49941776 TTGACAGCTTGTGTGAGCAACACCGTGTAGCTACATCTTGACCCACAGCTTGTGTGAGGAGGCCC
66 TTGACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
49941841 GTTGATAGCTCTAGTGTGAGCAGGATATA
131 GTTGATAGCTCTAGTGTGAGCAGGATATA
* * * * * *
49941870 TGATCTGGGTGCTGGTCCTGTACGTCTTACCAGTGGCTGAGTATACTGGCATGTGTTGTGATTAC
1 TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACCGGCATGTGTTGCGATTAC
* * * *
49941935 TTGATAACTTGTGTGAGCAGCACCATGTAGCTACGTCTTGACCCACAGCTTGTATGAGCAGGCTC
66 TTGACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
* *
49942000 GTTGATAGCTCTAGTGTGAGCAGTATATG
131 GTTGATAGCTCTAGTGTGAGCAGGATATA
49942029 TGAT
1 TGAT
49942033 ATGACATTCT
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
159 146 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (159 bp):
TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACCGGCATGTGTTGCGATTAC
TTGACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
GTTGATAGCTCTAGTGTGAGCAGGATATA
Found at i:49945119 original size:56 final size:56
Alignment explanation
Indices: 49945054--49945248 Score: 275
Period size: 56 Copynumber: 3.5 Consensus size: 56
49945044 TCCTAGACAG
* * * *
49945054 GGTCTTACTCACACACATATATCGGAGTCACATATCGATACCAATGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
* *
49945110 GTTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACT-T
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAA-TGT
* * * *
49945166 GGTCTTACTCGCATACATATATTGAAGTCACATATCAATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
*
49945222 GGTCTTCCTCGCACACATATATCGAAG
1 GGTCTTACTCGCACACATATATCGAAG
49945249 CCATGCTCTT
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
56 121 0.99
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
Found at i:49946412 original size:14 final size:15
Alignment explanation
Indices: 49946395--49946423 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49946385 TCACGAAAAT
49946395 TTCACACAT-ATAAA
1 TTCACACATAATAAA
49946409 TTCACACATAATAAA
1 TTCACACATAATAAA
49946424 AATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:49952634 original size:28 final size:26
Alignment explanation
Indices: 49952543--49952653 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
49952533 GGAAGCGTCT
* *
49952543 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
* *
49952570 TGGTGGCTTTGCCACATATTTCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
49952597 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* *
49952625 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
49952651 TGG
1 TGG
49952654 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:49952648 original size:54 final size:54
Alignment explanation
Indices: 49952543--49952653 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
49952533 GGAAGCGTCT
* * *
49952543 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATTTCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
* * *
49952597 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTC
49952651 TGG
1 TGG
49952654 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
Found at i:49955129 original size:465 final size:465
Alignment explanation
Indices: 49954254--49955183 Score: 1689
Period size: 465 Copynumber: 2.0 Consensus size: 465
49954244 CAGGTATCAC
49954254 CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGATCTA
1 CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGATCTA
49954319 TGGAGCAGAAACTGAAGGGAACCGTATCATTGCTACAGGACGAGGCTTACCAGTGGTGGCTCACT
66 TGGAGCAGAAACTGAAGGGAACCGTATCATTGCTACAGGACGAGGCTTACCAGTGGTGGCTCACT
* * *
49954384 ATGAGAGAAGGAACCCCAGCTGATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
131 ATAAGAGAAGGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGAAA
49954449 GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTCGTGCAAAGAGGTA
196 GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTCGTGCAAAGAGGTA
* * *
49954514 AGACAGTTGCTGAATATGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGCCGTGAGCATAGTTGCT
261 AGACAGTTGCTGAATACGAGGCCAAGTTTCTAAGGTTAAGCCGGTATGCCGTGAGCATAGTTGCT
49954579 ACAGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
326 ACAGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
* *
49954644 TCCGCAGAGGGAGTGAGACTTTACAGTCTTGGTGGAGAAGGCAAAGATAGCAGAGGAGGTTAAGC
391 TCCGCAGAGGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGCAAAGATAGCAGAGGAGGTTAAGA
49954709 GGGCTGAAAA
456 GGGCTGAAAA
* *
49954719 CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGCTCTG
1 CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGATCTA
* *
49954784 TGGAGCAGAAACTGAAGGGAGCCGTATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
66 TGGAGCAGAAACTGAAGGGAACCGTATCATTGCTACAGGACGAGGCTTACCAGTGGTGGCTCACT
*
49954849 ATAAGAGAAGGAACCCCAGCTAATAGGGTAACTTGGGAATTGTTTAAGATGGCCTTTAAAGGAAA
131 ATAAGAGAAGGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGAAA
* *
49954914 GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
196 GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTCGTGCAAAGAGGTA
*
49954979 AGACAGTTGCTGAGTACGAGGCCAAGTTTCTAAGGTTAAGCCGGTATGCCGTGAGCATAGTTGCT
261 AGACAGTTGCTGAATACGAGGCCAAGTTTCTAAGGTTAAGCCGGTATGCCGTGAGCATAGTTGCT
* *
49955044 ACGGAATATGAGCGATGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
326 ACAGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
*
49955109 TCCGCAGAGGGAGCGAGACTTTACGGTCTTGGTGGAGAAGGCAAAGATAGCAGAGGAGGTTAAGA
391 TCCGCAGAGGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGCAAAGATAGCAGAGGAGGTTAAGA
49955174 GGGCTGAAAA
456 GGGCTGAAAA
49955184 GCAGAATCGA
Statistics
Matches: 446, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
465 446 1.00
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (465 bp):
CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGATCTA
TGGAGCAGAAACTGAAGGGAACCGTATCATTGCTACAGGACGAGGCTTACCAGTGGTGGCTCACT
ATAAGAGAAGGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGAAA
GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTCGTGCAAAGAGGTA
AGACAGTTGCTGAATACGAGGCCAAGTTTCTAAGGTTAAGCCGGTATGCCGTGAGCATAGTTGCT
ACAGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
TCCGCAGAGGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGCAAAGATAGCAGAGGAGGTTAAGA
GGGCTGAAAA
Found at i:49960948 original size:28 final size:27
Alignment explanation
Indices: 49960855--49960967 Score: 126
Period size: 27 Copynumber: 4.2 Consensus size: 27
49960845 AGGAAGCGTC
* *
49960855 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTTTCTGTAT
49960882 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TTTCTGTAT
49960909 CTGGTGGCTCTGCCACGATTTTCTGTAT
1 CTGGTGGCTCTGCCAC-ATTTTCTGTAT
* *
49960937 CTGGTGACTCTGTCACATTATT-TGT-T
1 CTGGTGGCTCTGCCACATT-TTCTGTAT
49960963 CTGGT
1 CTGGT
49960968 AGCCATGCTG
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
26 8 0.10
27 50 0.65
28 19 0.25
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTTCTGTAT
Found at i:49960963 original size:54 final size:54
Alignment explanation
Indices: 49960855--49960967 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
49960845 AGGAAGCGTC
*
49960855 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTT
* * * *
49960909 CTGGTGGCTCTGCCACGATTTTCTGTATCTGGTGACTCTGTCACAT-TATT-TGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATAT-TTCTGTT
49960963 CTGGT
1 CTGGT
49960968 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 32 0.62
55 20 0.38
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTT
Found at i:49966117 original size:43 final size:42
Alignment explanation
Indices: 49966069--49966226 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 42
49966059 AGCATATACA
*
49966069 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAA-ATCG
** * * * *
49966112 ATGCCATTGTCCTAGACAG-GGTCTTACACGAAATCAGATAT-G
1 ATGCCAACGTCCCAGA-TGTGGTCTTACACGTAATCA-AAATCG
* * * * ** * *
49966154 ATGTCGATGTCCTAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGT-AATCA-AAATCG
*
49966198 GTGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGATGTGGTCTTACAC
49966227 AAAAACACAT
Statistics
Matches: 87, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.29
43 37 0.43
44 25 0.29
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAAATCG
Found at i:49966706 original size:50 final size:50
Alignment explanation
Indices: 49966659--49966759 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
49966649 AAAATACACA
* *
49966659 TAATTTGCACATACTCGTGCTTGGCCGAATATTCATCGCACTCATACAAG
1 TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
* *
49966709 TAATTTTCACATACTCATGCTTGGCCGAATATTTATAGCACTCATACAAG
1 TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
49966759 T
1 T
49966760 CCACACATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (50 bp):
TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
Found at i:49969659 original size:28 final size:28
Alignment explanation
Indices: 49969628--49969687 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
49969618 CTTTATGTGC
*
49969628 GAGATATCGAGTGTGGCACTTAGTGTAT
1 GAGATATCGAGTATGGCACTTAGTGTAT
* *
49969656 GAGATATCGAGTATTGCACTTAGTGTGT
1 GAGATATCGAGTATGGCACTTAGTGTAT
49969684 GAGA
1 GAGA
49969688 CATTAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.32
Consensus pattern (28 bp):
GAGATATCGAGTATGGCACTTAGTGTAT
Found at i:49969696 original size:28 final size:28
Alignment explanation
Indices: 49969643--49969698 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
49969633 ATCGAGTGTG
* *
49969643 GCACTTAGTGTATGAGATATCGAGTATT
1 GCACTTAGTGTATGAGACATCAAGTATT
