Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 86 of 297
Found at i:31126822 original size:29 final size:29
Alignment explanation
Indices: 31126780--31126841 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
31126770 GAACTTAGTA
*
31126780 AGAATAATATTCACGGGGTTGATATGATC
1 AGAATAAGATTCACGGGGTTGATATGATC
31126809 AGAATAAGATTCACGGGGTTGATATGATC
1 AGAATAAGATTCACGGGGTTGATATGATC
31126838 AGAA
1 AGAA
31126842 AGACTGAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (29 bp):
AGAATAAGATTCACGGGGTTGATATGATC
Found at i:31131385 original size:20 final size:20
Alignment explanation
Indices: 31131323--31131388 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
31131313 TAGTATAGGT
*
31131323 TTGCACTTCGGTGCCTCT-G
1 TTGCACTTCGGTGCCTCTAA
* * * * *
31131342 TTACACGTCAGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTAA
31131362 TTGCACTTCGGTGCCTCTAA
1 TTGCACTTCGGTGCCTCTAA
31131382 TTGCACT
1 TTGCACT
31131389 ATCATGCCTC
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAA
Found at i:31135953 original size:29 final size:29
Alignment explanation
Indices: 31135920--31136088 Score: 216
Period size: 29 Copynumber: 5.8 Consensus size: 29
31135910 GTATCGACGC
31135920 CCATCGAATATGAAAAGGGATGGTGATGA
1 CCATCGAATATGAAAAGGGATGGTGATGA
* *
31135949 CCATCAAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTGATGA
31135978 CCATCGAATATGAAAAGGGATGGTGATGA
1 CCATCGAATATGAAAAGGGATGGTGATGA
* * * **
31136007 CCATAGCATATGAAAAGGGATAGTTTTGA
1 CCATCGAATATGAAAAGGGATGGTGATGA
*
31136036 CCATCAAATATGAAAAGGGATGGCT--TCGA
1 CCATCGAATATGAAAAGGGATGG-TGAT-GA
* *
31136065 CCATAGACTATGAAAAGGGATGGT
1 CCATCGAATATGAAAAGGGATGGT
31136089 TTCGACCATC
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
28 2 0.02
29 119 0.98
30 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.21
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTGATGA
Found at i:31136097 original size:87 final size:87
Alignment explanation
Indices: 31135927--31136088 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
31135917 CGCCCATCGA
* *
31135927 ATATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGACGACCATCGAATATGAA
1 ATATGAAAAGGGATAGTGATGACCATCAAATATGAAAAGGGATGGTGACGACCATAGAATATGAA
31135992 AAGGGATGGTGATGACCATAGC
66 AAGGGATGGTGATGACCATAGC
** * *
31136014 ATATGAAAAGGGATAGTTTTGACCATCAAATATGAAAAGGGATGGCT-TCGACCATAGACTATGA
1 ATATGAAAAGGGATAGTGATGACCATCAAATATGAAAAGGGATGG-TGACGACCATAGAATATGA
31136078 AAAGGGATGGT
65 AAAGGGATGGT
31136089 TTCGACCATC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 67 0.99
88 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (87 bp):
ATATGAAAAGGGATAGTGATGACCATCAAATATGAAAAGGGATGGTGACGACCATAGAATATGAA
AAGGGATGGTGATGACCATAGC
Found at i:31136099 original size:58 final size:57
Alignment explanation
Indices: 31135920--31136187 Score: 233
Period size: 58 Copynumber: 4.6 Consensus size: 57
31135910 GTATCGACGC
* **
31135920 CCATCGAATATGAAAAGGGATGG-TGATGACCATCA-AATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGCT--TGACCAT-AGACTATGAAAAGGGATGGTTTCGA
* *
31135978 CCATCGAATATGAAAAGGGATGG-TGATGACCATAG-CATATGAAAAGGGATAGTTTTGA
1 CCATCGAATATGAAAAGGGATGGCT--TGACCATAGAC-TATGAAAAGGGATGGTTTCGA
*
31136036 CCATCAAATATGAAAAGGGATGGCTTCGACCATAGACTATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGCTT-GACCATAGACTATGAAAAGGGATGGTTTCGA
** * * **
31136094 CCATC-AATTAAACAAAAGGGATGGCTTTGACCATCGATTAAAAAAAAGGGATGGCTTT-GA
1 CCATCGAA-T-ATGAAAAGGGATGGC-TTGACCATAGACT-ATGAAAAGGGATGG-TTTCGA
* **
31136154 CCATCGATTAAACAAAAGGGATGGCTTTGACCAT
1 CCATCGAAT-ATGAAAAGGGATGGC-TTGACCAT
31136188 CGTTTAGCAC
Statistics
Matches: 184, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.02
58 105 0.57
59 24 0.13
60 47 0.26
61 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (57 bp):
CCATCGAATATGAAAAGGGATGGCTTGACCATAGACTATGAAAAGGGATGGTTTCGA
Found at i:31136113 original size:30 final size:30
Alignment explanation
Indices: 31136019--31136188 Score: 186
Period size: 30 Copynumber: 5.7 Consensus size: 30
31136009 ATAGCATATG
* * * **
31136019 AAAAGGGATAGTTTTGACCATCAAAT-ATG
