Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 108 of 335
Found at i:33638861 original size:34 final size:34
Alignment explanation
Indices: 33638823--33638898 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
33638813 GTGACAGTCC
33638823 AGTATCAGTGAGGGCCTTAGCCCATTACAGTAAT
1 AGTATCAGTGAGGGCCTTAGCCCATTACAGTAAT
*
33638857 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAAT
1 AGTATCAGTGAGGGCCTTAGCCCATTACAGTAAT
*
33638891 AATATCAG
1 AGTATCAG
33638899 AAATGCAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGAGGGCCTTAGCCCATTACAGTAAT
Found at i:33638957 original size:22 final size:23
Alignment explanation
Indices: 33638920--33638962 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
33638910 AAAATCCTAC
33638920 CCATCCATCCCCTACACTCCACT
1 CCATCCATCCCCTACACTCCACT
*
33638943 CCATCCA-GCCCTACACTCCA
1 CCATCCATCCCCTACACTCCA
33638963 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.23, C:0.56, G:0.02, T:0.19
Consensus pattern (23 bp):
CCATCCATCCCCTACACTCCACT
Found at i:33652867 original size:25 final size:27
Alignment explanation
Indices: 33652830--33652882 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33652820 TCAAACATGC
33652830 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
33652856 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
33652882 A
1 A
33652883 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:33654409 original size:32 final size:32
Alignment explanation
Indices: 33654361--33654453 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
33654351 AATGCTTATC
33654361 ATGCCCATCATCCATTAACTATTAAAATGTTA
1 ATGCCCATCATCCATTAACTATTAAAATGTTA
* *
33654393 ATGCTCATCATTCATTAACTATTAAAATGTTA
1 ATGCCCATCATCCATTAACTATTAAAATGTTA
33654425 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
33654454 CTAAAATGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.35
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGTTA
Found at i:33660990 original size:25 final size:27
Alignment explanation
Indices: 33660953--33661005 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33660943 TCAAACATGC
33660953 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
33660979 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
33661005 A
1 A
33661006 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:33662533 original size:32 final size:32
Alignment explanation
Indices: 33662485--33662581 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
33662475 AATGCTTATC
*
33662485 ATGCCCATCATCCATTAACTATTAAAATGTTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
* *
33662517 ATGCTCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
33662549 ATGCCCATTATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
33662581 A
1 A
33662582 AATGCATACA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:33669021 original size:2 final size:2
Alignment explanation
Indices: 33669014--33669038 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33669004 ATAATGGGTT
33669014 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
33669039 TTATTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33669601 original size:14 final size:14
Alignment explanation
Indices: 33669582--33669611 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33669572 TACCCTAATA
33669582 ATATAAAAAAAATT
1 ATATAAAAAAAATT
33669596 ATATAAAAAAAATT
1 ATATAAAAAAAATT
33669610 AT
1 AT
33669612 TTTCTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATAAAAAAAATT
Found at i:33669877 original size:27 final size:27
Alignment explanation
Indices: 33669824--33669884 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
33669814 GGAGTGGTGT
* * *
33669824 CTATCTAGTAGGCGCCACTGGTAACCC
1 CTATCTGGAAGGCGCCACTAGTAACCC
* * *
33669851 TTATCTGGAAGGCGCCATTAGTGACCC
1 CTATCTGGAAGGCGCCACTAGTAACCC
33669878 CTATCTG
1 CTATCTG
33669885 ATAGGTGTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (27 bp):
CTATCTGGAAGGCGCCACTAGTAACCC
Found at i:33670358 original size:19 final size:19
Alignment explanation
Indices: 33670307--33670363 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
33670297 TATTTTTAAT
33670307 TTATTTGAAAGTTATTTTG
1 TTATTTGAAAGTTATTTTG
*
33670326 TTAATTT----TTTATTTTG
1 TT-ATTTGAAAGTTATTTTG
33670342 TTATTTGAAAGTTATTTTG
1 TTATTTGAAAGTTATTTTG
33670361 TTA
1 TTA
33670364 GGTTATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 4 0.13
16 10 0.32
19 13 0.42
20 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (19 bp):
TTATTTGAAAGTTATTTTG
Found at i:33672836 original size:37 final size:37
Alignment explanation
Indices: 33672786--33672875 Score: 171
Period size: 37 Copynumber: 2.4 Consensus size: 37
33672776 TGCTAAGAAT
33672786 GGCATCTGGTAAAGCGCCCACGACTGTAGCATTATGA
1 GGCATCTGGTAAAGCGCCCACGACTGTAGCATTATGA
*
33672823 GGCATTTGGTAAAGCGCCCACGACTGTAGCATTATGA
1 GGCATCTGGTAAAGCGCCCACGACTGTAGCATTATGA
33672860 GGCATCTGGTAAAGCG
1 GGCATCTGGTAAAGCG
33672876 TCCGACAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (37 bp):
GGCATCTGGTAAAGCGCCCACGACTGTAGCATTATGA
Found at i:33673984 original size:16 final size:17
Alignment explanation
Indices: 33673965--33674000 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
33673955 AAAATCAAAT
33673965 AAAATTACATT-ATAAA
1 AAAATTACATTAATAAA
33673981 AAAATTACATTAATAAA
1 AAAATTACATTAATAAA
33673998 AAA
1 AAA
33674001 TCACAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATTACATTAATAAA
Found at i:33674112 original size:102 final size:102
Alignment explanation
Indices: 33673977--33674448 Score: 655
Period size: 102 Copynumber: 4.6 Consensus size: 102
33673967 AATTACATTA
* *
33673977 TAAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAA-TCTAACAATTTATAACCTAA
1 TAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
*
33674041 TCATAAATTATTAGCAAAATAACTATAAAATAATTTT
66 TCATAAATTATTAACAAAATAACTATAAAATAATTTT
* *
33674078 TAAGAAAATTTAAATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
1 TAA-AAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
33674143 ATCATAAATTATTAACAAAATAACTATAAAATTATATATTT
65 ATCATAAATTATTAACAAAATAACTATAAAA-TA-AT-TTT
* * * * * *
33674184 TAAAAAAATTACATTACTAAAAAATTATAAAATACTAAAC-ACAACACTAACAAGTTATAACCTA
1 TAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTA-AACACTAACAATTTATAACCTA
*
33674248 ATCATAAATTACTT-ACAAAATAACTATAAAATTATTTT
65 ATCATAAATTA-TTAACAAAATAACTATAAAATAATTTT
* *
33674286 TAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAGCACTAACAATTTATAACTTAA
1 TAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
*
33674351 TCATAAATTATTAACAAAATAACTATAAAATAATTCTA
66 TCATAAATTATTAACAAAATAACTATAAAATAATT-TT
* * * * *
33674389 AAAAATAATTTTACTTTAATAAAAATTCAAAAAACACTAAACTAAACAC-AATAATTTATA
1 TAAAA-AA-TTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATA
33674449 GTTATTGTAA
Statistics
Matches: 331, Mismatches: 28, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
101 5 0.02
102 127 0.38
103 56 0.17
104 16 0.05
105 119 0.36
106 8 0.02
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (102 bp):
TAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
TCATAAATTATTAACAAAATAACTATAAAATAATTTT
Found at i:33674336 original size:207 final size:207
Alignment explanation
Indices: 33673977--33674434 Score: 676
Period size: 207 Copynumber: 2.2 Consensus size: 207
33673967 AATTACATTA
* *
33673977 TAAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAATCTAACAATTTATAACCTAAT
1 TAAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAAACTAACAAGTTATAACCTAAT
*
33674042 CATAAATTATTAGCAAAATAACTATAAAATAATTTTTAAGAAAATTTAAATTACTAAAAAATCAC
66 CATAAATTATTAGCAAAATAACTATAAAATAATTTTTAAGAAAATTTAAATTAATAAAAAATCAC
33674107 AAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAATAACTATAA
131 AAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAATAACTATAA
33674172 AATTATATATTT
196 AATTATATATTT
* * * *
33674184 TAAAAAAATTACATTACTAAAAAATTATAAAATACTAAAC-ACAACACTAACAAGTTATAACCTA
1 TAAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTA-AA-ACTAACAAGTTATAACCTA
* *
33674248 ATCATAAATTACTTA-CAAAATAACTATAAAATTATTTTTAA-AAAATTTACATTAATAAAAAAT
64 ATCATAAATTA-TTAGCAAAATAACTATAAAATAATTTTTAAGAAAATTTAAATTAATAAAAAAT
* *
33674311 CACAAAACACTAAACTAAGCACTAACAATTTATAACTTAATCATAAATTATTAACAAAATAACTA
128 CACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAATAACTA
*
33674376 TAAAA-TA-AT-TCT
193 TAAAATTATATATTT
* * * *
33674388 AAAAAATAATTTTACTTTAATAAAAATTCAAAAAACACTAAACTAAA
1 TAAAAA-AA--TTACATTAATAAAAAATCACAAAACACTAAACTAAA
33674435 CACAATAATT
Statistics
Matches: 225, Mismatches: 19, Indels: 14
0.87 0.07 0.05
Matches are distributed among these distances:
204 7 0.03
205 4 0.02
206 3 0.01
207 154 0.68
208 54 0.24
209 3 0.01
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (207 bp):
TAAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAAACTAACAAGTTATAACCTAAT
CATAAATTATTAGCAAAATAACTATAAAATAATTTTTAAGAAAATTTAAATTAATAAAAAATCAC
AAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTATTAACAAAATAACTATAA
AATTATATATTT
Found at i:33675541 original size:2 final size:2
Alignment explanation
Indices: 33675534--33675580 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
33675524 GGAAAGAAGC
*
33675534 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33675576 TA TA T
1 TA TA T
33675581 TTCGTTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33676845 original size:43 final size:43
Alignment explanation
Indices: 33676708--33676823 Score: 178
Period size: 44 Copynumber: 2.7 Consensus size: 43
33676698 TGAAAAAAAT
* *
33676708 GCCGCTAAAAGTCACGGCTTTTAGAGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGC
* * *
33676751 ACCGCTAAAAGTCATGTCTTTTTAGCGACGTTTGTGGGAAAAGC
1 GCCGCTAAAAGTCACGTC-TTTTAGCGGCGTTTGTGGGAAAAGC
33676795 GCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 GCCGCTAAAAGTCACGTCTTTTAGCGGCG
33676824 CTTTTCTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 25 0.39
44 39 0.61
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:33682076 original size:9 final size:9
Alignment explanation
Indices: 33682062--33682189 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
33682052 ATGTATTAGT
33682062 TAAGTTATG
1 TAAGTTATG
33682071 TAAGTTGTTATG
1 TAA---GTTATG
*
33682083 TACGTTATG
1 TAAGTTATG
*
33682092 TGAGTTATG
1 TAAGTTATG
*
33682101 TAAATTATG
1 TAAGTTATG
33682110 TAAGTTATG
1 TAAGTTATG
*
33682119 TGAGTTATG
1 TAAGTTATG
33682128 TAAGTTGTTATG
1 TAA---GTTATG
*
33682140 TAAATTATG
1 TAAGTTATG
*
33682149 TAAGTTATA
1 TAAGTTATG
*
33682158 TGAGTTATG
1 TAAGTTATG
33682167 TAAGTTATG
1 TAAGTTATG
* *
33682176 TAATTTATT
1 TAAGTTATG
33682185 TAAGT
1 TAAGT
33682190 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:33682189 original size:57 final size:57
Alignment explanation