* *
49969671 GCACTTAGTGTGTGAGACATTAAGTATT
1 GCACTTAGTGTATGAGACATCAAGTATT
49969699 CAACGGCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (28 bp):
GCACTTAGTGTATGAGACATCAAGTATT
Found at i:49970379 original size:21 final size:21
Alignment explanation
Indices: 49970353--49970394 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49970343 TAATAATGCA
49970353 TATTTTGTAAATGGCCATTTT
1 TATTTTGTAAATGGCCATTTT
*
49970374 TATTTTGTAAATGGTCATTTT
1 TATTTTGTAAATGGCCATTTT
49970395 GATATTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (21 bp):
TATTTTGTAAATGGCCATTTT
Found at i:49972611 original size:26 final size:28
Alignment explanation
Indices: 49972576--49972629 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
49972566 ATCATAGCAT
*
49972576 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
49972603 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
49972630 TTTTGGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:49981326 original size:27 final size:27
Alignment explanation
Indices: 49981052--49981312 Score: 459
Period size: 27 Copynumber: 9.6 Consensus size: 27
49981042 GTTTAAATTG
49981052 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981079 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981106 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981133 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981160 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981187 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
49981214 TGTAGCACTAAGTGTGCGAATTGACTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
* *
49981241 TGTAGCACTAAGTGTGCGAGTTTGATTA
1 TGTAGCACTAAGTGTGCGA-ATTGACTA
* *
49981269 TGTAGCACTAAGTGTGCGAGTTGATTA
1 TGTAGCACTAAGTGTGCGAATTGACTA
* *
49981296 TATAGCACTGAGTGTGC
1 TGTAGCACTAAGTGTGC
49981313 AGACTTAATA
Statistics
Matches: 228, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 203 0.89
28 25 0.11
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAATTGACTA
Found at i:49989077 original size:29 final size:28
Alignment explanation
Indices: 49989041--49989118 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
49989031 TCATGAGATT
49989041 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
49989071 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49989098 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
49989119 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49989336 original size:174 final size:174
Alignment explanation
Indices: 49989071--49989389 Score: 602
Period size: 174 Copynumber: 1.8 Consensus size: 174
49989061 AAATTGTACA
49989071 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
49989136 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49989201 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
49989245 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
49989310 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49989375 TTTTGGACAGCGGAA
131 TTTTGGACAGCGGAA
49989390 CATGGCACTA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 141 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49989483 original size:120 final size:120
Alignment explanation
Indices: 49989270--49989509 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
49989260 GTTTAAAGTG
*
49989270 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
49989335 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAA
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAA
49989390 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
49989455 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAA
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAA
49989510 AAGGTAAGTA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (120 bp):
CATGGCACTAAGTGTGCGCAGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAA
Found at i:49991905 original size:13 final size:13
Alignment explanation
Indices: 49991887--49991911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49991877 TCTTTTCCTT
49991887 TTTAATTCCTTTC
1 TTTAATTCCTTTC
49991900 TTTAATTCCTTT
1 TTTAATTCCTTT
49991912 TAATTTACTT
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:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTCCTTTC
Found at i:49994920 original size:31 final size:31
Alignment explanation
Indices: 49994882--49994946 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
49994872 GACACGCTCG
49994882 TGTGAGCAGGTCGTGTGGTCACACATGCCCA
1 TGTGAGCAGGTCGTGTGGTCACACATGCCCA
*
49994913 TGTGAGCAGGTCGTGTGGTCACACTTGCCCA
1 TGTGAGCAGGTCGTGTGGTCACACATGCCCA
49994944 TGT
1 TGT
49994947 CCCTAACCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (31 bp):
TGTGAGCAGGTCGTGTGGTCACACATGCCCA
Found at i:50008387 original size:27 final size:27
Alignment explanation
Indices: 50008370--50008849 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
50008360 ATATTAAGTC
50008370 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
50008397 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008425 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008452 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008479 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008507 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008535 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008563 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008591 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008618 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
50008645 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
50008673 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008700 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008727 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008754 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
50008781 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
50008808 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
50008835 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
50008850 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:50008500 original size:54 final size:54
Alignment explanation
Indices: 50008370--50008849 Score: 852
Period size: 54 Copynumber: 8.8 Consensus size: 54
50008360 ATATTAAGTC
* * * *
50008370 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
50008425 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
50008479 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
50008535 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
50008591 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
50008645 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
50008700 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
50008754 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
50008808 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
50008850 GCACAATTTA
Statistics
Matches: 415, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
54 179 0.43
55 153 0.37
56 83 0.20
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:50008507 original size:82 final size:82
Alignment explanation
Indices: 50008370--50008849 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
50008360 ATATTAAGTC
* * * *
50008370 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
50008435 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
50008452 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
50008517 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
50008535 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
50008600 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
50008618 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
50008683 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
50008700 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
50008764 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
50008781 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
50008845 GTGCT
66 GTGCT
50008850 GCACAATTTA
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 99 0.25
82 181 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:50013230 original size:30 final size:30
Alignment explanation
Indices: 50013173--50013231 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50013163 GTCTTTTAAA
** * *
50013173 AATATTTACAAAAAGAGGTATCTAATTTTT
1 AATATTTACAAAAAGAGCAACCAAATTTTT
50013203 AATATTTACAAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAGAGCAACCAAATTTT
50013232 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGCAACCAAATTTTT
Found at i:50022296 original size:42 final size:42
Alignment explanation
Indices: 50022170--50022296 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 42
50022160 CTCAGTACTG
* *
50022170 TATCAATGCCATATCCCAGATATGGTCTTACATGTAATCTCG
1 TATCGATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
* *
50022212 TATCGATGCCAATAGCCCAGATATGGTCTTACACG-AAGTCTCA
1 TATCGATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCA
** *
50022255 TATCGATGCCATATCCTTGATATGGTTTTACATGTAATCTCA
1 TATCGATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
50022297 ATAACCCTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 35 0.48
43 38 0.52
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (42 bp):
TATCGATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
Found at i:50027095 original size:20 final size:20
Alignment explanation
Indices: 50027070--50027108 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50027060 AAAATTTCAA
50027070 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