1 AAAAGGGATGGCTTTGACCATCAATTAAAC
* * **
31136048 AAAAGGGATGGCTTCGACCAT-AGACT-ATG
1 AAAAGGGATGGCTTTGACCATCA-ATTAAAC
31136077 AAAAGGGATGG-TTTCGACCATCAATTAAAC
1 AAAAGGGATGGCTTT-GACCATCAATTAAAC
* *
31136107 AAAAGGGATGGCTTTGACCATCGATTAAAA
1 AAAAGGGATGGCTTTGACCATCAATTAAAC
*
31136137 AAAAGGGATGGCTTTGACCATCGATTAAAC
1 AAAAGGGATGGCTTTGACCATCAATTAAAC
31136167 AAAAGGGATGGCTTTGACCATC
1 AAAAGGGATGGCTTTGACCATC
31136189 GTTTAGCACA
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.02
29 42 0.34
30 77 0.62
31 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAAGGGATGGCTTTGACCATCAATTAAAC
Found at i:31136164 original size:60 final size:59
Alignment explanation
Indices: 31136019--31136189 Score: 211
Period size: 60 Copynumber: 2.9 Consensus size: 59
31136009 ATAGCATATG
* * * ** * * **
31136019 AAAAGGGATAGTTTTGACCATCAAAT-ATGAAAAGGGATGGCTTCGACCATAGACTATG
1 AAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGACCATCGACTAAA
*
31136077 AAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGACCATCGATTAAAA
1 AAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGACCATCGACT-AAA
*
31136137 AAAAGGGATGGCTTT-GACCATCGATTAAACAAAAGGGATGGCTTTGACCATCG
1 AAAAGGGATGG-TTTCGACCATCAATTAAACAAAAGGGATGGCTTTGACCATCG
31136190 TTTAGCACAC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
58 23 0.23
59 24 0.24
60 49 0.49
61 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (59 bp):
AAAAGGGATGGTTTCGACCATCAATTAAACAAAAGGGATGGCTTTGACCATCGACTAAA
Found at i:31136189 original size:30 final size:30
Alignment explanation
Indices: 31136048--31136189 Score: 198
Period size: 30 Copynumber: 4.8 Consensus size: 30
31136038 ATCAAATATG
* * * **
31136048 AAAAGGGATGGCTTCGACCATAGACT-ATG
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
*
31136077 AAAAGGGATGG-TTTCGACCATCAATTAAAC
1 AAAAGGGATGGCTTT-GACCATCGATTAAAC
*
31136107 AAAAGGGATGGCTTTGACCATCGATTAAAA
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
31136137 AAAAGGGATGGCTTTGACCATCGATTAAAC
1 AAAAGGGATGGCTTTGACCATCGATTAAAC
31136167 AAAAGGGATGGCTTTGACCATCG
1 AAAAGGGATGGCTTTGACCATCG
31136190 TTTAGCACAC
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.02
29 19 0.19
30 77 0.76
31 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (30 bp):
AAAAGGGATGGCTTTGACCATCGATTAAAC
Found at i:31139554 original size:43 final size:43
Alignment explanation
Indices: 31139429--31139588 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
31139419 CAGAAAGCTC
* * * *
31139429 ATACAATGCCAACGTCCTAGATGTGGTCTTAAATGT-AATCAA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
31139471 ATAACAATGCC-ACTGTCCC-GAACAG-GGTCTTACACG-AAATCAA
1 AT-ACAATGCCAAC-GTCCCAG-AC-GTGGTCTTACACGTAAATCAA
31139514 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-A
* * *
31139558 AGT-CAATGCCAACTTCCCATAAGTGGTCTTA
1 A-TACAATGCCAACGTCCCAGACGTGGTCTTA
31139589 TATGAAAACA
Statistics
Matches: 100, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
41 1 0.01
42 31 0.31
43 39 0.39
44 28 0.28
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
Found at i:31140613 original size:56 final size:56
Alignment explanation
Indices: 31140546--31140657 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
31140536 TAAGGTCATT
31140546 AATGTCCATTAACCATGTTAATGGTTGATAAACCGTAATTTATACATATTTTTATC
1 AATGTCCATTAACCATGTTAATGGTTGATAAACCGTAATTTATACATATTTTTATC
*
31140602 AATGTCCATTAACCATGTTAATGGTTGATAAATCGTAATTTATACATATTTTTATC
1 AATGTCCATTAACCATGTTAATGGTTGATAAACCGTAATTTATACATATTTTTATC
31140658 CCATGCTTAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (56 bp):
AATGTCCATTAACCATGTTAATGGTTGATAAACCGTAATTTATACATATTTTTATC
Found at i:31145480 original size:942 final size:941
Alignment explanation
Indices: 31143657--31145541 Score: 3338
Period size: 942 Copynumber: 2.0 Consensus size: 941
31143647 TGGATCCCCT
* *
31143657 TATTAGGTTTTACCCTAATTTGGCAAAATCTTGTCACCCTATGTCTAAGCGTGCAATCAACTCCA
1 TATTAGGTTTCACCCTAATCTGGCAAAATCTTGTCACCCTATGTCTAAGCGTGCAATCAACTCCA
* *
31143722 CTTAATTATGATAAATGTACTCTTAGCTAGGGTCTATTCCTCATCTGAATAAGACCTTATCTTGA