Indices: 33682062--33682189 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
33682052 ATGTATTAGT
** * *
33682062 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
33682119 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
33682176 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
33682190 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:33682732 original size:241 final size:241
Alignment explanation
Indices: 33682309--33682774 Score: 844
Period size: 241 Copynumber: 1.9 Consensus size: 241
33682299 TGAATATAGT
*
33682309 AATTTTTTAAGATTCATCAAACGTGGCGTTGCTACACCTAGGGAGGATCCATTATAACTTACAGT
1 AATTTTTTAAGATTCATCAAACGTGGCGTTGCTACACCTAGGGAGGATCCATTATAACTTACAGC
*
33682374 TCGATATAAGGCAACCCATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCATCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
33682439 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATAAAT
33682504 ATTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTG
* *
33682550 AATTTTTTAAGATTCAT-AATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAG
1 AATTTTTTAAGATTCATCAA-ACGTGGCGTTGCTACACCTAGGGAGGATCCATTATAACTTACAG
*
33682614 CTCGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAA
65 CTCGATATAAGGCAACCCATCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAA
*
33682679 AAGGTTGGAGAGAAGGTTAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATAAA
130 AAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATAAA
*
33682744 TATTCAATAGTAAATGAGCTCGATGGAACTT
195 TATTCAATAGTAAATGAGCTCGATAGAACTT
33682775 TAACTATTTT
Statistics
Matches: 216, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
240 2 0.01
241 214 0.99
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCAAACGTGGCGTTGCTACACCTAGGGAGGATCCATTATAACTTACAGC
TCGATATAAGGCAACCCATCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATAGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTG
Found at i:33686947 original size:14 final size:14
Alignment explanation
Indices: 33686912--33686948 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
33686902 TATTATCTCT
33686912 TAAATAATTTAATC
1 TAAATAATTTAATC
33686926 TAAA-AATTTAATC
1 TAAATAATTTAATC
33686939 TAAATAATTT
1 TAAATAATTT
33686949 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:33687255 original size:15 final size:14
Alignment explanation
Indices: 33687189--33687256 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
33687179 ATAATTTATT
*
33687189 AACCATAAACCATAA
1 AACC-TAAACCCTAA
*
33687204 ACCCTAAACCCT-A
1 AACCTAAACCCTAA
* *
33687217 AACTTTAAACTCTAA
1 AAC-CTAAACCCTAA
33687232 AACCTTAAACCCTAA
1 AACC-TAAACCCTAA
33687247 AACACTAAAC
1 AAC-CTAAAC
33687257 ATTACACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.07
14 14 0.33
15 24 0.57
16 1 0.02
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCTAAACCCTAA
Found at i:33687296 original size:8 final size:7
Alignment explanation
Indices: 33687189--33687292 Score: 66
Period size: 7 Copynumber: 14.7 Consensus size: 7
33687179 ATAATTTATT
*
33687189 AACCATA
1 AACCCTA
*
33687196 AACCATA
1 AACCCTA
33687203 AACCCTA
1 AACCCTA
33687210 AACCCTA
1 AACCCTA
**
33687217 AACTTTA
1 AACCCTA
*
33687224 AACTCTAA
1 AACCCT-A
*
33687232 AACCTTA
1 AACCCTA
33687239 AACCCTAA
1 AACCCT-A
*
33687247 AACACTA
1 AACCCTA
**
33687254 AACATTA
1 AACCCTA
* *
33687261 CA-CATA
1 AACCCTA
*
33687267 AACTCTA
1 AACCCTA
*
33687274 AACTCTA
1 AACCCTA
33687281 AACCCTA
1 AACCCTA
33687288 AACCC
1 AACCC
33687293 CTAACCTGTA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
6 3 0.04
7 64 0.82
8 11 0.14
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:33687325 original size:7 final size:7
Alignment explanation
Indices: 33687189--33687326 Score: 52
Period size: 7 Copynumber: 19.4 Consensus size: 7
33687179 ATAATTTATT
*
33687189 AACCATA
1 AACCTTA
*
33687196 AACCATA
1 AACCTTA
*
33687203 AACCCTA
1 AACCTTA
*
33687210 AACCCTA
1 AACCTTA
*
33687217 AACTTTA
1 AACCTTA
*
33687224 AACTCTAA
1 AAC-CTTA
33687232 AACCTTA
1 AACCTTA
*
33687239 AACCCTAA
1 AA-CCTTA
33687247 AACAC-TA
1 AAC-CTTA
*
33687254 AACATTA
1 AACCTTA
* *
33687261 CA-CATA
1 AACCTTA
33687267 AA-CTCTA
1 AACCT-TA
33687274 AA-CTCTA
1 AACCT-TA
*
33687281 AACCCTA
1 AACCTTA
*
33687288 AACCCCT-
1 AA-CCTTA
33687295 AACCTGTA
1 AACCT-TA
*
33687303 ACCCTTA
1 AACCTTA
*
33687310 ACCCTTA
1 AACCTTA
33687317 AACCTTA
1 AACCTTA
33687324 AAC
1 AAC
33687327 ACCAGCCCTT
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.06
7 77 0.74
8 21 0.20
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCTTA
Found at i:33687431 original size:21 final size:21
Alignment explanation
Indices: 33687388--33687433 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
33687378 CCTAAAACCC
* **
33687388 TAAACCATATACCCTAATTTA
1 TAAACCATAAACCCTAAACTA
*
33687409 TAAACCGTAAACCCTAAACTA
1 TAAACCATAAACCCTAAACTA
33687430 TAAA
1 TAAA
33687434 GAAAATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAACCATAAACCCTAAACTA
Found at i:33687563 original size:21 final size:21
Alignment explanation
Indices: 33687538--33687587 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
33687528 AACCCTAAAC
*
33687538 CCATAATCCCT-AATCCATAAT
1 CCATAAACCCTGAAT-CATAAT
*
33687559 CCATAAACCCTGAATCATAAA
1 CCATAAACCCTGAATCATAAT
*
33687580 ACATAAAC
1 CCATAAAC
33687588 TCTAAACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (21 bp):
CCATAAACCCTGAATCATAAT
Found at i:33688278 original size:13 final size:12
Alignment explanation
Indices: 33688249--33688279 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33688239 GCGTTTTTAA
33688249 TAAAAACGCCAC
1 TAAAAACGCCAC
*
33688261 TAAAAACGCCGC
1 TAAAAACGCCAC
33688273 TAAAAAC
1 TAAAAAC
33688280 CTATTTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.29, G:0.10, T:0.10
Consensus pattern (12 bp):
TAAAAACGCCAC
Found at i:33692401 original size:54 final size:54
Alignment explanation
Indices: 33692307--33692411 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
33692297 TTTAGTGTAT
* * * *
33692307 CAAGTCAGTGTGTTACACGACCTAGCACACGACCTACGACATGGCCGTGTGTCG
1 CAAGTCAGAGAGTTACACGACCTAGCACACGACCTACGACACGGCCATGTGTCG
** * * * *
33692361 CAAGTCAGAGAGTTACACGGTCTGGCACACGGCTTGCGACACGGCCATGTG
1 CAAGTCAGAGAGTTACACGACCTAGCACACGACCTACGACACGGCCATGTG
33692412 ACCCTACTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.19
Consensus pattern (54 bp):
CAAGTCAGAGAGTTACACGACCTAGCACACGACCTACGACACGGCCATGTGTCG
Found at i:33695033 original size:40 final size:39
Alignment explanation
Indices: 33694940--33695167 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 39
33694930 ATGATGTCCG
* * * *
33694940 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC-C
*
33694980 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
33695019 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
33695059 AGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
33695098 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* * * *
33695138 GGGCTATGTCCCAAAGGCATTCGAGCGAGT
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGT
33695168 AGCTATATTC
Statistics
Matches: 163, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 36 0.22
40 117 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:33695130 original size:79 final size:80
Alignment explanation
Indices: 33694936--33695167 Score: 283
Period size: 80 Copynumber: 2.9 Consensus size: 80
33694926 TCGAATGATG
* * * *
33694936 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
33695000 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * * *
33695016 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCGTT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* *
33695080 TGTGCGAGTTATTATA
65 TGTGCGAGTTACTAAA
* *
33695096 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA-CCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
* *
33695159 CGAGCGAGT
65 TGTGCGAGT
33695168 AGCTATATTC
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.45
80 62 0.48
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:33695155 original size:119 final size:120
Alignment explanation
Indices: 33694940--33695167 Score: 302
Period size: 119 Copynumber: 1.9 Consensus size: 120
33694930 ATGATGTCCG
* *
33694940 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCTGGGTTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
* * * *
33695005 GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCA
66 AAGTTACTAAATCCGGACTAAGATCCAAAGGCATTCGAGCGAGTTACTAAATCCA
* * *
33695060 GGCTAAGTCCCGAAGGCGTTTGTGC-GAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* *
33695123 CAAGTTACTATAA-CCGGGCTATG-TCCCAAAGGCATTCGAGCGAGT
65 CAAGTTACTA-AATCCGGACTAAGAT-CCAAAGGCATTCGAGCGAGT
33695168 AGCTATATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 59 0.63
120 27 0.29
121 7 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
AAGTTACTAAATCCGGACTAAGATCCAAAGGCATTCGAGCGAGTTACTAAATCCA
Found at i:33697975 original size:27 final size:23
Alignment explanation
Indices: 33697920--33697965 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33697910 TCAATTTAAG
33697920 TCAATAAAACCTTTACAAACAAT
1 TCAATAAAACCTTTACAAACAAT
33697943 TCAATAAAACCTTTACAAACAAT
1 TCAATAAAACCTTTACAAACAAT
33697966 CATTCCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (23 bp):
TCAATAAAACCTTTACAAACAAT
Found at i:33701557 original size:16 final size:16
Alignment explanation
Indices: 33701536--33701568 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33701526 ACATACGCAT
*
33701536 ATATATCACATTACAC
1 ATATATCACAATACAC
33701552 ATATATCACAATACAC
1 ATATATCACAATACAC
33701568 A
1 A
33701569 CAATCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
ATATATCACAATACAC
Found at i:33703722 original size:29 final size:29
Alignment explanation
Indices: 33703659--33703728 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
33703649 AAAGAGTATA
* *
33703659 TGACAAAATTTCTGAAATTAAAAGTAGAG
1 TGACTAAATTTCTAAAATTAAAAGTAGAG
*
33703688 TGACTAAATTTCTAAAATTAAAAGTAGTG
1 TGACTAAATTTCTAAAATTAAAAGTAGAG
33703717 AT-ACTAAATTTC
1 -TGACTAAATTTC
33703729 AATTGCGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (29 bp):
TGACTAAATTTCTAAAATTAAAAGTAGAG
Found at i:33704004 original size:4 final size:4
Alignment explanation
Indices: 33703995--33704021 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33703985 AGTACAATAA
33703995 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
33704022 ATCAAGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:33709943 original size:33 final size:33
Alignment explanation
Indices: 33709906--33709973 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
33709896 TTAAATAAAG
*
33709906 TATGGGTCAAATATGTGTAGATACTCTAGTAAC
1 TATGGGTCAAATATATGTAGATACTCTAGTAAC
33709939 TATGGGTCAAATATATGTAGATACTCTAGTAAC