50027090 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
50027109 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:50034734 original size:81 final size:81
Alignment explanation
Indices: 50034641--50034803 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
50034631 TAGCTTTAAC
50034641 CTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAATCTCCACACGAAGTTATCGGGTCT
1 CTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAATCTCCACACGAAGTTATCGGGTCT
50034706 TACCCGGACAAAATCT
66 TACCCGGACAAAATCT
50034722 CTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAATCTCCACACGAAGTTATCGGGTCT
1 CTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAATCTCCACACGAAGTTATCGGGTCT
50034787 TACCCGGACAAAATCT
66 TACCCGGACAAAATCT
50034803 C
1 C
50034804 CACACGTAGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (81 bp):
CTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAATCTCCACACGAAGTTATCGGGTCT
TACCCGGACAAAATCT
Found at i:50034806 original size:37 final size:37
Alignment explanation
Indices: 50034675--50034831 Score: 172
Period size: 37 Copynumber: 4.1 Consensus size: 37
50034665 CTTTAGCTCA
50034675 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
* * * * *
50034712 GACAAAATCTCTCTACTCGGA-TTATCGGTGAGACCTTTAGCTCA
1 GACAAAATCTC-C-ACACGAAGTTATC-G-G-G-TC-TTA-CCCG
50034756 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
* *
50034793 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
50034830 GA
1 GA
50034832 ATATATTTCC
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
37 50 0.51
38 9 0.09
39 7 0.07
40 2 0.02
41 2 0.02
42 7 0.07
43 9 0.09
44 13 0.13
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
Found at i:50035042 original size:125 final size:125
Alignment explanation
Indices: 50034898--50035148 Score: 484
Period size: 125 Copynumber: 2.0 Consensus size: 125
50034888 GTCATATTTG
*
50034898 TAATTCATTTGCCTCATCAAATATCTAATAATACACACCTTTCACATTTGGTCGTTTGGCCACAA
1 TAATTCATTTGCCTCATCAAATATCTAATAATACACACCTTTCACATTTGGTCGTTCGGCCACAA
50034963 TATACGCACATCGCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
66 TATACGCACATCGCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
50035023 TAATTCATTTGCCTCATCAAATATCTAATAATACACACCTTTCACATTTGGTCGTTCGGCCACAA
1 TAATTCATTTGCCTCATCAAATATCTAATAATACACACCTTTCACATTTGGTCGTTCGGCCACAA
*
50035088 TATACGCACATCGCCTACATATTTCACACTATCCATTCGGCTTTACCACATATACATATC
66 TATACGCACATCGCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
50035148 T
1 T
50035149 CATACATATA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (125 bp):
TAATTCATTTGCCTCATCAAATATCTAATAATACACACCTTTCACATTTGGTCGTTCGGCCACAA
TATACGCACATCGCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
Found at i:50035222 original size:47 final size:47
Alignment explanation
Indices: 50035161--50035345 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
50035151 TACATATATT
* * * *
50035161 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
50035208 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
50035255 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
50035302 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
50035346 CACAATTATC
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:50035281 original size:22 final size:22
Alignment explanation
Indices: 50035254--50035329 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
50035244 GCTCACATTC
50035254 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
50035276 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
50035300 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
50035323 ATCACAT
1 ATCACAT
50035330 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:50039794 original size:43 final size:42
Alignment explanation
Indices: 50039724--50039852 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 42
50039714 CACTCAGTAC
* * * *
50039724 CATATCAATGCCATATCCTAGATATGGTCTTACATGTAATCT
1 CATATCGATGCAATAGCCCAGATATGGTCTTACATGTAATCT
* * *
50039766 CGTATCGATGCCAATAGCCCAGCTATGGTTTTACATG-AAGTCT
1 CATATCGATG-CAATAGCCCAGATATGGTCTTACATGTAA-TCT
** * * *
50039809 CATATCGATGTTATATCCCTGATATGGTCTTACACGTAATCT
1 CATATCGATGCAATAGCCCAGATATGGTCTTACATGTAATCT
50039851 CA
1 CA
50039853 GTAACCATAA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
CATATCGATGCAATAGCCCAGATATGGTCTTACATGTAATCT
Found at i:50039852 original size:42 final size:43
Alignment explanation
Indices: 50039724--50039852 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 43
50039714 CACTCAGTAC
*
50039724 CATATCAATGCC-ATAT-CCTAGATATGGTCTTACATGTAATCT
1 CATATCGATGCCAATATCCCT-GATATGGTCTTACATGTAATCT
* * * * *
50039766 CGTATCGATGCCAATAGCCCAGCTATGGTTTTACATG-AAGTCT
1 CATATCGATGCCAATATCCCTGATATGGTCTTACATGTAA-TCT
** *
50039809 CATATCGATG-TTATATCCCTGATATGGTCTTACACGTAATCT
1 CATATCGATGCCAATATCCCTGATATGGTCTTACATGTAATCT
50039851 CA
1 CA
50039853 GTAACCATAA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 36 0.52
43 31 0.45
44 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (43 bp):
CATATCGATGCCAATATCCCTGATATGGTCTTACATGTAATCT
Found at i:50041567 original size:43 final size:42
Alignment explanation
Indices: 50041499--50041625 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
50041489 CTCAGTACTG
* * * *
50041499 TATCAATGCCATATCCTAGATATGGTCTTACATGTAATCTCG
1 TATCGATGCCATAGCCCAGATATGGTCTTACATGTAATCTCA
* * *
50041541 TATCGATTCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCA
1 TATCGATGCC-ATAGCCCAGATATGGTCTTACATGTAA-TCTCA
* * *
50041584 TATCGATGCCATATCCCTGATATGGTCTTTCATGTAATCTCA
1 TATCGATGCCATAGCCCAGATATGGTCTTACATGTAATCTCA
50041626 GTAACCCTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
TATCGATGCCATAGCCCAGATATGGTCTTACATGTAATCTCA
Found at i:50041625 original size:42 final size:42
Alignment explanation
Indices: 50041499--50041625 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
50041489 CTCAGTACTG
* *
50041499 TATCAATGCCATAT-CCTAGATATGGTCTTACATGTAATCTCG
1 TATCGATGCCATATCCCT-GATATGGTCTTACATGTAATCTCA
* * * * *
50041541 TATCGATTCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCA
1 TATCGATGCC-ATATCCCTGATATGGTCTTACATGTAA-TCTCA
*
50041584 TATCGATGCCATATCCCTGATATGGTCTTTCATGTAATCTCA
1 TATCGATGCCATATCCCTGATATGGTCTTACATGTAATCTCA
50041626 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 34 0.50
43 32 0.47
44 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
TATCGATGCCATATCCCTGATATGGTCTTACATGTAATCTCA
Found at i:50047976 original size:28 final size:28
Alignment explanation
Indices: 50047900--50047977 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 28
50047890 CTGTAAAAGT
* * *
50047900 GATTAGGCCTAATGGGCCATATAGATGT
1 GATTGGGCCTAATGGGCCATATAAATGA
50047928 GATTTGGGCCTAATGGGCCATATAAATGA
1 GA-TTGGGCCTAATGGGCCATATAAATGA
* *
50047957 GATTGGGCCTAGTGGTCCATA
1 GATTGGGCCTAATGGGCCATA
50047978 AGCATGTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATAAATGA
Found at i:50048618 original size:40 final size:39
Alignment explanation
Indices: 50048581--50048672 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
50048571 GCTACTCGTT
*
50048581 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
50048621 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
50048660 CAAATGCCTTCGG
1 CAAATGCCTTCGG
50048673 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:50048652 original size:39 final size:40
Alignment explanation
Indices: 50048562--50048725 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
50048552 CGGAATTTAA
** *
50048562 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
50048602 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
50048641 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
50048681 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
50048721 CCGGA
1 CCGGA
50048726 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:50058049 original size:44 final size:44
Alignment explanation
Indices: 50057986--50058070 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
50057976 CTAGCGGTCC
*
50057986 CGAGACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACAACT
1 CGAGACCGCTTTCCGACTAGGATCACTTTAGGGCTGTCACAACT
50058030 CGAGACCGCTTTCCGACTAGGATCACTTTAGGGCTGTCACA
1 CGAGACCGCTTTCCGACTAGGATCACTTTAGGGCTGTCACA
50058071 TTGGGCCTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (44 bp):
CGAGACCGCTTTCCGACTAGGATCACTTTAGGGCTGTCACAACT
Found at i:50059625 original size:27 final size:27
Alignment explanation
Indices: 50059594--50059821 Score: 258
Period size: 27 Copynumber: 8.4 Consensus size: 27
50059584 CCCCAAAATA
** *
50059594 GGTAAAATGACTATAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
50059621 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
50059648 GGTAAAATAACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* ** *
50059675 GGCCAAAATGACTATAATGCCCTTGTAAG
1 GG-TAAAATGACCGTAATGCCCCTGT-AG
** * * * * *
50059704 GCCAAAATGACTGTAGTTCTCCTTTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
50059731 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
50059758 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
50059785 GGTACAATGACCGTAATACCCATGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
50059812 GGTAAAATGA
1 GGTAAAATGA
50059822 AGATTATGAC
Statistics
Matches: 169, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 131 0.78
28 35 0.21
29 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:50059735 original size:83 final size:82
Alignment explanation
Indices: 50059597--50059819 Score: 261