66 CTTAATTATGATAAATGTACTCTTAGCCAGGGTCTATTCCTCATCTAAATAAGACCTTATCTTGA
*
31143787 ATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTA
131 ATCAGTATCCTAGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTA
* *
31143852 TCATACGATTCAGAAAATAATAACAAGATTCGTCTTAGGTTTCATTCCCTTTAGGTATTTAGGGG
196 TCAAACGATTCAGAAAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGG
*
31143917 ATTTAGTTCATAACTAAATAAGAAAACATCTCAGAAAAATAAAGAATACAAAACATAAAGAAAAC
261 ATTTAGCTCATAACTAAATAAGAAAACATCTCAGAAAAATAAAGAATACAAAACATAAAGAAAAC
*
31143982 CCAAAACTCCTGAAGGGGAATTGAGGGGAGATCTTCAGTCTTGATGATGAATCCGGCTTCTAAGA
326 CCAAAACTCCTGAAGGGGAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGGCTTCTAAGA
* *
31144047 TGAAACAATCGGCTTCCTTAGAGTAATTCCTTACTCCCTATTCTGTGTGCCCCCTTTTCTCTTCT
391 TGAAACAATCGGCTTCCTTAGAGTAATTCCTTACTCCCTATTCTGTGTGCCCCATTTTCTCCTCT
31144112 TTTAGGGTGTATTTATAGGCTTTGGAATGCCTATGAGCCCTCAAAAGTGGCCTTTTCAGAATTGG
456 TTTAGGGTGTATTTATAGGCTTTGGAATGCCTATGAGCCCTCAAAAGTGGCCTTTTCAGAATTGG
* *
31144177 ACTTAACTTGGGCTTGGCAGGGACACGCCTGTGGCACACGCCCGTGTTTGATTAATTCAGGCTGT
521 ACTTAACTTGGGCTCGGCAGGGACACGCCTGTGGCACACGCCCGTGTTTGATTAATTCAGGCCGT
* * *
31144242 GCTCGAGCCTGTTAGAATGGCACGGGCTTGTACTATAGCCGTGTGAGTCGTGCTTCGATTCTGCT
586 GCTCGAGCCTGTTAGAATGGAACAGGCTTGTACTATAGCCGTGTGAGTCGTGCTTCGATTCTGCC
* * * * * *
31144307 AGATTGACACGGCTGTGTGGTTTACCCATGTGAGGAAGTCCAGGCTATGTGAAGTTTGTACTTTG
651 AGATTGACACAGCCGTGTGGTTTACCCATATAAGGAAGTCCAGGCCATGTGAAGTTCGTACTTTG
*
31144372 GCCAATGTTCTCTGTTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCTTCTAAGTATA
716 GCCAATGTTCTCTATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCTTCTAAGTATA
31144437 AAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCAATTCTAATGGAAAATCATCCATAAAA
781 AAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCAATTCTAATGGAAAATCATCCATAAAA
*
31144502 TGCGTTAGACATGGGGTAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCA
846 TGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATCAAATA-CCCCACACTTAAGCA
31144567 TTTGCTTGTCCTCAAGCAAAATCCTCAACTCA
910 TTTGCTTGTCCTCAAGCAAAATCCTCAACTCA
* *
31144599 TATTAGGTTTCACCCTAATCTGGCAAAATCTTGTCACCCTATGTCTAGGCGTGCAATCAACTCCG
1 TATTAGGTTTCACCCTAATCTGGCAAAATCTTGTCACCCTATGTCTAAGCGTGCAATCAACTCCA
*
31144664 CTTAATTATGATAAATGTACTCTTAGCCAGGGTCTATTCCTCCTCTAAATAAGACCTTATCTTGA
66 CTTAATTATGATAAATGTACTCTTAGCCAGGGTCTATTCCTCATCTAAATAAGACCTTATCTTGA
**
31144729 ATCAGTATTTTAGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTA
131 ATCAGTATCCTAGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTA
*
31144794 TCAAATGATTCAGAAAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGG
196 TCAAACGATTCAGAAAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGG
31144859 ATTTAGCTCATAACTAAATAAGAAAACATCTCAGAAAAATAAAGAATACAAAACATAAAGAAAAC
261 ATTTAGCTCATAACTAAATAAGAAAACATCTCAGAAAAATAAAGAATACAAAACATAAAGAAAAC
*
31144924 CCAAAACTCCTGAAGGGGAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGA
326 CCAAAACTCCTGAAGGGGAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGGCTTCTAAGA
* * *
31144989 TGAAACAATCGGCTTCCTTGGAGTAATTCCTTACTCCCTATTCTGTTTGCCCTATTTTCTCCTCT
391 TGAAACAATCGGCTTCCTTAGAGTAATTCCTTACTCCCTATTCTGTGTGCCCCATTTTCTCCTCT
*
31145054 TTTAGGGTGTATTTATAGGCTTTGGAATGCCTATGAGCCCTCAAAAGTGGCCTTTTCGGAATTGG
456 TTTAGGGTGTATTTATAGGCTTTGGAATGCCTATGAGCCCTCAAAAGTGGCCTTTTCAGAATTGG
* * *
31145119 ACTTAACTTGGGCTCGGTAGGGACACGCCTGTGGCGCACGCTCGTGTTTGATTAATTCAGGCCGT
521 ACTTAACTTGGGCTCGGCAGGGACACGCCTGTGGCACACGCCCGTGTTTGATTAATTCAGGCCGT
*
31145184 GCTCGAGCCTGTTAGAATGGAACAGGCTTGTGCTATAGCCGTGTGAGTCGTGCTTCGATTCTGCC
586 GCTCGAGCCTGTTAGAATGGAACAGGCTTGTACTATAGCCGTGTGAGTCGTGCTTCGATTCTGCC
* ** *
31145249 AGATTGACACAGCCGTGTGGTTTGCCTGTATAAGGAAGTCCAGGCCGTGTGAAGTTCGTACTTTG
651 AGATTGACACAGCCGTGTGGTTTACCCATATAAGGAAGTCCAGGCCATGTGAAGTTCGTACTTTG
* *
31145314 GCCCATTTTCTCTATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCTTCTAAGTATA
716 GCCAATGTTCTCTATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCTTCTAAGTATA
*
31145379 AAACATGAAATTAAAGCATTTGGAGCATCGAATTCACCAATTCTAATGGAAAATCATCCATAAAA