1 TATGGGTCAAATATATGTAGATACTCTAGTAAC
33709972 TA
1 TA
33709974 ATTTCTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
TATGGGTCAAATATATGTAGATACTCTAGTAAC
Found at i:33712977 original size:46 final size:46
Alignment explanation
Indices: 33712927--33713102 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
33712917 TGGTTGAGCA
33712927 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33712973 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33713018 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33713066 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33713103 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33713083 original size:93 final size:93
Alignment explanation
Indices: 33712924--33713095 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33712914 GGATGGTTGA
* *
33712924 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33712989 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33713017 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33713082 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33713096 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33720614 original size:45 final size:46
Alignment explanation
Indices: 33720451--33720625 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
33720441 TGGTTGAGCA
*
33720451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
33720497 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
33720542 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
33720590 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33720626 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:33722242 original size:13 final size:13
Alignment explanation
Indices: 33722224--33722259 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
33722214 ATCCTTCCCT
33722224 AAAAGAACCATTC
1 AAAAGAACCATTC
33722237 AAAAGAACCATTC
1 AAAAGAACCATTC
33722250 AAAAGAACCA
1 AAAAGAACCA
33722260 ATCAGTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.58, C:0.22, G:0.08, T:0.11
Consensus pattern (13 bp):
AAAAGAACCATTC
Found at i:33723331 original size:24 final size:25
Alignment explanation
Indices: 33723303--33723358 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
33723293 TAGAACTCTT
33723303 ATTAAAGT-AATCTCTCAAGAACAA
1 ATTAAAGTCAATCTCTCAAGAACAA
33723327 ATT-AAGTGCCCAATCTCTCAAGAACAA
1 ATTAAAGT---CAATCTCTCAAGAACAA
*
33723354 GTTAA
1 ATTAA
33723359 GTACCGAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 4 0.15
24 3 0.12
27 18 0.69
28 1 0.04
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (25 bp):
ATTAAAGTCAATCTCTCAAGAACAA
Found at i:33726614 original size:87 final size:87
Alignment explanation
Indices: 33726468--33726641 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
33726458 TTTGGCTCTG
*
33726468 CTATCAAGTTTCAGTGTTTCCTTTTCTTTCTCTTTGAGGACGAATATATATTTTTCATCTAACAA
1 CTATCAAGTTTCAGTGTTCCCTTTTCTTTCTCTTTGAGGACGAATATATATTTTTCATCTAACAA
33726533 CTTATGATCTGCCAAGTCATGC
66 CTTATGATCTGCCAAGTCATGC
* *
33726555 CTATCAAGTTTCGGTGTTCCCTTTTCTTTCTCTTTGAGGATGAATATATATTTTTCATCTAACAA
1 CTATCAAGTTTCAGTGTTCCCTTTTCTTTCTCTTTGAGGACGAATATATATTTTTCATCTAACAA
33726620 CTTATGATCTGCCAAGTCATGC
66 CTTATGATCTGCCAAGTCATGC
33726642 TAAGAGTGTG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (87 bp):
CTATCAAGTTTCAGTGTTCCCTTTTCTTTCTCTTTGAGGACGAATATATATTTTTCATCTAACAA
CTTATGATCTGCCAAGTCATGC
Found at i:33728811 original size:43 final size:43
Alignment explanation
Indices: 33728656--33728814 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
33728646 TGTGTTATCG
* *
33728656 TGTAAGACCACGTCTAGGACGTTGGCATT-A-ATTTGAGATCTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTT--GAT-TACA
* * * * * * * *
33728700 TGTAAGACCATGTCTGGGACATCGACATCG-TATATAATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
** * *
33728742 TGTAAGACCTTGTGTGGGATAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATTGATATTTGATTACA
33728785 TGTAAGACCACGTCTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTG
33728815 TACAAGCTTT
Statistics
Matches: 86, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
42 25 0.29
43 35 0.41
44 23 0.27
45 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:33730700 original size:89 final size:91
Alignment explanation
Indices: 33730535--33730706 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 91
33730525 TTGGCACCTG
* ** *
33730535 AACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTTGGTCCAATTTGGTACTCAATTT
1 AACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTTGGGGTCCAATTTGGTACTCAATCT
33730600 TGACACTTTTT-CTAATTATGGCCTA
66 TGACACTTTTTCCTAATTATGGCCTA
* * * *
33730625 AACTTGACACTTTTTCTTAAGTTGGTACTTAATC-TTTTTTGGGGTCCAATTTGGTACCTTAA-C
1 AACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTTGGGGTCCAATTTGGTA-CTCAATC
*
33730688 TTGTCACTTTTTCCTAATT
65 TTGACACTTTTTCCTAATT
33730707 TGGTACCTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (91 bp):
AACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTTTGGGGTCCAATTTGGTACTCAATCT
TGACACTTTTTCCTAATTATGGCCTA
Found at i:33735714 original size:50 final size:50
Alignment explanation
Indices: 33735639--33735739 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
33735629 AATGCCTGGG
33735639 TAATGGATTTCCTACCACATTAGGTCCTGAGGGATCATCAAACCTTACAA
1 TAATGGATTTCCTACCACATTAGGTCCTGAGGGATCATCAAACCTTACAA
* * *
33735689 TAATGGATTTCTTGCCATATTAGGTCCTGAGGGATCATCAAACCTTACAA
1 TAATGGATTTCCTACCACATTAGGTCCTGAGGGATCATCAAACCTTACAA
33735739 T
1 T
33735740 CTTCATCTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (50 bp):
TAATGGATTTCCTACCACATTAGGTCCTGAGGGATCATCAAACCTTACAA
Found at i:33739274 original size:42 final size:42
Alignment explanation
Indices: 33739215--33739300 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
33739205 CGGGATTCCA
33739215 ATACTGGGCAAGAGCTCGAAATA-GATGCTTATCCACTTTGAC
1 ATACTGGGCAAGAGCTCGAAATACG-TGCTTATCCACTTTGAC
*
33739257 ATACTGGGCAAGAGCTCGGAATACGTGCTTATCCACTTTGAC
1 ATACTGGGCAAGAGCTCGAAATACGTGCTTATCCACTTTGAC
33739299 AT
1 AT
33739301 CAAGTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (42 bp):
ATACTGGGCAAGAGCTCGAAATACGTGCTTATCCACTTTGAC
Found at i:33741258 original size:28 final size:28
Alignment explanation
Indices: 33741227--33741296 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
33741217 TATGGCATTC
* * *
33741227 AGTGTACGAAATATTGAGAATGGCGCTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
33741255 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
33741283 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
33741297 CGAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:33741737 original size:21 final size:22
Alignment explanation
Indices: 33741706--33741746 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33741696 GAATGTATTG
*
33741706 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
33741728 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
33741747 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:33745784 original size:18 final size:18
Alignment explanation
Indices: 33745763--33745797 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33745753 TAACCCACCA
33745763 AAAACAAAAAAAAATAAT
1 AAAACAAAAAAAAATAAT
* *
33745781 AAAACCAAATAAAATAA
1 AAAACAAAAAAAAATAA
33745798 GTTAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACAAAAAAAAATAAT
Found at i:33750745 original size:25 final size:24
Alignment explanation
Indices: 33750711--33750812 Score: 80
Period size: 25 Copynumber: 3.9 Consensus size: 24
33750701 CAATGAAAAC
33750711 CACTCAATTATTGTTTATTTTTTGT
1 CACTCAATTATTGTTT-TTTTTTGT
*
33750736 CACTCAATTATATATATATTTTTATTTTGGT
1 CACTC-A--AT-TAT-TGTTTTT-TTTT-GT
* *
33750767 TACTCAATTATTG-TCTTTTTTGT
1 CACTCAATTATTGTTTTTTTTTGT
*
33750790 CACCCAATTATTAGTTTTTTTTT
1 CACTCAATTATT-GTTTTTTTTT
33750813 AATTCGTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
23 12 0.20
24 5 0.08
25 15 0.25
26 2 0.03
27 3 0.05
28 4 0.07
29 5 0.08
30 9 0.15
31 6 0.10
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.58
Consensus pattern (24 bp):
CACTCAATTATTGTTTTTTTTTGT
Found at i:33750786 original size:23 final size:24
Alignment explanation
Indices: 33750760--33750810 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
33750750 TATATTTTTA
* *
33750760 TTTTGGTTACTCAATTATT-GTCT
1 TTTTGGTCACCCAATTATTAGTCT
* *
33750783 TTTTTGTCACCCAATTATTAGTTT
1 TTTTGGTCACCCAATTATTAGTCT
33750807 TTTT
1 TTTT
33750811 TTAATTCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.18, C:0.14, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTTGGTCACCCAATTATTAGTCT
Found at i:33757069 original size:29 final size:29
Alignment explanation
Indices: 33757036--33757100 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
33757026 GTGACGAGAT
33757036 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
33757065 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
33757094 CGGCACT
1 TGGCACT
33757101 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:33763756 original size:19 final size:17
Alignment explanation
Indices: 33763727--33763777 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
33763717 ATAAAGAAAT
33763727 GAAAA-AAAAAAAAAGA
1 GAAAAGAAAAAAAAAGA
*
33763743 GAATATGAAGAAAAACAA-A
1 GAA-AAGAA-AAAAA-AAGA
33763762 GAAAAGAAAAAAAAAG
1 GAAAAGAAAAAAAAAG
33763778 TGTTCATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 6 0.21
19 9 0.32
20 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
GAAAAGAAAAAAAAAGA
Found at i:33765010 original size:30 final size:29
Alignment explanation
Indices: 33764938--33765002 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
33764928 TGACGAGATT
* *
33764938 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
33764967 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
33764997 GGCACT
1 GGCACT
33765003 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:33766463 original size:39 final size:40
Alignment explanation
Indices: 33766409--33766487 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
33766399 CAGCCTGTCT
33766409 GGAAATGCCAAATTGGTTGGTACC-TGAGAGGATTTGGCC
1 GGAAATGCCAAATTGGTTGGTACCTTGAGAGGATTTGGCC
33766448 GGAAATGCCAAATTGGTTGGTACCTTGAGAGGATTTGGCC
1 GGAAATGCCAAATTGGTTGGTACCTTGAGAGGATTTGGCC
33766488 CGTTAACCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 24 0.62
40 15 0.38
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (40 bp):
GGAAATGCCAAATTGGTTGGTACCTTGAGAGGATTTGGCC
Found at i:33770539 original size:34 final size:34
Alignment explanation
Indices: 33770493--33770623 Score: 131
Period size: 34 Copynumber: 3.9 Consensus size: 34
33770483 TGATAAACAT
* *
33770493 TTGCTACTATATTGAAT-TGTTATAAGCATATTAA
1 TTGCTACCATATTG-ATCTATTATAAGCATATTAA
* **
33770527 TTGCTACCATATTGATCTATTATAAGCATACTGT