Period size: 83 Copynumber: 2.7 Consensus size: 82
50059587 CAAAATAGGT
* **
50059597 AAAATGACTATAATACCCCTGT-AGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCG
1 AAAATGACTATAATGCCCCTGTAAGGCCAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCG
50059661 TAATGCCCCTGTAGGGCC
66 TAATGCCCCTGTAGGG-C
* * * * * * *
50059679 AAAATGACTATAATGCCCTTGTAAGGCCAAAATGACTGTAGTTCTCCTTTAGGGTAAAATGACCG
1 AAAATGACTATAATGCCCCTGTAAGGCCAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCG
*
50059744 TAATGCCCCTGTAGGGT
66 TAATGCCCCTGTAGGGC
* ** * * * *
50059761 AAAATGACCATAATGCCCCTGT-AGGGTACAATGACCGTAATACCCATGTATGGTAAAAT
1 AAAATGACTATAATGCCCCTGTAAGGCCAAAATGACCGTAATGCCCCTGTAGGGTAAAAT
50059820 GAAGATTATG
Statistics
Matches: 117, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
81 27 0.23
82 40 0.34
83 50 0.43
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (82 bp):
AAAATGACTATAATGCCCCTGTAAGGCCAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCG
TAATGCCCCTGTAGGGC
Found at i:50060008 original size:27 final size:27
Alignment explanation
Indices: 50059959--50060022 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
50059949 TGGAGGAAGT
*
50059959 ACTG-TACTGGTGACTATGTCACATTC
1 ACTGTTACTGGTGACTATGCCACATTC
* * *
50059985 ACTGTTACTGGTGGCTTTGCCACATTT
1 ACTGTTACTGGTGACTATGCCACATTC
*
50060012 ACTGTTTCTGG
1 ACTGTTACTGG
50060023 CAGCTATGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
ACTGTTACTGGTGACTATGCCACATTC
Found at i:50060036 original size:27 final size:27
Alignment explanation
Indices: 50059972--50060051 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
50059962 GTACTGGTGA
* **
50059972 CTATGTCACATTCACTGTTACTGGTGG
1 CTATGCCACATTCACTGTTACTGGCAG
* * *
50059999 CTTTGCCACATTTACTGTTTCTGGCAG
1 CTATGCCACATTCACTGTTACTGGCAG
* * *
50060026 CTATGCTACATT-ATTATTACTGGCAG
1 CTATGCCACATTCACTGTTACTGGCAG
50060052 TTTTGTTGCG
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 11 0.26
27 31 0.74
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (27 bp):
CTATGCCACATTCACTGTTACTGGCAG
Found at i:50102861 original size:50 final size:50
Alignment explanation
Indices: 50102805--50103277 Score: 702
Period size: 50 Copynumber: 9.6 Consensus size: 50
50102795 GTATATATGA
50102805 GTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTATGAGATATGTATAT
* *
50102855 GTGGTAAAGACGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATATGTATAT
50102903 GTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTATGAGATATGTATAT
* *
50102953 GTGGTAAAGACGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATATGTATAT
50103001 GTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTATGAGATATGTATAT
* *
50103051 GTGGTAAAGACGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATATGTATAT
50103099 GTGGTAAAGCCGAATGG-TCAATGTGAAATATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTATGAGATATGTATAT
* *
50103149 GTGGTAAAGACGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATATGTATAT
* *
50103197 GTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGATATATGTATAT
1 GTGGTAAAGCCGAATGGCT-AATGTGAAATATATGTATGAGATATGTATAT
* *
50103247 GTGATAAAGCCGAATGGCTAGTGTGAAATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATAT
50103278 GTAGGCGATG
Statistics
Matches: 386, Mismatches: 20, Indels: 34
0.88 0.05 0.08
Matches are distributed among these distances:
47 4 0.01
48 168 0.44
49 16 0.04
50 193 0.50
51 5 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (50 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATATGTATAT
Found at i:50102914 original size:98 final size:98
Alignment explanation
Indices: 50102805--50103280 Score: 907
Period size: 98 Copynumber: 4.9 Consensus size: 98
50102795 GTATATATGA
50102805 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
50102870 GGCTAATGTGAAATATGTATGAGATATGCATAT
66 GGCTAATGTGAAATATGTATGAGATATGCATAT
50102903 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
50102968 GGCTAATGTGAAATATGTATGAGATATGCATAT
66 GGCTAATGTGAAATATGTATGAGATATGCATAT
50103001 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
50103066 GGCTAATGTGAAATATGTATGAGATATGCATAT
66 GGCTAATGTGAAATATGTATGAGATATGCATAT
50103099 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
50103164 GGCTAATGTGAAATATGTATGAGATATGCATAT
66 GGCTAATGTGAAATATGTATGAGATATGCATAT
* * * *
50103197 GTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGATATATGTATATGTGATAAAGCCGAAT
1 GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
*
50103262 GGCTAGTGTGAAATATGTA
66 GGCTAATGTGAAATATGTA
50103281 GGCGATGTGC
Statistics
Matches: 373, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 373 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
GTGGTAAAGCCGAATGGTCAATGTGAAATATATGTATGAGATATGTATATGTGGTAAAGACGAAT
GGCTAATGTGAAATATGTATGAGATATGCATAT
Found at i:50103479 original size:37 final size:37
Alignment explanation
Indices: 50103429--50103503 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
50103419 AATATATTCC
* * *
50103429 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
1 GGGTAAAACCCGATAACTACGTGTGGAGATTTCGTCT
*
50103466 GGGTAAAACCCGATAACTTCGTGTGGAGATTTCGTCT
1 GGGTAAAACCCGATAACTACGTGTGGAGATTTCGTCT
50103503 G
1 G
50103504 ACCTAAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (37 bp):
GGGTAAAACCCGATAACTACGTGTGGAGATTTCGTCT
Found at i:50107815 original size:36 final size:36
Alignment explanation
Indices: 50107766--50107834 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
50107756 GAGAATGATA
50107766 GCAGGAATAAGGAGTATAAACTCCTCGAACCACTAT
1 GCAGGAATAAGGAGTATAAACTCCTCGAACCACTAT
*
50107802 GCAGGAATGAGGAGTATAAACTCCTCGAACCAC
1 GCAGGAATAAGGAGTATAAACTCCTCGAACCAC
50107835 CATGACCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (36 bp):
GCAGGAATAAGGAGTATAAACTCCTCGAACCACTAT
Found at i:50114873 original size:43 final size:42
Alignment explanation
Indices: 50114825--50114983 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
50114815 AGCATATACA
* * *
50114825 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAA-GTCG
* *
50114868 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAGA-TACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAAGT-CG
* * *
50114910 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAAGTCG
**
50114954 ATGCCAACGTCCCAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
50114984 ATATCACATA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 31 0.32
43 34 0.35
44 30 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAGTCG
Found at i:50114982 original size:86 final size:85
Alignment explanation
Indices: 50114820--50114989 Score: 216
Period size: 86 Copynumber: 2.0 Consensus size: 85
50114810 CGGAAAGCAT
* * * * *
50114820 ATACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACGTCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGTAAACAAAAGTCAATGCCACTGTCCCAGAC
50114885 ATGGTCTTACACGAAATCAG
66 ATGGTCTTACACGAAATCAG
* **
50114905 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTCAATGCCAAC-GTCCCAG
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGT-AAACAAAAGTCAATGCC-ACTGTCCCAG
** *
50114969 ATGTGGTCTTACACGATATCA
64 ACATGGTCTTACACGAAATCA
50114990 CATATCGAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 31 0.43
86 39 0.54
87 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACATGGTCTTACACGTAAACAAAAGTCAATGCCACTGTCCCAGAC
ATGGTCTTACACGAAATCAG
Found at i:50117495 original size:23 final size:23
Alignment explanation
Indices: 50117465--50117511 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
50117455 TTCGATAGGG
*
50117465 ATAAAAGCTCTCTCCATGTCCAA
1 ATAAAAGCTCTCTCCATGGCCAA
50117488 ATAAAAGCTCTCTCCATGGCCAA
1 ATAAAAGCTCTCTCCATGGCCAA
50117511 A
1 A
50117512 CCAACCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (23 bp):
ATAAAAGCTCTCTCCATGGCCAA
Found at i:50127325 original size:35 final size:35
Alignment explanation
Indices: 50127279--50127347 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
50127269 GTTTTGAGAG
50127279 GTTAAAGACACTATTAACTGAAGCTCCTATTTTAA
1 GTTAAAGACACTATTAACTGAAGCTCCTATTTTAA
* *
50127314 GTTAAAGACACTGTTAACTGAAGCTCCTGTTTTA
1 GTTAAAGACACTATTAACTGAAGCTCCTATTTTA
50127348 GTATTGCCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (35 bp):
GTTAAAGACACTATTAACTGAAGCTCCTATTTTAA
Found at i:50133315 original size:33 final size:34
Alignment explanation
Indices: 50133266--50133358 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
50133256 TTGCATATTG
* * *
50133266 TACTGATACTGTAATGGGCTTAGGCCC-CACTGA-
1 TACTGTTACTGAAATGGGCTAAGGCCCACACT-AC
* * *
50133299 TACTGTTATTGAAATGGGCTCAGGCCCAGACTAC
1 TACTGTTACTGAAATGGGCTAAGGCCCACACTAC
50133333 TACTGTTACTGAAATGGGCTAAGGCC
1 TACTGTTACTGAAATGGGCTAAGGCC
50133359 TTAACTAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.47
34 27 0.53
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTAAGGCCCACACTAC
Found at i:50135262 original size:53 final size:53
Alignment explanation
Indices: 50135194--50135396 Score: 201
Period size: 53 Copynumber: 3.8 Consensus size: 53
50135184 TCCTTTTTTA
* *
50135194 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * **
50135247 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATATTTGCCTTAT-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
** * * * * * *
50135299 ATTGGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 A---ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
50135356 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTAT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT
50135397 TCTTAAACCC
Statistics
Matches: 116, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 46 0.40
54 31 0.27
55 37 0.32
57 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:50142736 original size:53 final size:52
Alignment explanation
Indices: 50142652--50142761 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
50142642 CCTTTCCCTT
* * *
50142652 TTATAACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC
1 TTATAACTCACCATTTCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
* * *
50142704 TTATGAACTCACCATTGT-CATGCCTTGTCATGGTCTTACATGGGATCTTTGTC
1 TTAT-AACTCACCATT-TCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
50142757 TTATA
1 TTATA
50142762 GTAGTTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 5 0.10
53 44 0.88
54 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (52 bp):
TTATAACTCACCATTTCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
Found at i:50145090 original size:57 final size:57
Alignment explanation
Indices: 50145002--50145119 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 57
50144992 ATGATTGTTT
*
50145002 CGTTACTTTCCCATGAAAGTAGATTCTTCAAGGTTTGTTTACATAATTTATTCACTA
1 CGTTACTTTCCCATGAAAGTAGATTCTTCAAGGTTTGTTTACATAATTTATTAACTA
*
50145059 CGTTACTTTCCTATGAAAGTAGATTCTTCAAGGTTTGTTTACATAATTTATTAACTA
1 CGTTACTTTCCCATGAAAGTAGATTCTTCAAGGTTTGTTTACATAATTTATTAACTA
50145116 -GTTA
1 CGTTA
50145120 ATTCCATTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 4 0.07
57 55 0.93
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (57 bp):
CGTTACTTTCCCATGAAAGTAGATTCTTCAAGGTTTGTTTACATAATTTATTAACTA
Found at i:50145938 original size:39 final size:40
Alignment explanation
Indices: 50145893--50146024 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
50145883 GCTCCTCGTT
* * *
50145893 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
50145933 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
50145972 CGAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
50146012 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
50146025 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 34 0.43
40 45 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:50146086 original size:41 final size:41
Alignment explanation
Indices: 50146009--50146086 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50145999 TTAGTATCTC
* * *
50146009 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50146050 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50146087 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50157365 original size:103 final size:103
Alignment explanation
Indices: 50157186--50157390 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 103
50157176 ATGTTGGTGC
50157186 CCCTTCGATAGGGGATACCAGAATAGTTAAGGATTTTTTGGACGTCTTTCCTGAAGAGCTACTTG
1 CCCTTCGATAGGGGATACCAGAATAGTTAAGGATTTTTTGGACGTCTTTCCTGAAGAGCTACTTG
*
50157251 GGTTCCCTCCCGAACGTGAAATGGAGTTTAGGATTGAA
66 GGTTACCTCCCGAACGTGAAATGGAGTTTAGGATTGAA
50157289 CCCTTCGATAGGGGATACCAGAATAGTTAAGGATTTTTTGGACGTCTTTCCTGAAGAGCTACTTG
1 CCCTTCGATAGGGGATACCAGAATAGTTAAGGATTTTTTGGACGTCTTTCCTGAAGAGCTACTTG
50157354 GGTTACCTCCCGAACGTGAAATGGAGTTTAGGATTGA
66 GGTTACCTCCCGAACGTGAAATGGAGTTTAGGATTGA
50157391 GCTTCTTCCT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (103 bp):
CCCTTCGATAGGGGATACCAGAATAGTTAAGGATTTTTTGGACGTCTTTCCTGAAGAGCTACTTG
GGTTACCTCCCGAACGTGAAATGGAGTTTAGGATTGAA
Found at i:50164761 original size:28 final size:29
Alignment explanation
Indices: 50164729--50164827 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
50164719 ATAATAAGCC
*
50164729 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
50164757 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
50164785 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
50164814 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50164828 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:50167598 original size:58 final size:58
Alignment explanation
Indices: 50167508--50167682 Score: 323
Period size: 58 Copynumber: 3.0 Consensus size: 58
50167498 TAAATCACAT
50167508 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
1 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
50167566 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
1 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
* * *
50167624 TACATACAAACACAACATTCAATTAACATAATTACATGCTCGATTAAGTTACACGAAC
1 TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
50167682 T
1 T
50167683 TACCTCGACA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 114 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (58 bp):
TACATACAAACACAACATTCAATTAACATAATTACATGCCCGATTAAGGTACATGAAC
Found at i:50171843 original size:25 final size:24
Alignment explanation
Indices: 50171791--50171851 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
50171781 ATAGCTCGAA
50171791 CGAGCAATCCTG-TTATAGCTCTCT
1 CGAGC-ATCCTGTTTATAGCTCTCT
50171815 CGAGCATCCTGTTATATAGCTC-CT
1 CGAGCATCCTGTT-TATAGCTCTCT
*
50171839 GCGAGCATACTGT
1 -CGAGCATCCTGT
50171852 GTTGCACACT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 6 0.18
24 8 0.24
25 19 0.58
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (24 bp):
CGAGCATCCTGTTTATAGCTCTCT
Found at i:50177583 original size:35 final size:35
Alignment explanation
Indices: 50177476--50177818 Score: 345
Period size: 35 Copynumber: 9.8 Consensus size: 35
50177466 CATATGGCCA
* * *
50177476 AATATATAAATTCAATAT-ATCATCACATGTAACCT
1 AATATACAAGTTCAATATAATC-TCACATGTAACCG
* * * * *
50177511 AATGTTCATGTTCAATAAAACATCTCATATTGT---CG
1 AATATACAAGTTCAAT-ATA-ATCTCACA-TGTAACCG
* * *
50177546 AATATACAAATTCAATATAATATCATATGTAACCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* *
50177581 AATATACAAGTTCAATATAAGCTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
50177616 AATACACAAGTTCAATATAATCTCACATGCAGCCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
50177651 AATATACAAGTTAAATATAAACTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
50177686 AATACACAAGTTCAATATAATCTCACATGCAGCCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * *
50177721 AATATACAAGTTAAATATAAACTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
* * * *
50177756 AATACACAAGTTCAATATAACCTCACATGTAGCCA
1 AATATACAAGTTCAATATAATCTCACATGTAACCG
50177791 AATATACAAGTTCAATAT-ATCCTCACAT
1 AATATACAAGTTCAATATAAT-CTCACAT
50177819 ATACTTACCT
Statistics
Matches: 250, Mismatches: 50, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
32 3 0.01
33 7 0.03
34 3 0.01
35 226 0.90
36 1 0.00
37 4 0.02
38 6 0.02
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (35 bp):
AATATACAAGTTCAATATAATCTCACATGTAACCG
Found at i:50177617 original size:70 final size:70
Alignment explanation
Indices: 50177486--50177818 Score: 427
Period size: 70 Copynumber: 4.8 Consensus size: 70
50177476 AATATATAAA
* * * * * * * **
50177486 TTCAATAT-ATCATCACATGTAACCTAATGTTCATGTTCAATA-AAACATCTCATATTGTCGAAT
1 TTCAATATAATC-TCACATGTAGCCGAATATACAAGTTCAATATAAAC-TCACATGTAATCGAAT
* *
50177549 ATACAAA
64 ACACAAG
* * * *
50177556 TTCAATATAATATCATATGTAACCGAATATACAAGTTCAATATAAGCTCACATGTAATCGAATAC
1 TTCAATATAATCTCACATGTAGCCGAATATACAAGTTCAATATAAACTCACATGTAATCGAATAC
50177621 ACAAG
66 ACAAG
* *
50177626 TTCAATATAATCTCACATGCAGCCGAATATACAAGTTAAATATAAACTCACATGTAATCGAATAC
1 TTCAATATAATCTCACATGTAGCCGAATATACAAGTTCAATATAAACTCACATGTAATCGAATAC
50177691 ACAAG
66 ACAAG
* *
50177696 TTCAATATAATCTCACATGCAGCCGAATATACAAGTTAAATATAAACTCACATGTAATCGAATAC
1 TTCAATATAATCTCACATGTAGCCGAATATACAAGTTCAATATAAACTCACATGTAATCGAATAC
50177761 ACAAG
66 ACAAG
* * **
50177766 TTCAATATAACCTCACATGTAGCCAAATATACAAGTTCAATATATCCTCACAT
1 TTCAATATAATCTCACATGTAGCCGAATATACAAGTTCAATATAAACTCACAT
50177819 ATACTTACCT
Statistics
Matches: 236, Mismatches: 25, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
70 231 0.98
71 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (70 bp):
TTCAATATAATCTCACATGTAGCCGAATATACAAGTTCAATATAAACTCACATGTAATCGAATAC
ACAAG
Found at i:50180345 original size:27 final size:27
Alignment explanation
Indices: 50180315--50180458 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
50180305 TACTGAAATG
**
50180315 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
50180342 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
** *
50180369 CCCTTAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
50180396 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
50180423 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
50180450 CCCTCGATT
1 CCCTCGATT
50180459 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:50180395 original size:54 final size:54
Alignment explanation
Indices: 50180327--50180458 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
50180317 CTCGATTTGT
* * * *
50180327 AGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
* *
50180381 AGAATTACCGTTTTACCCTCAATTTACAAAATTACCATTTTACCCTCAGTTTAC
1 AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
* *
50180435 AAAATTATCGTTTTACCCTCGATT
1 AGAATTACCGTTTTACCCTCGATT
50180459 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (54 bp):
AGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTAC
Found at i:50180480 original size:27 final size:27
Alignment explanation
Indices: 50180450--50180640 Score: 138
Period size: 27 Copynumber: 7.1 Consensus size: 27
50180440 TATCGTTTTA
* * *
50180450 CCCTCGATTGTGAAATTACGAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * *
50180477 CCCTATA-GGATAGAATTACCAAAATAC
1 CCCTAGATTG-TAAAATTACCAAAATAC
*