781 AAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCAATTCTAATGGAAAATCATCCATAAAA
31145444 TGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATCAAATACCCCACACTTAAGCAT
846 TGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATCAAATACCCCACACTTAAGCAT
*
31145509 TTGTTTGTCCTCAAGCAAAATCCTCAACTCA
911 TTGCTTGTCCTCAAGCAAAATCCTCAACTCA
31145540 TA
1 TA
31145542 ATCAAAATAA
Statistics
Matches: 896, Mismatches: 47, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
941 48 0.05
942 848 0.95
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (941 bp):
TATTAGGTTTCACCCTAATCTGGCAAAATCTTGTCACCCTATGTCTAAGCGTGCAATCAACTCCA
CTTAATTATGATAAATGTACTCTTAGCCAGGGTCTATTCCTCATCTAAATAAGACCTTATCTTGA
ATCAGTATCCTAGGATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTTA
TCAAACGATTCAGAAAATAATAACAAGATTCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGG
ATTTAGCTCATAACTAAATAAGAAAACATCTCAGAAAAATAAAGAATACAAAACATAAAGAAAAC
CCAAAACTCCTGAAGGGGAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGGCTTCTAAGA
TGAAACAATCGGCTTCCTTAGAGTAATTCCTTACTCCCTATTCTGTGTGCCCCATTTTCTCCTCT
TTTAGGGTGTATTTATAGGCTTTGGAATGCCTATGAGCCCTCAAAAGTGGCCTTTTCAGAATTGG
ACTTAACTTGGGCTCGGCAGGGACACGCCTGTGGCACACGCCCGTGTTTGATTAATTCAGGCCGT
GCTCGAGCCTGTTAGAATGGAACAGGCTTGTACTATAGCCGTGTGAGTCGTGCTTCGATTCTGCC
AGATTGACACAGCCGTGTGGTTTACCCATATAAGGAAGTCCAGGCCATGTGAAGTTCGTACTTTG
GCCAATGTTCTCTATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCCTATGCTCTTCTAAGTATA
AAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCAATTCTAATGGAAAATCATCCATAAAA
TGCGTTAAACATGGGGTAAAAATATGTATAAATTACGGTTTATCAAATACCCCACACTTAAGCAT
TTGCTTGTCCTCAAGCAAAATCCTCAACTCA
Found at i:31149566 original size:60 final size:60
Alignment explanation
Indices: 31149497--31149610 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 60
31149487 CTCATTCCTA
* *
31149497 CTATCAATCTTATCAAAATAAGGTTTTAAAT-GGGTGCTGTTTACATTAAAAGTGTCGATG
1 CTATCAATCTCATCAAAATAAGGTTTT-AATCAGGTGCTGTTTACATTAAAAGTGTCGATG
* *
31149557 CTATCAATCTCATCAAAATAAGGTTTTAATCAGGTGTTGTTTACCTTAAAAGTG
1 CTATCAATCTCATCAAAATAAGGTTTTAATCAGGTGCTGTTTACATTAAAAGTG
31149611 CAGAACTTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (60 bp):
CTATCAATCTCATCAAAATAAGGTTTTAATCAGGTGCTGTTTACATTAAAAGTGTCGATG
Found at i:31153118 original size:16 final size:16
Alignment explanation
Indices: 31153081--31153112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31153071 AAACATCTCA
*
31153081 AAAAAATAAAGAATAC
1 AAAAAATAAAGAAAAC
31153097 AAAAAATAAAGAAAAC
1 AAAAAATAAAGAAAAC
31153113 CCAAAACTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAAAATAAAGAAAAC
Found at i:31165786 original size:55 final size:55
Alignment explanation
Indices: 31165687--31165803 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
31165677 CTGCCAAAAC
* * *
31165687 AACACGGGTGTTCGACACGCCCGTGCCTTGAAACCGTGGCCAAACCTGTCAAATT
1 AACACGGGCGTGCGACACGCCCGTGCCTAGAAACCGTGGCCAAACCTGTCAAATT
* * * * * * *
31165742 AACACGGGCGTGCGACATGCCCGTG-CTAAGCAACTGTGGTCAAACTTGTTAGATT
1 AACACGGGCGTGCGACACGCCCGTGCCT-AGAAACCGTGGCCAAACCTGTCAAATT
31165797 AACACGG
1 AACACGG
31165804 CCATAGGACT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCGTGCCTAGAAACCGTGGCCAAACCTGTCAAATT
Found at i:31167783 original size:22 final size:23
Alignment explanation
Indices: 31167733--31167784 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
31167723 ATGTTTTTAC
*
31167733 TTTTATTCTACTTTAGGACTACT
1 TTTTATTCTACTTTAAGACTACT
*
31167756 TTTTATTCTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
31167778 TTTTATT
1 TTTTATT
31167785 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:31171745 original size:37 final size:37
Alignment explanation
Indices: 31171695--31171769 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
31171685 TAAAAAGATA
31171695 ATGGCACCAAATCTTCAAAGCAAACACAATCGCAGCT
1 ATGGCACCAAATCTTCAAAGCAAACACAATCGCAGCT
31171732 ATGGCACCAAATCTTCAAAGCAAACACAATCGCAGCT
1 ATGGCACCAAATCTTCAAAGCAAACACAATCGCAGCT
31171769 A
1 A
31171770 ACTCAAGATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.29, G:0.13, T:0.16
Consensus pattern (37 bp):