1 TTGCTACCATATTGATCTATTATAAGCATATTAA
* *
33770561 TTGCTACTATATTGATCTATTAT-AGACGTATTAA
1 TTGCTACCATATTGATCTATTATAAG-CATATTAA
* * * *
33770595 TGGCTATCGTATTGATCTGTTATAAGCAT
1 TTGCTACCATATTGATCTATTATAAGCAT
33770624 GTCATATTGC
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
33 4 0.05
34 72 0.92
35 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (34 bp):
TTGCTACCATATTGATCTATTATAAGCATATTAA
Found at i:33770608 original size:68 final size:68
Alignment explanation
Indices: 33770492--33770623 Score: 178
Period size: 68 Copynumber: 1.9 Consensus size: 68
33770482 ATGATAAACA
* *
33770492 TTTGCTACTATATTGAATTGTTATAAGCATATTAATTGCTACCATATTGATCTATTATAAGCATA
1 TTTGCTACTATATTGAATTATTATAAGCATATTAATGGCTACCATATTGATCTATTATAAGCATA
33770557 CTG
66 CTG
* * * *
33770560 TTTGCTACTATATTG-ATCTATTAT-AGACGTATTAATGGCTATCGTATTGATCTGTTATAAGCA
1 TTTGCTACTATATTGAAT-TATTATAAG-CATATTAATGGCTACCATATTGATCTATTATAAGCA
33770623 T
64 T
33770624 GTCATATTGC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 4 0.07
68 52 0.93
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (68 bp):
TTTGCTACTATATTGAATTATTATAAGCATATTAATGGCTACCATATTGATCTATTATAAGCATA
CTG
Found at i:33772114 original size:17 final size:19
Alignment explanation
Indices: 33772072--33772115 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33772062 ATGAAATTTT
*
33772072 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33772091 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33772109 AA-TATTA
1 AATTATTA
33772116 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33773790 original size:20 final size:21
Alignment explanation
Indices: 33773753--33773792 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33773743 CGTACTTCAG
*
33773753 AAAAATGGGCCTCGATGGGCC
1 AAAAATGGGCCTCAATGGGCC
*
33773774 AAAATTGGGCC-CAATGGGC
1 AAAAATGGGCCTCAATGGGC
33773793 TTACGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15
Consensus pattern (21 bp):
AAAAATGGGCCTCAATGGGCC
Found at i:33773940 original size:28 final size:28
Alignment explanation
Indices: 33773908--33773962 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
33773898 CGTAGATCAC
33773908 GAAATTACCCCTAAAGAGAAAAATTACT
1 GAAATTACCCCTAAAGAGAAAAATTACT
*
33773936 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGAAAAATTAC
33773963 CGATATACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGAAAAATTACT
Found at i:33779004 original size:16 final size:18
Alignment explanation
Indices: 33778969--33779006 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
33778959 GATAATGATA
*
33778969 ATTCATTCCAAGTATTTT
1 ATTCATTCCAACTATTTT
33778987 ATTCA-TCCAACT-TTTT
1 ATTCATTCCAACTATTTT
33779003 ATTC
1 ATTC
33779007 TCTCCCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTCATTCCAACTATTTT
Found at i:33780387 original size:62 final size:62
Alignment explanation
Indices: 33780285--33780411 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 62
33780275 GTCATGTGAG
* * * * * * *
33780285 CCATACGGACAAGGACATGGGCGTCTGTCTAGTCCGTGTAACTCACTGTTTATGCTTTAGAA
1 CCATACGGACAAGGACATCGGCGTCTGCCCAGGCCATGTAACTCACTATTTATGATTTAGAA
*
33780347 CCATAC-GACCAAGGACATCGGCGTGTGCCCAGGCCATGTAACTCACTATTTATGATTTAGAA
1 CCATACGGA-CAAGGACATCGGCGTCTGCCCAGGCCATGTAACTCACTATTTATGATTTAGAA
33780409 CCA
1 CCA
33780412 CACAGGTAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 2 0.04
62 54 0.96
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (62 bp):
CCATACGGACAAGGACATCGGCGTCTGCCCAGGCCATGTAACTCACTATTTATGATTTAGAA
Found at i:33782594 original size:68 final size:66
Alignment explanation
Indices: 33782522--33782688 Score: 169
Period size: 67 Copynumber: 2.5 Consensus size: 66
33782512 CATCATGTGT
* * * *
33782522 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
33782585 TGTAG
62 TGTAG
** * *
33782590 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
33782655 AG
65 AG
* * *
33782657 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTC
33782689 ATATGGGTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
64 24 0.28
65 3 0.04
66 13 0.15
67 32 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:33782627 original size:64 final size:64
Alignment explanation
Indices: 33782546--33782729 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
33782536 AGACATTATG
* * *
33782546 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
33782610 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
33782675 AA
63 AA
* ** *
33782677 AT-TGGCTAGGTCATATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
33782730 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:33784903 original size:35 final size:35
Alignment explanation
Indices: 33784862--33784940 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
33784852 TCTGTTCTAC
* * *
33784862 TCTGTTCTGT-TCTGCTCTACTCTGTTTCATTCTGT
1 TCTGTTCTGTAT-TGCTCTACTCTATTCCATCCTGT
* * *
33784897 TTTGTTCAGTATTGCTCTGCTCTATTCCATCCTGT
1 TCTGTTCTGTATTGCTCTACTCTATTCCATCCTGT
33784932 TCTGTTCTG
1 TCTGTTCTG
33784941 CTCTATTCGG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.15, T:0.52
Consensus pattern (35 bp):
TCTGTTCTGTATTGCTCTACTCTATTCCATCCTGT
Found at i:33787073 original size:9 final size:8
Alignment explanation
Indices: 33787053--33787090 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
33787043 AAAAAAGTAC
33787053 AAAAAAAT
1 AAAAAAAT
*
33787061 -AAAATAT
1 AAAAAAAT
33787068 GAAAAAAAT
1 -AAAAAAAT
33787077 AAAAAAAT
1 AAAAAAAT
33787085 AAAAAA
1 AAAAAA
33787091 TTCTATGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:33798535 original size:18 final size:18
Alignment explanation
Indices: 33798514--33798583 Score: 83
Period size: 17 Copynumber: 4.0 Consensus size: 18
33798504 GGTTTTTTTA
33798514 AGTTTAGGGTTTTTAGTG
1 AGTTTAGGGTTTTTAGTG
*
33798532 AGTTTAGGG--TTTAGGG
1 AGTTTAGGGTTTTTAGTG
* *
33798548 TTGTTTAGGGTTTTTAATG
1 -AGTTTAGGGTTTTTAGTG
33798567 -GTTTAGGGTTTTTAGTG
1 AGTTTAGGGTTTTTAGTG
33798584 TTTTTTAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.14
17 24 0.55
18 9 0.20
19 5 0.11
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (18 bp):
AGTTTAGGGTTTTTAGTG
Found at i:33798580 original size:9 final size:9
Alignment explanation
Indices: 33798516--33798588 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
33798506 TTTTTTTAAG
33798516 TTTAGGGTT
1 TTTAGGGTT
* **
33798525 TTTAGTGAG
1 TTTAGGGTT
33798534 TTTAGGG--
1 TTTAGGGTT
33798541 TTTAGGGTT
1 TTTAGGGTT
33798550 GTTTAGGGTT
1 -TTTAGGGTT
*
33798560 TTTAATGG--
1 TTT-AGGGTT
33798568 TTTAGGGTT
1 TTTAGGGTT
*
33798577 TTTAGTGTT
1 TTTAGGGTT
33798586 TTT
1 TTT
33798589 TAAGGGAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 10 0.20
8 3 0.06
9 26 0.51
10 12 0.24
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.55
Consensus pattern (9 bp):
TTTAGGGTT
Found at i:33798745 original size:137 final size:133
Alignment explanation
Indices: 33798556--33798856 Score: 428
Period size: 137 Copynumber: 2.2 Consensus size: 133
33798546 GGTTGTTTAG
* *
33798556 GGTTTTTAATGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGA
1 GGTTTTTAATGGTTTAGGG-TTTTAGGGTTTTTTAAAGGAAAAATTAATGAACACTTAGAGTTGA
33798621 GGGTTAATTAATTAAATTAACTATGAGAATAAAATAAATAAATTAAATTAGGGTTTCAAGTTTTT
65 GGGTTAATTAATTAAATTAACTATGAGAAT---A-AAA-AAATTAAATTAGGGTTTCAAGTTTTT
*
33798686 TAAGGTT-A
125 TAAGATTAA
* *
33798694 GGTTTTTAGTGGTTTAGGGTTTTAGGGTTTTTTAAAGGAGAAATTAATGAACACTTAGAGTTGAG
1 GGTTTTTAATGGTTTAGGGTTTTAGGGTTTTTTAAAGGAAAAATTAATGAACACTTAGAGTTGAG
* *
33798759 GGTTAATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGGTTTTAGGTTTTTTAAGAT
66 GGTTAATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGGTTTCAAGTTTTTTAAGAT
33798824 TAA
131 TAA
* * *
33798827 GGTTTCTGATTGTTTTAGGG--TTAGGGTTTT
1 GGTTT-TTAATGGTTTAGGGTTTTAGGGTTTT
33798857 AGTGGTTTAG
Statistics
Matches: 151, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
132 40 0.26
133 9 0.06
134 12 0.08
137 72 0.48
138 18 0.12
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (133 bp):
GGTTTTTAATGGTTTAGGGTTTTAGGGTTTTTTAAAGGAAAAATTAATGAACACTTAGAGTTGAG
GGTTAATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGGTTTCAAGTTTTTTAAGAT
TAA
Found at i:33798873 original size:8 final size:8
Alignment explanation
Indices: 33798838--33798888 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
33798828 GTTTCTGATT
33798838 GTTTTAGG
1 GTTTTAGG
33798846 G--TTAGG
1 GTTTTAGG
33798852 GTTTTAGTG
1 GTTTTAG-G
33798861 G-TTTAGG
1 GTTTTAGG
*
33798868 GTTTTAAG
1 GTTTTAGG
*
33798876 GTTTTAAG
1 GTTTTAGG
33798884 GTTTT
1 GTTTT
33798889 TTAAGGGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.16
7 2 0.05
8 28 0.74
9 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (8 bp):
GTTTTAGG
Found at i:33798946 original size:164 final size:161
Alignment explanation
Indices: 33798698--33799119 Score: 572
Period size: 164 Copynumber: 2.6 Consensus size: 161
33798688 AGGTTAGGTT
* * *
33798698 TTTAGTGGTTTAGGGTTTTAGGGTTTTTTAAAGGAGAAATTAATGAACACTTAGAGTTGAGGGTT
1 TTTAG-GGTTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTT
*
33798763 AATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGGTTTTAGGTTTTTTAAGATTAAG
65 AATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGG-TTTAGGGTTTTT-AGATTAAG
33798828 GTTTCTGATTGTTTTAGGGTTAGGGTTTTAGTGG
128 GTTTCTGATTGTTTTAGGGTTAGGGTTTTAGTGG
33798862 TTTAGGGTTTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTT
1 TTTAGGG-TTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTT
* *
33798927 AATTAATTAAATTAACTATGAAGATAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTTTTAGGT
65 AATTAATTAAATTAACTATG-AG--AA-TAAAAA--AATTAAATTAGGGTTTAGGGTTTTTAGAT
* *
33798992 TAGGGTTTTTGATTGTTTTAGGGTTAGGGTTTTAGTGG
124 TAAGGTTTCTGATTGTTTTAGGGTTAGGGTTTTAGTGG
* * *
33799030 TTTAGGG----A--TTTT-AGTGCTTTTTAAGGGA-AAACTAATGAACACTTAGAGTTGAGGGTA
1 TTTAGGGTTTAAGGTTTTAAG-GTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTT
*
33799087 AATTAATTAAATTAACTATGAAAATAAGAAAAA
65 AATTAATTAAATTAACTATGAGAATAA-AAAAA
33799120 ACAAATTAAA
Statistics
Matches: 236, Mismatches: 13, Indels: 27
0.86 0.05 0.10
Matches are distributed among these distances:
155 2 0.01
156 2 0.01
157 5 0.02
159 1 0.00
160 49 0.21
161 16 0.07
163 3 0.01
164 79 0.33
165 2 0.01
167 2 0.01
168 51 0.22
169 11 0.05
170 13 0.06
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (161 bp):
TTTAGGGTTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTTA
ATTAATTAAATTAACTATGAGAATAAAAAAATTAAATTAGGGTTTAGGGTTTTTAGATTAAGGTT
TCTGATTGTTTTAGGGTTAGGGTTTTAGTGG
Found at i:33799043 original size:17 final size:15
Alignment explanation
Indices: 33799006--33799045 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
33798996 GTTTTTGATT
33799006 GTTTTAG-GGTTAGG
1 GTTTTAGTGGTTAGG
33799020 GTTTTAGTGGTTTAGG