50180504 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * **
50180531 CCCTAGTTTGTAAAATCACTGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
** * * * *
50180558 CAATGGTTTGTGAAATTACCGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
*
50180585 CCC-AAATTTGTAAAATTACCAAAATA-
1 CCCTAGA-TTGTAAAATTACCAAAATAC
* *
50180611 CCCTTGATT-TACAAAATTACAAAAATAC
1 CCCTAGATTGT--AAAATTACCAAAATAC
50180639 CC
1 CC
50180641 TTGACTTTCT
Statistics
Matches: 128, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.01
26 6 0.05
27 118 0.92
28 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:50180556 original size:54 final size:54
Alignment explanation
Indices: 50180494--50180640 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
50180484 GGATAGAATT
* *
50180494 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
** ** * * * *
50180548 ACTGAAATACCAATGGTTTGTGAAATTACCGAAATACCCCAAATTTGTAAAATT
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
* ** *
50180602 ACCAAAATA-CCCTTGATTTACAAAATTACAAAAATACCC
1 ACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC
50180641 TTGACTTTCT
Statistics
Matches: 72, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
53 3 0.04
54 69 0.96
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (54 bp):
ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAAATTTGTAAAATC
Found at i:50180637 original size:81 final size:81
Alignment explanation
Indices: 50180490--50180639 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
50180480 TATAGGATAG
* * ** **
50180490 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATCACTGAAA
1 AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATCACAAAAA
50180555 TACCAATGGTTTGTGA
66 TACCAATGGTTTGTGA
* * *
50180571 AATTACCGAAATACCCCAAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTACAAAA
1 AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATCACAAAA
50180635 ATACC
65 ATACC
50180640 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.08
81 54 0.92
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCAAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATCACAAAAA
TACCAATGGTTTGTGA
Found at i:50180665 original size:29 final size:27
Alignment explanation
Indices: 50180596--50180698 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 27
50180586 CCAAATTTGT
*
50180596 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACAAAAATACCCTTGATTTAC
50180623 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACAAAAATACCCTTGA-TTTAC
* * * *
50180650 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAAAAATACCCTTGATTTAC
**
50180679 AAAATTACTGAAATACCCTT
1 AAAATTACAAAAATACCCTT
50180699 ATAGGATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 39 0.61
28 6 0.09
29 19 0.30
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTACAAAAATACCCTTGATTTAC
Found at i:50180794 original size:27 final size:27
Alignment explanation
Indices: 50180729--50180794 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
50180719 TACCCCTAAT
*
50180729 AGGTAAAACGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
50180756 AGGTAAAGTGACCGTAATA-CCCTTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
50180783 TGGTAAAATGAC
1 AGGTAAAATGAC
50180795 GAATATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:50181543 original size:20 final size:20
Alignment explanation
Indices: 50181512--50181588 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
50181502 ACAAGATTGA
*
50181512 TATGACATGCACATGATATG
1 TATGAAATGCACATGATATG
* *
50181532 TATAAAATGCACATGATAAG
1 TATGAAATGCACATGATATG
*
50181552 TATGAAATGCACATGATATA
1 TATGAAATGCACATGATATG
50181572 TATGAAATGCACATGAT
1 TATGAAATGCACATGAT
50181589 GTATTCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
TATGAAATGCACATGATATG
Found at i:50182658 original size:24 final size:24
Alignment explanation
Indices: 50182631--50182756 Score: 175
Period size: 24 Copynumber: 5.2 Consensus size: 24
50182621 CTGGAGGCCT
50182631 AGCCTCTTTTAATAATTGGGGCA-A
1 AGCC-CTTTTAATAATTGGGGCATA
50182655 AGCCCTTTTAATAACTT-GGGCATA
1 AGCCCTTTTAATAA-TTGGGGCATA
50182679 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAATTGGGGCATA
* * *
50182703 ACCCCTTTTAATAACTGGGGCAGA
1 AGCCCTTTTAATAATTGGGGCATA
* *
50182727 ACCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAATTGGGGCATA
50182751 AGCCCT
1 AGCCCT
50182757 ATTGTACTTC
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
23 17 0.18
24 77 0.82
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAATTGGGGCATA
Found at i:50184692 original size:25 final size:25
Alignment explanation
Indices: 50184659--50184715 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
50184649 TTACATATGG
** *
50184659 CCCAGTTTATTGAAAAGGGCTTTGC
1 CCCAGTTTACCGAAAACGGCTTTGC
*
50184684 CCCATTTTACCGAAAACGGCTTTGC
1 CCCAGTTTACCGAAAACGGCTTTGC
50184709 CCCAGTT
1 CCCAGTT
50184716 ATTAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (25 bp):
CCCAGTTTACCGAAAACGGCTTTGC
Found at i:50184925 original size:42 final size:42
Alignment explanation
Indices: 50184860--50184947 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
50184850 TAGTCTCCCC
* * ** *
50184860 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
50184902 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
50184944 AAAT
1 AAAT
50184948 TGGCCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:50185008 original size:31 final size:31
Alignment explanation
Indices: 50184973--50185051 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
50184963 ACCGTTTACA
* *
50184973 GAAAAGGCTTCGGCCGAGTGAAATGATTTAT
1 GAAAAGGCTTCGGCCCAATGAAATGATTTAT
* * *
50185004 GAAAAGGGTTCAGCCCAATGATATGATTTAT
1 GAAAAGGCTTCGGCCCAATGAAATGATTTAT
*
50185035 GAAATGGCTTCGGCCCA
1 GAAAAGGCTTCGGCCCA
50185052 GTAACTGTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAATGAAATGATTTAT
Found at i:50185073 original size:29 final size:29
Alignment explanation
Indices: 50185035--50185112 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
50185025 TATGATTTAT
50185035 GAAATGGCTTCGGCCCAGTAACTGTTAAAC
1 GAAA-GGCTTCGGCCCAGTAACTGTTAAAC
*
50185065 GAAAGGCTTCAGCCCAGTAACTGTTAAAC
1 GAAAGGCTTCGGCCCAGTAACTGTTAAAC
50185094 GAAAGGCTTCGGCCCAGTA
1 GAAAGGCTTCGGCCCAGTA
50185113 TATGTCAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (29 bp):
GAAAGGCTTCGGCCCAGTAACTGTTAAAC
Found at i:50189113 original size:24 final size:24
Alignment explanation
Indices: 50189086--50189131 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50189076 TATAATATGG
* * *
50189086 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
50189110 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
50189132 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:50189275 original size:25 final size:24
Alignment explanation
Indices: 50189242--50189299 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
50189232 AGGAAGTGCA
50189242 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAG-TTATC
* *
50189267 AAAAGGGC-TTTGCCCTAGTTATT
1 AAAAGGGCTTTTGCCCCAGTTATC
50189290 AAAAGAGGCT
1 AAAAG-GGCT
50189300 AGGCCTCGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 12 0.41
25 8 0.28
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTATC
Found at i:50193512 original size:20 final size:23
Alignment explanation
Indices: 50193464--50193513 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
50193454 ATCATGTTAG
* *
50193464 ATGTTAGAATTGGATTGGTTATA
1 ATGTTTGAATTGGACTGGTTATA
50193487 ATGTTTGAATTGG-CTGG-TAT-
1 ATGTTTGAATTGGACTGGTTATA
50193507 ATGTTTG
1 ATGTTTG
50193514 CAAGTATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 3 0.12
23 12 0.48
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (23 bp):
ATGTTTGAATTGGACTGGTTATA
Found at i:50196032 original size:42 final size:41
Alignment explanation
Indices: 50195958--50196110 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 41
50195948 CCAAAGCTAC
* *
50195958 GTCCCAGACATGGTCTTACATGGGTCTGCATATCGATGCCAT
1 GTCCCAGACATGGTCTTATACGGGTCT-CATATCGATGCCAT
* * *
50196000 ATCCCAGATATGGTCTTATACGAAGTCTCATATAGGTGCTGATGCCAT
1 GTCCCAGACATGGTCTTATACG-GGTCTC--ATA--T-C-GATGCCAT
* * *
50196048 GTCCCAGACATGGTCTTATATGGGACCTCATATCAATGCCAT
1 GTCCCAGACATGGTCTTATACGGG-TCTCATATCGATGCCAT
* *
50196090 GTTCCAGATATGGTCTTATAC
1 GTCCCAGACATGGTCTTATAC
50196111 AAAATCACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 44 0.49
43 5 0.06
44 4 0.04
46 4 0.04
47 2 0.02
48 30 0.34
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTATACGGGTCTCATATCGATGCCAT
Found at i:50196264 original size:48 final size:48
Alignment explanation
Indices: 50196083--50196264 Score: 145
Period size: 48 Copynumber: 3.8 Consensus size: 48
50196073 CCTCATATCA
* * * * *
50196083 ATGCCATGTTCC-AGATATGGTCTTATACAAAATCACTTAAT-GATGTCG
1 ATGCCATG-TCCTAGACATGGTCTTACACAGAATCACAT-ATCAATGTCG
* * * * * * * * * *
50196131 AAGCCATATCCTTGATATGGTCTTATACGGGATCAGATATCAGTGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACATATCAATGTCG
* * * *
50196179 ATGCCATGTCCCAGACACGGTCTTACACTAGCA-CACATATCAACGTCG
1 ATGCCATGTCCTAGACATGGTCTTACAC-AGAATCACATATCAATGTCG
50196227 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACAT
1 ATGCCATGTCCTAGACATGGTCTTACACAGAATCACAT
50196265 TAACCATGGT
Statistics
Matches: 103, Mismatches: 27, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
47 8 0.08
48 93 0.90
49 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACAGAATCACATATCAATGTCG
Found at i:50208008 original size:30 final size:29
Alignment explanation