ATGGCACCAAATCTTCAAAGCAAACACAATCGCAGCT
Found at i:31177003 original size:18 final size:18
Alignment explanation
Indices: 31176966--31177004 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31176956 TTGGAAATCA
*
31176966 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
31176984 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
31177002 AAA
1 AAA
31177005 AATCATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:31184632 original size:52 final size:51
Alignment explanation
Indices: 31184568--31184694 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 51
31184558 ATGGCAACAT
* *
31184568 GTGATAAGTGATAGCTTCGGCTACACTTATCTCTGATCAAGAACAAGTGA-AA
1 GTGATAAATGATAGCTTCGGCTACACTTA--TCTGATCAAGAACAAATGACAA
*
31184620 GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAA
1 GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATGACAA
* *
31184671 GTGA-AAAGTGGTAGCTTCGACTAC
1 GTGATAAA-TGATAGCTTCGGCTAC
31184695 CTAATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
50 20 0.29
51 20 0.29
52 28 0.41
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
GTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATGACAA
Found at i:31184708 original size:31 final size:31
Alignment explanation
Indices: 31184670--31184848 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
31184660 ACAAATGACA
* *
31184670 AGTGAAAAGTGGTAGCTTCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
31184701 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
31184732 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
31184763 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
31184794 AGTGAAAAAT-GTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
31184824 AGTGAATAGTGGAAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
31184849 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 27 0.20
31 110 0.80
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:31191008 original size:18 final size:17
Alignment explanation
Indices: 31190973--31191017 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
31190963 TCATCTTGTA
31190973 AAGAAAAAGAGATCGAG
1 AAGAAAAAGAGATCGAG
*
31190990 AGCGAAAAAGAGTAT-GAG
1 A-AGAAAAAGAG-ATCGAG
31191008 AAGAAAAAGA
1 AAGAAAAAGA
31191018 AAATTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 13 0.54
19 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.29, T:0.07
Consensus pattern (17 bp):
AAGAAAAAGAGATCGAG
Found at i:31198220 original size:21 final size:23
Alignment explanation
Indices: 31198161--31198226 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
31198151 GCTTTACTGA
31198161 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
31198184 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
31198206 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
31198227 ACTGATTAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:31200612 original size:81 final size:81
Alignment explanation
Indices: 31200477--31200638 Score: 272
Period size: 81 Copynumber: 2.0 Consensus size: 81
31200467 ACATCACTTA
31200477 ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAACAACTCATAAGTCCAAGCTAAAACA
1 ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAACAACTCATAAGTCCAAGCTAAAACA
*
31200542 GAGTCCTAACCACCCT
66 GAGTCCCAACCACCCT
* * *
31200558 ACACTTAAACAAGTCATTAAATT-AGCGCAATGATTACAGATAACTCATCAGTCCAAGCTAAAAC
1 ACACTTAAACAAGTCATTAAATTAAG-GCAATGATTACAAACAACTCATAAGTCCAAGCTAAAAC
31200622 AGAGTCCCAACCACCCT
65 AGAGTCCCAACCACCCT
31200639 TACTAAAGTC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (81 bp):
ACACTTAAACAAGTCATTAAATTAAGGCAATGATTACAAACAACTCATAAGTCCAAGCTAAAACA
GAGTCCCAACCACCCT
Found at i:31203006 original size:26 final size:25
Alignment explanation
Indices: 31202970--31203021 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
31202960 GAACGAACTT
* *
31202970 TCGTCAAAATTTTCCTAGGGGTAAAA
1 TCGTCAAAATTTTACTA-GAGTAAAA
31202996 TCGTCAAAATTTTACTAGAGTAAAA
1 TCGTCAAAATTTTACTAGAGTAAAA
31203021 T
1 T
31203022 TGAGATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (25 bp):
TCGTCAAAATTTTACTAGAGTAAAA