1 GTTTTAGTGG-TTAGG
33799036 GATTTTAGTG
1 G-TTTTAGTG
33799046 CTTTTTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 6 0.26
17 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (15 bp):
GTTTTAGTGGTTAGG
Found at i:33799116 original size:160 final size:160
Alignment explanation
Indices: 33798683--33799140 Score: 624
Period size: 160 Copynumber: 2.8 Consensus size: 160
33798673 GTTTCAAGTT
* * * *
33798683 TTTTAAGGTTAGGTTTTTAGTGGTTTAGGGTTTTAGGGTTTTTTAAAGGAGAAATTAATGAACAC
1 TTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAGAAATTAATGAACAC
*
33798748 TTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAGAAT----AAAAA-AATTAAATTAGGGTT
66 TTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAACAATTAAATTAGGG-T
*
33798808 TTAGGTTTTTTAAGATTAAGGTTTCTGATTG
130 TTAGGGTTTTTAAGATTAAGGTTTCTGATTG
33798839 TTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTA
1 TTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTT-A-G---T---GTTTTTTAAGGGAGAAATTA
*
33798904 ATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAGATAAGAAAAAATCAATTAA
58 ATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAA-CAATTAA
* * *
33798969 ATTAGGGTTTAGGGTTTTT-AGGTTAGGGTTTTTGATTG
122 ATTAGGGTTTAGGGTTTTTAAGATTAAGGTTTCTGATTG
* *
33799007 TTTTAGGGTTAGGGTTTTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGGA-AAACTAATGAACA
1 TTTTAGGGTTAGGGTTTTAGTGGTTTAGGG-TTTTAGTGTTTTTTAAGGGAGAAATTAATGAACA
* *
33799071 CTTAGAGTTGAGGGTAAATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGG
65 CTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAC-AATTAAATTAGGG
*
33799136 CTTAG
129 TTTAG
33799141 TCGTTTAGGG
Statistics
Matches: 270, Mismatches: 16, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
156 32 0.12
157 1 0.00
158 1 0.00
159 1 0.00
160 76 0.28
161 12 0.04
164 66 0.24
167 1 0.00
168 52 0.19
169 15 0.06
170 13 0.05
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (160 bp):
TTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTAGTGTTTTTTAAGGGAGAAATTAATGAACAC
TTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAACAATTAAATTAGGGTT
TAGGGTTTTTAAGATTAAGGTTTCTGATTG
Found at i:33799213 original size:273 final size:262
Alignment explanation
Indices: 33798870--33799372 Score: 663
Period size: 273 Copynumber: 1.9 Consensus size: 262
33798860 GGTTTAGGGT
*
33798870 TTTAAGGTTTTAAGGTTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
1 TTTAAGGTTTTAAGGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
* * * *
33798935 AAATTAACTATGAAGATAAGAAAAAATCAATTAAATTAGGGTTT-AGGGTTTTTAGGTTAGGGTT
66 AAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGGTTTAATGG----T---TTAGGGTT
* **
33798999 TTTGATTGTTTTAGGGTTAGGGTTTTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGG-AAAACT
124 TTT-AATGACTTAGGGTT----TTTTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGGAAAAACT
*
33799063 AATGAACACTTAGAGTTGAGGGTAAATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTA
184 AATGAA-A-TTAGAGTTAAGGGTAAATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTA
33799128 AACTAGGGCTTAGTCG
247 AACTAGGGCTTAGTCG
* * **
33799144 TTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTGAGGGTTAATTAAT
1 TTTAAGGTTTTAAG-GTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAAT
33799207 TAAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGGTTTAATGGTTTAGGGTTTTTAAT
65 TAAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGGTTTAATGGTTTAGGGTTTTTAAT
* * * * **
33799272 GACTTAGGGTTTTTTGGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAG
130 GACTTAGGGTTTTTTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGGAAAAACTAATGAAATTAG
*
33799337 AGTTAAGGGTTAATTAATTAAATTAACTATGAAAAT
195 AGTTAAGGGTAAATTAATTAAATTAACTATGAAAAT
33799373 TAAAAAATTA
Statistics
Matches: 206, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
261 38 0.18
262 34 0.17
263 9 0.04
266 11 0.05
267 11 0.05
270 1 0.00
273 64 0.31
274 16 0.08
275 22 0.11
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (262 bp):
TTTAAGGTTTTAAGGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
AAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGGTTTAATGGTTTAGGGTTTTTAATG
ACTTAGGGTTTTTTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGGAAAAACTAATGAAATTAGA
GTTAAGGGTAAATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGGCTTAGT
CG
Found at i:33799222 original size:113 final size:114
Alignment explanation
Indices: 33799023--33799269 Score: 381
Period size: 113 Copynumber: 2.2 Consensus size: 114
33799013 GGTTAGGGTT
*
33799023 TTAGTGGTTTAGGGATTTTAGTGCTTTTTAAGGGAAAACTAATGAACACTTAGAGTTGAGGGTAA
1 TTAGTGGTTTAGGGTTTTTAGTGCTTTTTAAGGGAAAACTAATGAACACTTAGAGTTGAGGGTAA
33799088 ATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGGC
66 ATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGGC
* * * ** *
33799137 TTAGTCGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTGAGGGTT
1 TTAGTGGTTTAGGGTTTTTAGTGCTTTTTAAGGG-AAAACTAATGAACACTTAGAGTTGAGGGTA
* *
33799200 AATTAATTAAATTAACTATGAAAATAAGAAAAAATAAATTAAACTAGGGT
65 AATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGGC
*
33799250 TTAATGGTTTAGGGTTTTTA
1 TTAGTGGTTTAGGGTTTTTA
33799270 ATGACTTAGG
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
113 80 0.66
114 32 0.26
115 9 0.07
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (114 bp):
TTAGTGGTTTAGGGTTTTTAGTGCTTTTTAAGGGAAAACTAATGAACACTTAGAGTTGAGGGTAA
ATTAATTAAATTAACTATGAAAATAAGAAAAAACAAATTAAACTAGGGC
Found at i:33799271 original size:17 final size:17
Alignment explanation
Indices: 33799249--33799304 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
33799239 TAAACTAGGG
33799249 TTTAATGGTTTAGGGTT
1 TTTAATGGTTTAGGGTT
**
33799266 TTTAATGACTTAGGGTTT
1 TTTAATGGTTTAGGG-TT
**
33799284 TTTGGTGGTTTAGGGTT
1 TTTAATGGTTTAGGGTT
33799301 TTTA
1 TTTA
33799305 GTGTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.54
Consensus pattern (17 bp):
TTTAATGGTTTAGGGTT
Found at i:33799673 original size:129 final size:126
Alignment explanation
Indices: 33799443--33799746 Score: 520
Period size: 129 Copynumber: 2.4 Consensus size: 126
33799433 TTAATTACGG
*
33799443 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGAT
1 AAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGAT
*
33799508 GTTTCTGAACAAATAATGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAAAATTTCGGGAA
66 GTTTCTGAACAAATAATGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAAAATTAC---AA
* *
33799572 AAAAAAGCTTCCACGTAGACGCTCTTGTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGAT
1 AAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGAT
* *
33799637 GTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAAAATTACAG
66 GTTTCTGAACAAATAATGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAAAATTACAA
33799698 AAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGA-AAAA
1 AAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGATAAAA
33799747 GCCTTAGACT
Statistics
Matches: 167, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
125 4 0.02
126 44 0.26
129 119 0.71
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGAT
GTTTCTGAACAAATAATGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAAAATTACAA
Found at i:33801077 original size:64 final size:64
Alignment explanation
Indices: 33801004--33801220 Score: 152
Period size: 64 Copynumber: 3.3 Consensus size: 64
33800994 CTGGGCCAGA
* *
33801004 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
** ***** * ** *
33801068 GCCCATTTCAAAATACACGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTAC
1 GCCCATTTCAAAATACA-ATAA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA-
* *
33801131 TGGGCCAGA-
55 TGGCCCATAG
* * *
33801140 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
33801204 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
33801221 TGCAACATCA
Statistics
Matches: 105, Mismatches: 34, Indels: 28
0.63 0.20 0.17
Matches are distributed among these distances:
63 7 0.07
64 32 0.30
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 17 0.16
73 7 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:33801214 original size:136 final size:136
Alignment explanation
Indices: 33800970--33801254 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
33800960 TATTGGGCCT
**
33800970 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
33801035 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
33801100 ATATGC
131 ATATGC
*
33801106 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
33801171 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
33801236 ATATGC
131 ATATGC
*
33801242 AACCCCATTTGGG
1 AAGCCCATTTGGG
33801255 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
ATATGC
Found at i:33801290 original size:21 final size:21
Alignment explanation
Indices: 33801261--33801308 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33801251 TGGGGAGACT
*
33801261 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
33801282 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
33801303 ACTCCA
1 ACTCCA
33801309 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:33801530 original size:26 final size:26
Alignment explanation
Indices: 33801501--33801553 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
33801491 TCAAACATGC
33801501 ATTTAGGTAAATTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
33801527 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
33801553 A
1 A
33801554 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:33803069 original size:26 final size:26
Alignment explanation
Indices: 33803033--33803116 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
33803023 CATGAAATTC
33803033 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33803059 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
33803085 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
33803111 TTATCA
1 TTATCA
33803117 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33804475 original size:3 final size:3
Alignment explanation
Indices: 33804462--33804683 Score: 65
Period size: 3 Copynumber: 71.3 Consensus size: 3
33804452 TTAAGACCTT
* * *
33804462 TAA TGA TAA TAA TATA TAGA TAA AAA TATA TAA TAA TACA -AA -AA TGACT
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TA-A TAA TAA TA-A TAA TAA T-A-A
* *
33804511 TAA TAA TATA TAA -AA TAA TTA TAA T-A TAA T-A TAA -AA TCA T-A
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33804552 TATA TAA AAA TAA TATA TAA TATA TAA TAA -ACA T-A TAA T-A TAA TAA
1 TA-A TAA TAA TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
* ** * *
33804598 TATA TAAA TAA TGA TGCAA -AA TAA TAA TAA CTTG TGAA GAA TAA CATA
1 TA-A T-AA TAA TAA T--AA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A