Indices: 50207974--50208032 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
50207964 TTAATTAAAT
*
50207974 TATGAAATGAGCCCTAATTGTGCTGAACC
1 TATGAAATGAGCCCTAATAGTGCTGAACC
50208003 NTATGAAATGAGCCCTAATAGTGCTGAACC
1 -TATGAAATGAGCCCTAATAGTGCTGAACC
50208033 GAAAGACTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.25
Consensus pattern (29 bp):
TATGAAATGAGCCCTAATAGTGCTGAACC
Found at i:50214396 original size:13 final size:13
Alignment explanation
Indices: 50214378--50214407 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50214368 AAAAGAGAAT
50214378 ATTGAAGAAAACA
1 ATTGAAGAAAACA
*
50214391 ATTGAAGAACACA
1 ATTGAAGAAAACA
50214404 ATTG
1 ATTG
50214408 GAGCAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (13 bp):
ATTGAAGAAAACA
Found at i:50216903 original size:28 final size:27
Alignment explanation
Indices: 50216862--50216961 Score: 92
Period size: 28 Copynumber: 3.6 Consensus size: 27
50216852 AGGAAGCGTC
* *
50216862 CTGGTGGCTATGCCATAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAA-TATCTGAT
* * *
50216890 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
50216917 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* *
50216945 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
50216962 TTATCTGTTC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 26 0.46
28 31 0.54
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:50216926 original size:27 final size:26
Alignment explanation
Indices: 50216862--50216972 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
50216852 AGGAAGCGTC
* * *
50216862 CTGGTGGCTATGCCATAAATTATCTGAT
1 CTGGTGGCTCTGCC--ACATTATCTGTT
*
50216890 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
50216917 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
50216945 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
50216971 CT
1 CT
50216973 TGCAGCCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 30 0.42
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:50216947 original size:55 final size:54
Alignment explanation
Indices: 50216862--50216972 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 54
50216852 AGGAAGCGTC
* *
50216862 CTGGTGGCTATGCCATAAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* ** * *
50216917 CTGGTGGCTCTGCCA-CGATTATCTATATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCATAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
50216971 CT
1 CT
50216973 TGCAGCCATG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 16 0.33
55 32 0.67
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCATAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:50222045 original size:38 final size:38
Alignment explanation
Indices: 50222003--50222095 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
50221993 TAAAGACCCG
* *
50222003 CAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
** *
50222041 CAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
* * *
50222079 CAAGCCTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
50222096 TTATATTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCCA
Found at i:50222166 original size:43 final size:43
Alignment explanation
Indices: 50222099--50222339 Score: 383
Period size: 43 Copynumber: 5.6 Consensus size: 43
50222089 GCTGGTATTA
50222099 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
**
50222142 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
50222185 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATTCTGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
50222228 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
50222271 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCTGGCGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
50222314 TATTCGGGCCTTCGTGCCTAGTAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
50222340 GTAAAACCGG
Statistics
Matches: 179, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 179 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:50226575 original size:38 final size:38
Alignment explanation
Indices: 50226528--50226624 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 38
50226518 GGCTTAAAGA
* * *
50226528 CCCGGAGGCTTCGTGCCGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
** **
50226566 CCCGCAGGCTTCGTGCTAGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
* *
50226604 CCCGCAGGCCTAGTGCCGGTA
1 CCCGCAGGCTTCGTGCCGGTA
50226625 TTATATTCGG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCCGGTAAAATATCAGGGATAAAT
Found at i:50226881 original size:43 final size:43
Alignment explanation
Indices: 50226607--50226868 Score: 384
Period size: 43 Copynumber: 6.1 Consensus size: 43
50226597 GATAAATCCC
* * *
50226607 GCAGGCCTAGTGCCGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
50226648 GCAGGCTTCGTGCCGGTGATATGTATTTGGGCATTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
50226691 GCAGGCTTCGTGCCGGAGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
50226734 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTCCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
50226777 GTAGGCTTCGTGCCGATGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
50226820 GCAGGCTTCGTACTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
50226863 GCAGGC
1 GCAGGC
50226869 GTAATGCCGG
Statistics
Matches: 197, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.08
42 2 0.01
43 180 0.91
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:50244403 original size:27 final size:26
Alignment explanation
Indices: 50244373--50244453 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
50244363 AGCGTCCTAA
*
50244373 TGGCTATGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACAT-TATCTGTTCTGG
50244400 TGGCTCTGCCACGATTATCTGTATCTGG
1 TGGCTCTGCCAC-ATTATCTGT-TCTGG
* * *
50244428 TGACTCTGTCACATTATTTGTTCTGG
1 TGGCTCTGCCACATTATCTGTTCTGG
50244454 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 5 0.10
27 26 0.54
28 17 0.35
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGCTCTGCCACATTATCTGTTCTGG
Found at i:50250563 original size:12 final size:12
Alignment explanation
Indices: 50250546--50250575 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
50250536 AAGATCTCTA
50250546 CTTATTTGATGC
1 CTTATTTGATGC
50250558 CTTATTTGATGC
1 CTTATTTGATGC
50250570 CTTATT
1 CTTATT
50250576 GAAGCACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (12 bp):
CTTATTTGATGC
Found at i:50259990 original size:24 final size:24
Alignment explanation
Indices: 50259954--50260022 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 24
50259944 TTCACATTCT
*
50259954 TTCTCTCTCTCAAACTCTTTTTCA
1 TTCTCTCTCTCAAACTCATTTTCA
* * * *
50259978 TTCTCTTTTTCAATCTCATTTTCT
1 TTCTCTCTCTCAAACTCATTTTCA
* * *
50260002 TTTTCACTCTCAATCT-ATTTT
1 TTCTCTCTCTCAAACTCATTTT
50260023 TATTTTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.57
Consensus pattern (24 bp):
TTCTCTCTCTCAAACTCATTTTCA
Found at i:50259996 original size:18 final size:18
Alignment explanation
Indices: 50259975--50260023 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
50259965 AAACTCTTTT
50259975 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
50259993 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
* *
50260011 TCAATCTATTTTT
1 TCATTCTCTTTTT
50260024 ATTTTTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:50260168 original size:12 final size:12
Alignment explanation
Indices: 50260135--50260168 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50260125 TGTTCTTTTT
*
50260135 CTTTTTCAACGG
1 CTTTTTCAATGG
50260147 CTTTTTCAATGG
1 CTTTTTCAATGG
*
50260159 CTTTCTCAAT
1 CTTTTTCAAT
50260169 CTCTTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.47
Consensus pattern (12 bp):
CTTTTTCAATGG
Found at i:50262299 original size:223 final size:223
Alignment explanation
Indices: 50261911--50262356 Score: 865
Period size: 223 Copynumber: 2.0 Consensus size: 223
50261901 ATGAAATTTG
50261911 CAATGCATAAATTGTCCATTAAGTGGCAAAAAAAACGTTGGGGTATTTGAACAAGATGCTACCAG
1 CAATGCATAAATTGTCCATTAAGTGGCAAAAAAAACGTTGGGGTATTTGAACAAGATGCTACCAG
50261976 ATTTTAAAGGACATGAAATGCTCCTTTAAACACTCTTTTAATGATGCTTAATGCTTCCTTTATAA
66 ATTTTAAAGGACATGAAATGCTCCTTTAAACACTCTTTTAATGATGCTTAATGCTTCCTTTATAA
50262041 CAGCCCCCTCTTTTGTAACCAAAATAACTTGAAAAGTCTCCTTTATTGAATGCGTAACAGCCTTT
131 CAGCCCCCTCTTTTGTAACCAAAATAACTTGAAAAGTCTCCTTTATTGAATGCGTAACAGCCTTT
50262106 GTGAATTGAAAAGTCACCTGCAATTAAA
196 GTGAATTGAAAAGTCACCTGCAATTAAA
* *
50262134 CAATGCATAAATTGTCCATTAAGTGGCAAAAAAAATGTTGGGGTATTTGAACAAGCTGCTACCAG
1 CAATGCATAAATTGTCCATTAAGTGGCAAAAAAAACGTTGGGGTATTTGAACAAGATGCTACCAG
50262199 ATTTTAAAGGACATGAAATGCTCCTTTAAACACTCTTTTAATGATGCTTAATGCTTCCTTTATAA
66 ATTTTAAAGGACATGAAATGCTCCTTTAAACACTCTTTTAATGATGCTTAATGCTTCCTTTATAA
*
50262264 CAGCCCCCTCTTTTGTAACCAAAATAACTTGAAAAGTCTCTTTTATTGAATGCGTAACAGCCTTT
131 CAGCCCCCTCTTTTGTAACCAAAATAACTTGAAAAGTCTCCTTTATTGAATGCGTAACAGCCTTT
50262329 GTGAATTGAAAAGTCACCTGCAATTAAA
196 GTGAATTGAAAAGTCACCTGCAATTAAA
50262357 ACATATGTAA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 220 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (223 bp):
CAATGCATAAATTGTCCATTAAGTGGCAAAAAAAACGTTGGGGTATTTGAACAAGATGCTACCAG
ATTTTAAAGGACATGAAATGCTCCTTTAAACACTCTTTTAATGATGCTTAATGCTTCCTTTATAA
CAGCCCCCTCTTTTGTAACCAAAATAACTTGAAAAGTCTCCTTTATTGAATGCGTAACAGCCTTT
GTGAATTGAAAAGTCACCTGCAATTAAA
Found at i:50266639 original size:48 final size:48
Alignment explanation
Indices: 50266578--50266912 Score: 600
Period size: 48 Copynumber: 7.0 Consensus size: 48