Found at i:31205445 original size:40 final size:40
Alignment explanation
Indices: 31205356--31205445 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
31205346 AAAATATTTT
*
31205356 TGAATTGCACATACGTGCCACTGTTAGTACTTGATACCCC
1 TGAATTGCACATACGTGCCACTATTAGTACTTGATACCCC
* * * * *
31205396 TAAATTGCACATACGTGCCCCTATTTGTTCTTCGGTACCCC
1 TGAATTGCACATACGTGCCACTATTAGTACTT-GATACCCC
31205437 TGAA-TGCAC
1 TGAATTGCAC
31205446 TTTTGCACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 32 0.76
41 10 0.24
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (40 bp):
TGAATTGCACATACGTGCCACTATTAGTACTTGATACCCC
Found at i:31213030 original size:21 final size:21
Alignment explanation
Indices: 31213006--31213045 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31212996 TGTGGATGTA
31213006 TCTGACTG-TGTTGATTGTAGT
1 TCTG-CTGTTGTTGATTGTAGT
*
31213027 TCTGTTGTTGTTGATTGTA
1 TCTGCTGTTGTTGATTGTA
31213046 ATTCCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.53
Consensus pattern (21 bp):
TCTGCTGTTGTTGATTGTAGT
Found at i:31213055 original size:21 final size:21
Alignment explanation
Indices: 31213014--31213055 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31213004 TATCTGACTG
* **
31213014 TGTTGATTGTAGTTCTGTTGT
1 TGTTGATTGTAATTCCCTTGT
31213035 TGTTGATTGTAATTCCCTTGT
1 TGTTGATTGTAATTCCCTTGT
31213056 CTTGAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (21 bp):
TGTTGATTGTAATTCCCTTGT
Found at i:31214314 original size:15 final size:16
Alignment explanation
Indices: 31214294--31214323 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31214284 AATATTATGA
31214294 AATAAAAA-CAAACAC
1 AATAAAAATCAAACAC
31214309 AATAAAAATCAAACA
1 AATAAAAATCAAACA
31214324 AACGCCATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.17, G:0.00, T:0.10
Consensus pattern (16 bp):
AATAAAAATCAAACAC
Found at i:31215652 original size:42 final size:42
Alignment explanation
Indices: 31215599--31215678 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
31215589 AAGTATTTTA
31215599 TTTTTTTATTTTAAAAAATTAATAAATATATATACAATTAAT
1 TTTTTTTATTTTAAAAAATTAATAAATATATATACAATTAAT
31215641 TTTTTTTATTTTAAAAAATTAATAAATATATATACAAT
1 TTTTTTTATTTTAAAAAATTAATAAATATATATACAAT
31215679 GAGATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (42 bp):
TTTTTTTATTTTAAAAAATTAATAAATATATATACAATTAAT
Found at i:31217522 original size:20 final size:21
Alignment explanation
Indices: 31217475--31217524 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
31217465 ATGCCACATC
31217475 AGTATTCTTATCCTGAATTTCA
1 AGTATT-TTATCCTGAATTTCA
*
31217497 AG-ATTTTATCCTGAATTT-T
1 AGTATTTTATCCTGAATTTCA
31217516 AGTATTTTA
1 AGTATTTTA
31217525 ATTTGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 3 0.12
22 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (21 bp):
AGTATTTTATCCTGAATTTCA
Found at i:31246506 original size:16 final size:16
Alignment explanation
Indices: 31246485--31246541 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
31246475 TTTGGTTCGC
*
31246485 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
31246501 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
31246517 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
31246533 TGTAATGGA
1 TGTAATGGA
31246542 AAAACTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:31246808 original size:18 final size:17
Alignment explanation
Indices: 31246787--31246821 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31246777 TTATTATTAA
*
31246787 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31246805 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31246822 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31246958 original size:16 final size:16
Alignment explanation
Indices: 31246921--31246962 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
31246911 TTAATCATAT
*
31246921 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
31246937 TT-AAATATATTATAA
1 TTAAAATATATTATAA
31246952 TTAAAATATAT
1 TTAAAATATAT
31246963 AATTTAATAN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:31246960 original size:154 final size:156