33804646 TAA TGAA TAA TAA TAA T-A TAAA TAA TATA TAA -AA TAA T
1 TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA T
33804684 TTTATAATAT
Statistics
Matches: 165, Mismatches: 22, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
2 24 0.15
3 99 0.60
4 39 0.24
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33804570 original size:50 final size:51
Alignment explanation
Indices: 33804511--33804608 Score: 114
Period size: 50 Copynumber: 1.9 Consensus size: 51
33804501 AAAAATGACT
* *
33804511 TAATAATAT-ATAAAATAATTATA-ATATAATATAA-AATCATATATATAAAAA
1 TAATAATATAAT-AAATAA-TAAACATATAATATAATAAT-ATATAAATAAAAA
*
33804562 TAAT-ATATAATATATAATAAACATATAATATAATAATATATAAATAA
1 TAATAATATAATAAATAATAAACATATAATATAATAATATATAAATAA
33804609 TGATGCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
49 3 0.07
50 29 0.71
51 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (51 bp):
TAATAATATAATAAATAATAAACATATAATATAATAATATATAAATAAAAA
Found at i:33804597 original size:33 final size:33
Alignment explanation
Indices: 33804518--33804608 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 33
33804508 ACTTAATAAT
* * *
33804518 ATATAAAATAATTATAATATAATATAAAATCATAT
1 ATAT-AAATAATAAT-ATATAATATAAAATCAAAC
*
33804553 ATATAAA-AATAATATATAATATATAAT-AAAC
1 ATATAAATAATAATATATAATATAAAATCAAAC
33804584 ATATAATATAATAATATATAA-ATAA
1 ATATAA-ATAATAATATATAATATAA
33804609 TGATGCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
31 8 0.16
32 17 0.35
33 17 0.35
34 3 0.06
35 4 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (33 bp):
ATATAAATAATAATATATAATATAAAATCAAAC
Found at i:33804609 original size:37 final size:36
Alignment explanation
Indices: 33804516--33804609 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 36
33804506 TGACTTAATA
* *
33804516 ATATATAAAATAAT-TAT-AAT-ATAATATAAAATC
1 ATATATATAATAATATATAAATAATAATATAAAAAC
* *
33804549 ATATATATAAAAATA-ATATATAAT-ATATAATAAAC
1 ATATATATAATAATATATAAATAATAATATAA-AAAC
33804584 ATATAATATAATAATATATAAATAAT
1 ATAT-ATATAATAATATATAAATAAT
33804610 GATGCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
33 14 0.29
34 8 0.16
35 9 0.18
36 10 0.20
37 8 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (36 bp):
ATATATATAATAATATATAAATAATAATATAAAAAC
Found at i:33804681 original size:9 final size:10
Alignment explanation
Indices: 33804470--33804699 Score: 84
Period size: 10 Copynumber: 23.6 Consensus size: 10
33804460 TTTAATGATA
*
33804470 ATAATATATAG
1 ATAATA-ATAT
*
33804481 ATAAAAATAT
1 ATAATAATAT
*
33804491 ATAATAATAC
1 ATAATAATAT
33804501 A-AA-AATGACT
1 ATAATAAT-A-T
33804511 -TAATAATAT
1 ATAATAATAT
33804520 ATAA-AATA-
1 ATAATAATAT
*
33804528 ATTATAATAT
1 ATAATAATAT
33804538 A-ATATAA-A-
1 ATA-ATAATAT
*
33804546 ATCAT-ATAT
1 ATAATAATAT
*
33804555 ATAAAAATA-
1 ATAATAATAT
33804564 ATATATAATAT
1 ATA-ATAATAT
*
33804575 ATAATAA-AC
1 ATAATAATAT
33804584 AT-AT-A-AT
1 ATAATAATAT
33804591 ATAATAATAT
1 ATAATAATAT
33804601 ATAAATAATGAT
1 AT-AATAAT-AT
**
33804613 GCAA-AATA-
1 ATAATAATAT
*
33804621 ATAATAACTTGT
1 ATAATAA--TAT
* *
33804633 GAAGAATAACAT
1 --ATAATAATAT
33804645 ATAATGAATA-
1 ATAAT-AATAT
33804655 ATAATAATAT
1 ATAATAATAT
33804665 A-AATAATAT
1 ATAATAATAT
33804674 ATAA-AATAAT
1 ATAATAAT-AT
* *
33804684 TTTATAATAT
1 ATAATAATAT
33804694 ATAATA
1 ATAATA
33804700 TAAAAATAAG
Statistics
Matches: 162, Mismatches: 27, Indels: 61
0.65 0.11 0.24
Matches are distributed among these distances:
7 5 0.03
8 16 0.10
9 42 0.26
10 64 0.40
11 26 0.16
12 3 0.02
14 6 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAATAATAT
Found at i:33804681 original size:27 final size:27
Alignment explanation
Indices: 33804511--33804708 Score: 108
Period size: 27 Copynumber: 7.1 Consensus size: 27
33804501 AAAAATGACT
*
33804511 TAATAAT-ATATAAAATAAT-TATAATA
1 TAATAATAATAT-AAATAATATATAAAA
* *
33804537 TAAT-ATAAAAT-CAT-ATATATAAAAA
1 TAATAATAATATAAATAATATAT-AAAA
* *
33804562 TAATATATAATATATAATAAACATATAATA
1 TAATA-ATAATATA-AAT-AATATATAAAA
**
33804592 TAATAAT-ATATAAATAATGATGCAAAA
1 TAATAATAATATAAATAAT-ATATAAAA
* *
33804619 TAATAATAACTTGTGAAGAATAACATATAATGAA
1 TAATAATAA--TAT--A-AATAATATATAA--AA
33804653 TAATAATAATATAAATAATATATAAAA
1 TAATAATAATATAAATAATATATAAAA
*
33804680 TAATTTTATAATAT--ATAATATA-AAAA
1 TAA--TAATAATATAAATAATATATAAAA
33804706 TAA
1 TAA
33804709 GGTAAAAAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
23 2 0.01
24 5 0.04
25 9 0.07
26 16 0.12
27 34 0.25
28 6 0.04
29 23 0.17
30 11 0.08
31 5 0.04
32 7 0.05
33 5 0.04
34 11 0.08
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (27 bp):
TAATAATAATATAAATAATATATAAAA
Found at i:33806769 original size:210 final size:210
Alignment explanation
Indices: 33806500--33807495 Score: 1582
Period size: 210 Copynumber: 4.7 Consensus size: 210
33806490 CCCATTGAAT
* * * * * * * * * *
33806500 GTGGAGATGTCAGACTTCGTTTTGTTCT-TCGACAATACAAAAATGATAAATTATCTTAGATTTT
1 GTGGAAATGCCAGACTTCGATTTGTTCTCT-GACCATACAGAGACGACAAATCATCTTAGATTTG
* *
33806564 CTTCATCGTAAACACGTGGAGGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGA
65 CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGA
* * *
33806629 GAGATAAGATCTGTCATCTTAGATCTACTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGGG
130 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTG
*
33806694 TCTGCTTTCCATCAAA
195 TCTGCCTTCCATCAAA
* * * *
33806710 GTGGAAATGCCAGACTTTGATTTGTTCTTTGACAATACAGAGACGACAAATCATCTTAGATTTGT
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
* * *
33806775 TTCATCGTAAACACGTGAAAGCCAAATCAGCCATATCTTTGATCTGCTCCCCGCTGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
* * *
33806840 AGATAAGATCTATCATCTTGGATCTGCTTTAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGT
33806905 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
*
33806920 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGAAAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
* *
33806985 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCT-CCCACCGAATATAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
* *
33807049 AGATAAGATCTGTCATTTTGGAGCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGT
*
33807114 TTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * *
33807129 GTGGAAATGCCAAACTTCGATTTGTTCTCTGACCATACAAAGATGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
* *
33807194 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCTCCGCTGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
*
33807259 AGATAAGATCTGTCATCTTGGATCTGCTTCAATGTAAACATCTGAAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGT
33807324 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * *
33807339 GTGGAAATGCCAGACTTCAATTTGTTCTCTAACCATACAGAGAAGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
*
33807404 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGTCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
*
33807469 AGATAAGATCTGTCATCTTGAATCTGC
131 AGATAAGATCTGTCATCTTGGATCTGC
33807496 CCTGATAATG
Statistics
Matches: 724, Mismatches: 60, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
209 196 0.27
210 527 0.73
211 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (210 bp):
GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATCTTAGATTTGC
TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAG
AGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGT
CTGCCTTCCATCAAA
Found at i:33807132 original size:419 final size:418
Alignment explanation
Indices: 33806500--33807487 Score: 1575
Period size: 419 Copynumber: 2.4 Consensus size: 418
33806490 CCCATTGAAT
* * * * * * *
33806500 GTGGAGATGTCAGACTTCGTTTTGTTCT-TCGACAATACA-AAAATGATAAATTATCTTAGATTT
1 GTGGAAATGCCAGACTTCGATTTGTTCTCT-GACCATACAGAGAA-GAAAAATCATCTTAGATTT
* * *
33806563 TCTTCATCGTAAACACGTGGAGGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAG
64 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCT-CCC-CCGAATACAG
*
33806628 AGAGATAAGATCTGTCATCTTAGATCTACTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGG
127 AGAGATAAGATCTGTCATCTTAGAGCTACTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGG
* * * * *
33806693 GTCTGCTTTCCATCAAAGTGGAAATGCCAGACTTTGATTTGTTCTTTGACAATACAGAGACGACA
192 GTCTGCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAAAGACGACA
* *
33806758 AATCATCTTAGATTTGTTTCATCGTAAACACGTGAAAGCCAAATCAGCCATATCTTTGATCTGCT
257 AATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCCATATCTTCGATCTGCT
* *
33806823 CCCCGCTGAATACAGAGAGATAAGATCTATCATCTTGGATCTGCTTTAGCGTAAACATCTGAAGG
322 CCCCGCTGAATACAGAGAGATAAGATCTATCATCTTGGATCTGCTTCAACGTAAACATCTGAAGG
33806888 TGAGATCTGCTATGTGTCTGCCTTCCATCAAA
387 TGAGATCTGCTATGTGTCTGCCTTCCATCAAA
*
33806920 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGAAAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGAAGAAAAATCATCTTAGATTTGC
*
33806985 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCACCGAATATAGAGA
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCC-CCGAATACAGAGA
* * * * *
33807050 GATAAGATCTGTCATTTTGGAGCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTT
130 GATAAGATCTGTCATCTTAGAGCTACTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGGGTC
* *
33807115 TGCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACCATACAAAGATGACAAAT
195 TGCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAAAGACGACAAAT
* *
33807180 CATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCTC
260 CATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCCATATCTTCGATCTGCTCCC
* *
33807245 CGCTGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAATGTAAACATCTGAAGGTGA
325 CGCTGAATACAGAGAGATAAGATCTATCATCTTGGATCTGCTTCAACGTAAACATCTGAAGGTGA
33807310 GATCTGCTATGTGTCTGCCTTCCATCAAA
390 GATCTGCTATGTGTCTGCCTTCCATCAAA
* * *
33807339 GTGGAAATGCCAGACTTCAATTTGTTCTCTAACCATACAGAGAAGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGAAGAAAAATCATCTTAGATTTGC
33807404 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGTCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCC--CGAATACAGAG
33807469 AGATAAGATCTGTCATCTT
129 AGATAAGATCTGTCATCTT
33807488 GAATCTGCCC
Statistics
Matches: 524, Mismatches: 40, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
418 1 0.00
419 395 0.75
420 125 0.24
421 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (418 bp):
GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGAAGAAAAATCATCTTAGATTTGC
TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCCGAATACAGAGAG
ATAAGATCTGTCATCTTAGAGCTACTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGGGTCT
GCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATC
ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCCATATCTTCGATCTGCTCCCC
GCTGAATACAGAGAGATAAGATCTATCATCTTGGATCTGCTTCAACGTAAACATCTGAAGGTGAG
ATCTGCTATGTGTCTGCCTTCCATCAAA