50266568 ATATATGTGC
*
50266578 GTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
50266626 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
50266674 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
50266722 GTGGTAAAGCCGAATGGCTAATGTGAAATAAATATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
50266770 GTGGTAAAGCCGAATGGCTAATGTGAAATATGA-ATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAGATATGTATAT
* *
50266818 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
*
50266866 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
50266913 CTAGTGTGAA
Statistics
Matches: 277, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 276 1.00
49 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATAT
Found at i:50266924 original size:78 final size:78
Alignment explanation
Indices: 50266835--50266990 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
50266825 AGCCGAATGG
* * *
50266835 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
1 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
50266900 TGAGATATGTATA
66 TGAGATATGTATA
*
50266913 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAA
1 CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
50266978 TGAGATATGTATA
66 TGAGATATGTATA
50266991 TGTGGCCGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (78 bp):
CTAGTGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAA
TGAGATATGTATA
Found at i:50267176 original size:37 final size:37
Alignment explanation
Indices: 50267121--50267223 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
50267111 GGAAATATAT
*
50267121 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
50267158 TCCGGGTAAGACCCGATGACTACCTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
50267195 TCCGGGTAAGACCCGATAACTACGCGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
50267224 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:50270576 original size:93 final size:93
Alignment explanation
Indices: 50270466--50270636 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
50270456 GCCCCTAAGT
* *
50270466 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
50270531 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
50270559 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
50270624 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50270637 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50270633 original size:46 final size:46
Alignment explanation
Indices: 50270461--50270633 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
50270451 AACCCGCCCC
* * * **
50270461 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCCCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* *
50270507 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * *
50270555 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
50270600 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50270634 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:50271090 original size:30 final size:30
Alignment explanation
Indices: 50271056--50271115 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
50271046 TTTTAATACG
50271056 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
50271086 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
50271116 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:50278646 original size:56 final size:54
Alignment explanation
Indices: 50278527--50278667 Score: 147
Period size: 56 Copynumber: 2.5 Consensus size: 54
50278517 CATAACGTAG
* ** * *
50278527 CACGCCTCTCAACAGGGCTACATAAGAGCACCCGGACCTAGCATGCATCACATAAC
1 CACGCCTCTCAACAGGGCTACAT-A-AGCTCCCAAACCTAGCATGCACCACATAAA
* *
50278583 CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCGTGTACCACATAATTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCATGCACCACATAA--A
* ** *
50278639 CATGCCTCTCAATGGGGCTACACAAGCTC
1 CACGCCTCTCAACAGGGCTACATAAGCTC
50278668 TAGGACCTAG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
54 23 0.32
55 1 0.01
56 48 0.67
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCAAACCTAGCATGCACCACATAAA
Found at i:50282069 original size:47 final size:48
Alignment explanation
Indices: 50282010--50282274 Score: 231
Period size: 47 Copynumber: 5.5 Consensus size: 48
50282000 TAATGTAAAA
*
50282010 CATGTTTGGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGAC
* * *
50282057 CATGTCTAGGACATGACATCGG---CATTGA-GACGAGTGCTAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCACATT-ATGA-GA--GCCAGTGTAAGAC
* * *
50282104 CATGTCTGGGACAT-GCATCGGCCTCGATGATGATAGCCAGTGTAAGA-
1 CATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGAC
* * * *
50282151 CATGTCTGAGACATGGCATCAGCACATATATATACGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGC-CACAT-TAT--GAGAGCCAGTGTAAGAC
* * * * *
50282203 CATGTCTGGGACATGGCATCAGCCTCGATGACGATAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGAC
*
50282252 CATGTCTTGGACATGGCATCGGC
1 CATGTCTGGGACATGGCATCGGC
50282275 AACTTATTCC
Statistics
Matches: 176, Mismatches: 25, Indels: 32
0.76 0.11 0.14
Matches are distributed among these distances:
45 6 0.03
46 9 0.05
47 49 0.28
48 26 0.15
49 42 0.24
50 4 0.02
51 16 0.09
52 24 0.14
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGAC
Found at i:50282157 original size:94 final size:96
Alignment explanation
Indices: 50281996--50282275 Score: 352
Period size: 94 Copynumber: 2.9 Consensus size: 96
50281986 GGTTATTTGT
* * * * * *
50281996 GTGCTAATGTAAAACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
*
50282060 GTCTAGGACATGACATCGGCAT-T-GAGACGA
66 GTCT-GGACATGGCATCGGCATATAGAGACGA
50282090 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-CAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
* * *
50282154 GTCTGAGACATGGCATCAGCACATATATATACGA
66 GTCTG-GACATGGCATC-G-GCATATAGAGACGA
* * *
50282188 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGATAGCCAGTGTAAGACC
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGATAGCCAGTGTAAGACC
50282253 ATGTCTTGGACATGGCATCGGCA
64 ATGTC-TGGACATGGCATCGGCA
50282276 ACTTATTCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
93 1 0.01
94 52 0.32
95 20 0.12
96 3 0.02
97 1 0.01
98 18 0.11
99 16 0.10
100 32 0.20
101 17 0.10
102 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
GTCTGGACATGGCATCGGCATATAGAGACGA
Found at i:50282264 original size:49 final size:49
Alignment explanation
Indices: 50282043--50282271 Score: 252
Period size: 47 Copynumber: 4.7 Consensus size: 49
50282033 ACATTATGAG
* * * * *
50282043 AGCCAGTGTAAGACCATGTCTAGGACATGACATCGGCATTGA-GACGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGA-T
* * *
50282092 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
* ** * *
50282138 AGCCAGTGTAAGA-CATGTCTGAGACATGGCATCAGCACATATATATACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-C-TCGAT-GACGAT
*
50282189 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
*
50282238 AGCCAGTGTAAGACCATGTCTTGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
50282272 GGCAACTTAT
Statistics
Matches: 151, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 11 0.07
47 41 0.27
48 18 0.12
49 37 0.25
50 6 0.04
51 16 0.11
52 22 0.15
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGACGAT
Found at i:50284450 original size:43 final size:43
Alignment explanation
Indices: 50284402--50284492 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
50284392 AGAATGATAA
50284402 GTGTCTTGTGTTTGAGTTTTGCTAACGAAAATGAAATACGAAT
1 GTGTCTTGTGTTTGAGTTTTGCTAACGAAAATGAAATACGAAT
*
50284445 GTGTCTTGTGTTTGAGTTTTGCTAATGAAAATGAAATACGAAT
1 GTGTCTTGTGTTTGAGTTTTGCTAACGAAAATGAAATACGAAT
50284488 GTGTC
1 GTGTC
50284493 ATGATTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (43 bp):
GTGTCTTGTGTTTGAGTTTTGCTAACGAAAATGAAATACGAAT
Found at i:50284616 original size:40 final size:39
Alignment explanation
Indices: 50284532--50284716 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
50284522 TCGAATGATG
* * * *
50284532 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
50284572 TCCGGACTAAGATCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
50284612 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
50284651 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
50284692 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
50284717 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50284670 original size:79 final size:81
Alignment explanation
Indices: 50284532--50284716 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
50284522 TCGAATGATG
* *
50284532 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
50284596 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
50284611 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
50284673 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
50284691 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50284717 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:50284738 original size:79 final size:79
Alignment explanation
Indices: 50284587--50284749 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
50284577 ACTAAGATCT
* ** *
50284587 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
*
50284652 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * *
50284666 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-GAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
* *
50284729 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
50284745 GAAGG
1 GAAGG
50284750 TACGTGATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
CCGGGTTAAATCCC
Done.