Alignment explanation
Indices: 31246674--31246971 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
31246664 TAGAATACCC
31246674 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
31246739 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
31246804 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
31246831 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
31246894 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
31246959 ATATAATTTAATA
131 ATATAATTTAATA
31246972 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:31246969 original size:14 final size:15
Alignment explanation
Indices: 31246930--31246971 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31246920 TTTAAACATA
*
31246930 ATTATTATTAAATAT
1 ATTATAATTAAATAT
31246945 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
31246959 A-TATAATTTAATA
1 ATTATAATTAAATA
31246972 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:31250195 original size:11 final size:11
Alignment explanation
Indices: 31250181--31250207 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31250171 AAAAATCAAT
31250181 ACAAAAGTTTC
1 ACAAAAGTTTC
31250192 ACAAAAGTTTC
1 ACAAAAGTTTC
31250203 ACAAA
1 ACAAA
31250208 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:31253690 original size:21 final size:21
Alignment explanation
Indices: 31253647--31253702 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
31253637 AAGCAGATGG
*
31253647 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
31253669 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
31253690 AGCCACTGCAAAC
1 AGCCACTGCAAAC
31253703 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:31254812 original size:33 final size:33
Alignment explanation
Indices: 31254770--31254905 Score: 167
Period size: 33 Copynumber: 4.3 Consensus size: 33
31254760 AAAAATGGCA
*
31254770 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
**
31254803 AGAGAAACAAAA-A----ACCA-CTACAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
*
31254831 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
* *
31254864 AAAGAAACAAAACACGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
31254897 AGAGAAACA
1 AGAGAAACA
31254906 TAAAGCAGAC
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 21 0.24
29 3 0.03
32 3 0.03
33 59 0.69
ACGTcount: A:0.61, C:0.14, G:0.18, T:0.07
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:31254889 original size:18 final size:17
Alignment explanation
Indices: 31254836--31254890 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
31254826 AAAATAGAGG
31254836 AACAAAACATGGTACAGA
1 AACAAAACA-GGTACAGA
*
31254854 AACAGAAA-A--TAAAGA
1 AACA-AAACAGGTACAGA
31254869 AACAAAACACGGTACAGA
1 AACAAAACA-GGTACAGA
31254887 AACA
1 AACA
31254891 GAAAATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.62, C:0.16, G:0.15, T:0.07
Consensus pattern (17 bp):
AACAAAACAGGTACAGA
Found at i:31255745 original size:9 final size:10
Alignment explanation
Indices: 31255721--31255771 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
31255711 CACAATAATC
31255721 CTCTCACAATT
1 CTCTCA-AATT
31255732 CTCTCTAAATT
1 CTCTC-AAATT
31255743 CTCTCCAAATT
1 CTCT-CAAATT
31255754 CTCTCAAATTT
1 CTCTCAAA-TT
31255765 CTCTCAA
1 CTCTCAA
31255772 TTTTTGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 31 0.84
12 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:31257526 original size:30 final size:30
Alignment explanation
Indices: 31257467--31257527 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
31257457 ACGCGGGCTT
*
31257467 ATCAACAGCGCCCACACAATCACCAGGCCC
1 ATCAACAGCGCCCACACAACCACCAGGCCC
* *
31257497 ATCAACAGCGCCCACACAGCCACCTGGCCC
1 ATCAACAGCGCCCACACAACCACCAGGCCC
31257527 A
1 A
31257528 ACACTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.48, G:0.15, T:0.07
Consensus pattern (30 bp):
ATCAACAGCGCCCACACAACCACCAGGCCC
Found at i:31258382 original size:14 final size:15
Alignment explanation
Indices: 31258363--31258392 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31258353 TCTGTGTTTA