Found at i:33819544 original size:3 final size:3
Alignment explanation
Indices: 33819531--33819752 Score: 65
Period size: 3 Copynumber: 71.3 Consensus size: 3
33819521 TTAAGACCTT
* * *
33819531 TAA TGA TAA TAA TATA TAGA TAA AAA TATA TAA TAA TACA -AA -AA TGACT
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TA-A TAA TAA TA-A TAA TAA T-A-A
* *
33819580 TAA TAA TATA TAA -AA TAA TTA TAA T-A TAA T-A TAA -AA TCA T-A
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
33819621 TATA TAA AAA TAA TATA TAA TATA TAA TAA -ACA T-A TAA T-A TAA TAA
1 TA-A TAA TAA TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
* ** * *
33819667 TATA TAAA TAA TGA TGCAA -AA TAA TAA TAA CTTG TGAA GAA TAA CATA
1 TA-A T-AA TAA TAA T--AA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A
33819715 TAA TGAA TAA TAA TAA T-A TAAA TAA TATA TAA -AA TAA T
1 TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA T
33819753 TTTATAATAT
Statistics
Matches: 165, Mismatches: 22, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
2 24 0.15
3 99 0.60
4 39 0.24
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33819639 original size:50 final size:51
Alignment explanation
Indices: 33819580--33819677 Score: 114
Period size: 50 Copynumber: 1.9 Consensus size: 51
33819570 AAAAATGACT
* *
33819580 TAATAATAT-ATAAAATAATTATA-ATATAATATAA-AATCATATATATAAAAA
1 TAATAATATAAT-AAATAA-TAAACATATAATATAATAAT-ATATAAATAAAAA
*
33819631 TAAT-ATATAATATATAATAAACATATAATATAATAATATATAAATAA
1 TAATAATATAATAAATAATAAACATATAATATAATAATATATAAATAA
33819678 TGATGCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
49 3 0.07
50 29 0.71
51 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (51 bp):
TAATAATATAATAAATAATAAACATATAATATAATAATATATAAATAAAAA
Found at i:33819666 original size:33 final size:33
Alignment explanation
Indices: 33819587--33819677 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 33
33819577 ACTTAATAAT
* * *
33819587 ATATAAAATAATTATAATATAATATAAAATCATAT
1 ATAT-AAATAATAAT-ATATAATATAAAATCAAAC
*
33819622 ATATAAA-AATAATATATAATATATAAT-AAAC
1 ATATAAATAATAATATATAATATAAAATCAAAC
33819653 ATATAATATAATAATATATAA-ATAA
1 ATATAA-ATAATAATATATAATATAA
33819678 TGATGCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
31 8 0.16
32 17 0.35
33 17 0.35
34 3 0.06
35 4 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (33 bp):
ATATAAATAATAATATATAATATAAAATCAAAC
Found at i:33819678 original size:37 final size:36
Alignment explanation
Indices: 33819585--33819678 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 36
33819575 TGACTTAATA
* *
33819585 ATATATAAAATAAT-TAT-AAT-ATAATATAAAATC
1 ATATATATAATAATATATAAATAATAATATAAAAAC
* *
33819618 ATATATATAAAAATA-ATATATAAT-ATATAATAAAC
1 ATATATATAATAATATATAAATAATAATATAA-AAAC
33819653 ATATAATATAATAATATATAAATAAT
1 ATAT-ATATAATAATATATAAATAAT
33819679 GATGCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
33 14 0.29
34 8 0.16
35 9 0.18
36 10 0.20
37 8 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (36 bp):
ATATATATAATAATATATAAATAATAATATAAAAAC
Found at i:33819740 original size:12 final size:12
Alignment explanation
Indices: 33819723--33819772 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
33819713 TATAATGAAT
33819723 AATAATAATATA
1 AATAATAATATA
33819735 AATAAT-ATATAA
1 AATAATAATAT-A
**
33819747 AATAATTTTAT-
1 AATAATAATATA
33819758 AATATATAATATA
1 AATA-ATAATATA
33819771 AA
1 AA
33819773 AGATAAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 8 0.26
12 18 0.58
13 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAATAATATA
Found at i:33819750 original size:9 final size:10
Alignment explanation
Indices: 33819539--33819768 Score: 84
Period size: 10 Copynumber: 23.6 Consensus size: 10
33819529 TTTAATGATA
*
33819539 ATAATATATAG
1 ATAATA-ATAT
*
33819550 ATAAAAATAT
1 ATAATAATAT
*
33819560 ATAATAATAC
1 ATAATAATAT
33819570 A-AA-AATGACT
1 ATAATAAT-A-T
33819580 -TAATAATAT
1 ATAATAATAT
33819589 ATAA-AATA-
1 ATAATAATAT
*
33819597 ATTATAATAT
1 ATAATAATAT
33819607 A-ATATAA-A-
1 ATA-ATAATAT
*
33819615 ATCAT-ATAT
1 ATAATAATAT
*
33819624 ATAAAAATA-
1 ATAATAATAT
33819633 ATATATAATAT
1 ATA-ATAATAT
*
33819644 ATAATAA-AC
1 ATAATAATAT
33819653 AT-AT-A-AT
1 ATAATAATAT
33819660 ATAATAATAT
1 ATAATAATAT
33819670 ATAAATAATGAT
1 AT-AATAAT-AT
**
33819682 GCAA-AATA-
1 ATAATAATAT
*
33819690 ATAATAACTTGT
1 ATAATAA--TAT
* *
33819702 GAAGAATAACAT
1 --ATAATAATAT
33819714 ATAATGAATA-
1 ATAAT-AATAT
33819724 ATAATAATAT
1 ATAATAATAT
33819734 A-AATAATAT
1 ATAATAATAT
33819743 ATAA-AATAAT
1 ATAATAAT-AT
* *
33819753 TTTATAATAT
1 ATAATAATAT
33819763 ATAATA
1 ATAATA
33819769 TAAAAGATAA
Statistics
Matches: 162, Mismatches: 27, Indels: 61
0.65 0.11 0.24
Matches are distributed among these distances:
7 5 0.03
8 16 0.10
9 42 0.26
10 64 0.40
11 26 0.16
12 3 0.02
14 6 0.04
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAATAATAT
Found at i:33822616 original size:18 final size:17
Alignment explanation
Indices: 33822588--33822621 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33822578 GGCTTTAGCC
33822588 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
33822605 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
33822622 TCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:33822659 original size:19 final size:19
Alignment explanation
Indices: 33822635--33822696 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
33822625 AAATGAGAAT
33822635 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
33822654 CAGAATCAG-A--A--T--
1 CAGAATCAGAATTAGGTGA
*
33822666 CAAAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
33822685 CAGAATCAGAAT
1 CAGAATCAGAAT
33822697 CAATATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
12 8 0.24
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 20 0.59
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:33822673 original size:31 final size:31
Alignment explanation
Indices: 33822630--33822699 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
33822620 AATCAAAATG
*
33822630 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAAAATCAGAATTAGGTGACAGAATC
33822661 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAAAATCAGAATTAGGTGACAGAATC
33822692 AGAATCAA
1 AGAATCAA
33822700 TATAAAGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATTAGGTGACAGAATC
Found at i:33822697 original size:6 final size:6
Alignment explanation
Indices: 33822609--33822677 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
33822599 AAGAAACATT
* * * * *
33822609 ATCAGA ATTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
33822658 ATCAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
33822678 TAGGTGACAG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 1 0.02
6 44 0.92
7 2 0.04
8 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33822935 original size:54 final size:52
Alignment explanation
Indices: 33822845--33822952 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 52
33822835 AGCATGGCTG
* * * *
33822845 CCAGAACAGATATTGTGACAGAATCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAG-ACCACCAGAAACAGATAATGTGGCAAAGCCA
33822898 CCAGAACAGATATTTGTGGTACAG-CCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGT-G-ACAGACCACCAGAAACAGATAATGTGGCAAAGCCA
33822952 C
1 C
33822953 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 12 0.25
54 31 0.65
55 1 0.02
56 4 0.08
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (52 bp):
CCAGAACAGATATTGTGACAGACCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:33822943 original size:27 final size:27
Alignment explanation
Indices: 33822845--33822952 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
33822835 AGCATGGCTG
* *
33822845 CCAG-AACAGATATTGTGACAGAA-TCA
1 CCAGAAACAGATATTGTGGCA-AAGCCA
* *
33822871 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
* *
33822898 CCAG-AACAGATATTTGTGGTACAGCCA
1 CCAGAAACAGATA-TTGTGGCAAAGCCA
*
33822925 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAAACAGATATTGTGGCAAAGCCA
33822952 C
1 C
33822953 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 12 0.18
27 48 0.71
28 8 0.12
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAAAGCCA
Found at i:33823139 original size:22 final size:22
Alignment explanation
Indices: 33823111--33823175 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
33823101 GCAAATACGT
*
33823111 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
33823133 TTGGCACAGAGCGAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
33823155 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
33823176 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:33823582 original size:27 final size:28
Alignment explanation
Indices: 33823520--33823583 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
33823510 CAGTCACTTG
*
33823520 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGCAAAATAGTAATTTAACA
* *
33823548 CCC-TAAGGGCAAAATGGTAAATTT-AC-
1 CCCACAAGGGCAAAATAGT-AATTTAACA
33823574 CCCACAAGGG
1 CCCACAAGGG
33823584 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
26 3 0.10
27 20 0.67
28 7 0.23
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAATAGTAATTTAACA
Found at i:33823893 original size:27 final size:27
Alignment explanation
Indices: 33823567--33823886 Score: 426
Period size: 27 Copynumber: 11.9 Consensus size: 27
33823557 CAAAATGGTA
* * *
33823567 AATT-TACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
33823593 AATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
33823620 ATTTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
33823647 AATTCTATCCTACAGGAGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
33823674 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
33823701 AATTCTACCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
33823728 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
33823755 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
33823782 AATTCTACCCTATAGGGATATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
33823809 ATTTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
33823836 AATTCTACCCTACAGAGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
33823863 AATTCTACCTTACAGGGGTATTTC
1 AATTCTACCCTACAGGGGTATTTC
33823887 AATAATTTTG
Statistics
Matches: 251, Mismatches: 42, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
26 4 0.02
27 247 0.98
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:33824071 original size:26 final size:27
Alignment explanation
Indices: 33823878--33824295 Score: 357
Period size: 27 Copynumber: 15.6 Consensus size: 27
33823868 TACCTTACAG
* **
33823878 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * * *
33823905 GGGTAAAACGGTAATTCTATAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
33823932 GGGTACTTT-GGTTATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
33823959 GGGTATTTCAGTAGTTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
33823986 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
33824013 GGGTATTTC-GATAATTTTACAAATCAA
1 GGGTATTTCAG-TAATTTTACAAATCGA
33824040 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * *
33824066 CAGTATTTCGGTAATTTTACAAATAGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
33824093 TTGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
33824119 CGGTATTTCAGTAATTTTACAAATAGA
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
33824146 TTGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
33824172 CGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** *
33824199 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** * *
33824226 GGATATTTGGGTAATTTTATAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
33824253 GGGTACTTT-GGTAATTTTACAACTGGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
33824280 -GGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
33824296 GGTAAACTAA
Statistics
Matches: 321, Mismatches: 59, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 81 0.25
27 232 0.72
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:33824099 original size:53 final size:53
Alignment explanation
Indices: 33823945--33824295 Score: 352
Period size: 53 Copynumber: 6.6 Consensus size: 53
33823935 TACTTTGGTT
* * *
33823945 ATTTTACAAGTCGAGGGTATTTCAGTAGTTTTACAAATTGAGGGTATTTCAGTA
1 ATTTTACAA-TCGACGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCAGTA
* * *
33823999 ATTTTGCAAACTGAGGGTATTTC-GATAATTTTACAAATCA-AGGGTATTTCAGTA
1 ATTTTACAATC-GACGGTATTTCAG-TAATTTTACAAAT-AGAGGGTATTTCAGTA
* * ** *
33824053 ATTTTACAATCGACAGTATTTCGGTAATTTTACAAATAGATTGTATTTTAGTA
1 ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCAGTA
** *
33824106 ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATAGATTGTATTTTAGTA
1 ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCAGTA
* * **
33824159 ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCAGTA
* ** * * * *
33824212 ATTTTATAAATCGA-GGATATTTGGGTAATTTTATAAATCGGGGGTACTTT-GGTA
1 ATTTTA-CAATCGACGG-TATTTCAGTAATTTTACAAATAGAGGGTA-TTTCAGTA
* *
33824266 ATTTTACAACTGGA-GGTATTTTAGTAATTT
1 ATTTTACAA-TCGACGGTATTTCAGTAATTT
33824296 GGTAAACTAA
Statistics
Matches: 259, Mismatches: 29, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
52 1 0.00
53 155 0.60
54 100 0.39
55 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (53 bp):
ATTTTACAATCGACGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCAGTA
Found at i:33824113 original size:80 final size:79
Alignment explanation
Indices: 33823945--33824295 Score: 316
Period size: 80 Copynumber: 4.4 Consensus size: 79
33823935 TACTTTGGTT
* * * *
33823945 ATTTTACAAGTCGAGGGTATTTCAGTAGTTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAAC
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGA-GGTATTTCAGTAATTTTACAAA-
* *
33824010 TGAGGGTA-TTTCGATA
64 TGACGGTATTTTAG-TA
* * *
33824026 ATTTTACAAATCAAGGGTATTTCAGTAATTTTAC-AATCGACAGTATTTCGGTAATTTTACAAAT
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGA-GGTATTTCAGTAATTTTACAAAT
**
33824090 AGATTGTATTTTAGTA
65 -GACGGTATTTTAGTA
* * * *
33824106 ATTTTAC-AATCGACGGTATTTCAGTAATTTTACAAATAGATTGTATTTTAGTAATTTTAC-AAT
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGA-GGTATTTCAGTAATTTTACAAAT
*
33824169 CGACGGTATTTCAGTA
65 -GACGGTATTTTAGTA
* ** * ** *
33824185 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGAGGATATTTGGGTAATTTTATAAAT
1 ATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGG-TATTTCAGTAATTTTACAAAT
** * *
33824250 CGGGGGTACTTTGGTA
65 -GACGGTATTTTAGTA
* * *
33824266 ATTTTACAACTGGA-GGTATTTTAGTAATTT
1 ATTTTACAAATCGAGGGTATTTCAGTAATTT
33824296 GGTAAACTAA
Statistics
Matches: 222, Mismatches: 42, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
79 48 0.22
80 113 0.51
81 61 0.27
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (79 bp):
ATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGTATTTCAGTAATTTTACAAATG
ACGGTATTTTAGTA
Found at i:33827518 original size:18 final size:18
Alignment explanation
Indices: 33827492--33827534 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
33827482 GACTGGGAAA
* *
33827492 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
33827510 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
33827528 AGGATAC
1 AGGATAC
33827535 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:33829354 original size:22 final size:21
Alignment explanation
Indices: 33829322--33829368 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
33829312 ACACAACTTT
33829322 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
33829342 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
33829364 TTTGA
1 TTTGA
33829369 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:33830278 original size:23 final size:24
Alignment explanation
Indices: 33830233--33830278 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
33830223 GATTTTGCCA
*
33830233 AATGAGATTGCATTTGTAAAATAT
1 AATGAGATTGCATGTGTAAAATAT
* *
33830257 AATGAG-TTGGATGTGTAGAATA
1 AATGAGATTGCATGTGTAAAATA
33830279 ATTTCCACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (24 bp):
AATGAGATTGCATGTGTAAAATAT
Found at i:33838443 original size:15 final size:15
Alignment explanation
Indices: 33838420--33838458 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
33838410 AAAAAATTAT
33838420 AAATAAATTTAAATAA
1 AAATAAATTTAAA-AA
33838436 AAAT-AATTTAAAAA
1 AAATAAATTTAAAAA
33838450 AAATCAAAT
1 AAAT-AAAT
33838459 ATAGGTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.29
15 8 0.38
16 7 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAATTTAAAAA
Found at i:33838458 original size:25 final size:25
Alignment explanation
Indices: 33838408--33838459 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
33838398 TATTTGTATT
* * *
33838408 TAAAAAAATTATAAATAAATTTAAA
1 TAAAAAAATTATAAAAAAAATCAAA
33838433 TAAAAATAATT-TAAAAAAAATCAAA
1 TAAAAA-AATTATAAAAAAAATCAAA
33838458 TA
1 TA
33838460 TAGGTTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAAAAAATTATAAAAAAAATCAAA
Found at i:33839872 original size:2 final size:2
Alignment explanation
Indices: 33839865--33839905 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33839855 CAACTTTATC
33839865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33839906 GGTGTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33841876 original size:10 final size:10
Alignment explanation
Indices: 33841857--33841895 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
33841847 TTAAATTCTA
33841857 AAAGATAAAT
1 AAAGATAAAT
33841867 ACAA-ATAAAT
1 A-AAGATAAAT
33841877 AAAGATAAAT
1 AAAGATAAAT
*
33841887 GAAGATAAA
1 AAAGATAAA
33841896 AACTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:33844280 original size:23 final size:23
Alignment explanation
Indices: 33844244--33844300 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
33844234 ACTGGAATTC
* *
33844244 AAAT-AAAGTAAAAAGTGAAATG
1 AAATGAAATTAAAATGTGAAATG
* *
33844266 AAAATGAAATTAAAATTTGGAATG
1 -AAATGAAATTAAAATGTGAAATG
33844290 AAATGAAATTA
1 AAATGAAATTA
33844301 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.25
Consensus pattern (23 bp):
AAATGAAATTAAAATGTGAAATG
Found at i:33844389 original size:22 final size:21
Alignment explanation
Indices: 33844364--33844417 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
33844354 GAAATGAAGT
33844364 TGAAATTAAATTAAAATTGGAA
1 TGAAATTAAATTAAAATT-GAA
* *
33844386 TGAAATGAAATTCAAATTGAA
1 TGAAATTAAATTAAAATTGAA
33844407 TAGAAATTAAA
1 T-GAAATTAAA
33844418 ATGAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (21 bp):
TGAAATTAAATTAAAATTGAA
Found at i:33844406 original size:17 final size:17
Alignment explanation
Indices: 33844351--33844419 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
33844341 GAACTTTTTG
*
33844351 ATTGAAATGAAGTTGAA
1 ATTGAAATGAAATTGAA
* *
33844368 ATT-AAATTAAAATTGGA
1 ATTGAAA-TGAAATTGAA
*
33844385 A-TGAAATGAAATTCAA
1 ATTGAAATGAAATTGAA
*
33844401 ATTG-AATAGAAATTAAA
1 ATTGAAAT-GAAATTGAA
33844418 AT
1 AT
33844420 GAATATATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
16 15 0.37
17 26 0.63
ACGTcount: A:0.54, C:0.01, G:0.14, T:0.30
Consensus pattern (17 bp):
ATTGAAATGAAATTGAA
Found at i:33844421 original size:33 final size:33
Alignment explanation
Indices: 33844353--33844422 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
33844343 ACTTTTTGAT
* * **
33844353 TGAAATGAAGTTGAAATTAAATTAAAATTGGAA
1 TGAAATGAAATTCAAATTAAATTAAAATTAAAA
*
33844386 TGAAATGAAATTCAAATTGAA-TAGAAATTAAAA
1 TGAAATGAAATTCAAATTAAATTA-AAATTAAAA
33844419 TGAA
1 TGAA
33844423 TATATAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.54, C:0.01, G:0.16, T:0.29
Consensus pattern (33 bp):
TGAAATGAAATTCAAATTAAATTAAAATTAAAA
Found at i:33844672 original size:28 final size:28
Alignment explanation
Indices: 33844613--33844671 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
33844603 AAAAAAGGTG
* *
33844613 AAATGAATATGGAATGAAATGAAATTTA
1 AAATGAATATGGAATGAAATAAAATATA
33844641 AAATGAATAT-GAGATGAAATTAAAATATA
1 AAATGAATATGGA-ATGAAA-TAAAATATA
33844670 AA
1 AA
33844672 TTTAAATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 16 0.59
29 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (28 bp):
AAATGAATATGGAATGAAATAAAATATA
Found at i:33844687 original size:22 final size:21
Alignment explanation
Indices: 33844662--33844927 Score: 104
Period size: 21 Copynumber: 12.9 Consensus size: 21
33844652 AGATGAAATT
*
33844662 AAAATATAAATTTAAATGAGA
1 AAAAAATAAATTTAAATGAGA
*
33844683 AAAAAATGAA--T--ATGA-A
1 AAAAAATAAATTTAAATGAGA
*
33844699 AAAAGAATAAATTGAAATGAGA
1 AAAA-AATAAATTTAAATGAGA
*
33844721 AAAAAATGAA--T--ATGA-A
1 AAAAAATAAATTTAAATGAGA
*
33844737 AAAAGAATAAATTGAAATGAGA
1 AAAA-AATAAATTTAAATGAGA
*
33844759 AAAAAATGAA--T--ATGA-A
1 AAAAAATAAATTTAAATGAGA
**
33844775 AAAAGAATAAATTGGAATGAGA
1 AAAA-AATAAATTTAAATGAGA
* *
33844797 GAAAAATAAATTGAAATGAGATTA
1 AAAAAATAAATTTAAATGAG---A
* * *
33844821 AAATGTGAAATGAATATGAAATTA-A
1 AAA----AAATAAAT-TTAAATGAGA
*
33844846 ATTAAAATATAAATTGAAATGA-A
1 A--AAAA-ATAAATTTAAATGAGA
*
33844869 AAAATAATAAATTGAAATGAGA
1 AAAA-AATAAATTTAAATGAGA
* *
33844891 AAATAATAAATTGAAAT--G-
1 AAAAAATAAATTTAAATGAGA
33844909 AAAAAATAAATTTAAATGA
1 AAAAAATAAATTTAAATGA
33844928 AATGAAATGA
Statistics
Matches: 190, Mismatches: 22, Indels: 67
0.68 0.08 0.24
Matches are distributed among these distances:
16 15 0.08
17 27 0.14
18 15 0.08
19 2 0.01
21 75 0.39
22 19 0.10
23 11 0.06
24 8 0.04
25 2 0.01
27 2 0.01
28 7 0.04
29 7 0.04
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAAATAAATTTAAATGAGA
Done.