31258363 TTATGTGTG-AATTT
1 TTATGTGTGAAATTT
31258377 TTATGTGTGAAATTT
1 TTATGTGTGAAATTT
31258392 T
1 T
31258393 CGTGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (15 bp):
TTATGTGTGAAATTT
Found at i:31259549 original size:44 final size:43
Alignment explanation
Indices: 31259485--31259603 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 43
31259475 GTGTTTTCAT
* * * *
31259485 GTAATACCACGTCTGAGACATTGGCATCGATATATGTGGTTAAA
1 GTAAGACCATGTCTGGGACATTGGCATCGATATAT-TGATTAAA
* * ***
31259529 GTAAGACCATGTCTGGGACATCGACATCG-TAT-TTGATTTGT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATTGATTAAA
* *
31259570 GTAAGACCCTGTCTGGGACAATGGCATCGATATA
1 GTAAGACCATGTCTGGGACATTGGCATCGATATA
31259604 AGACCCTGTC
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 29 0.48
42 4 0.07
43 3 0.05
44 24 0.40
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCGATATATTGATTAAA
Found at i:31259609 original size:31 final size:31
Alignment explanation
Indices: 31259571--31259633 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
31259561 TTGATTTGTG
31259571 TAAGACCCTGTCTGGGACAATGGCATCGATA
1 TAAGACCCTGTCTGGGACAATGGCATCGATA
31259602 TAAGACCCTGTCTGGGACAATGGCATCGATA
1 TAAGACCCTGTCTGGGACAATGGCATCGATA
31259633 T
1 T
31259634 GAGATAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (31 bp):
TAAGACCCTGTCTGGGACAATGGCATCGATA
Found at i:31266285 original size:27 final size:28
Alignment explanation
Indices: 31266201--31266298 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
31266191 CATGAGATTG
* * * *
31266201 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31266230 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31266258 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31266285 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31266299 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31266309 original size:27 final size:27
Alignment explanation
Indices: 31266229--31266311 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
31266219 TAAATTGTAC
* *
31266229 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31266257 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
31266284 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
31266311 A
1 A
31266312 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:31266312 original size:29 final size:27
Alignment explanation
Indices: 31266201--31266312 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
31266191 CATGAGATTG
** * *
31266201 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
31266230 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
31266258 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
31266285 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
31266313 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:31273833 original size:2 final size:2
Alignment explanation
Indices: 31273826--31273855 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31273816 CATTCCGAAG
31273826 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
31273856 CACAAGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31274374 original size:28 final size:28
Alignment explanation
Indices: 31274306--31274459 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
31274296 CATGAGATTG
* * * *
31274306 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31274335 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31274363 GCACTAAGTGTGCGAGTTGGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31274391 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31274419 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31274446 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31274460 GACTTAATAT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.20
28 76 0.64
29 18 0.15
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31276251 original size:125 final size:125
Alignment explanation
Indices: 31275998--31276260 Score: 454
Period size: 125 Copynumber: 2.1 Consensus size: 125
31275988 GGGTGTTACA
**
31275998 TTTTCCGTAATTTTGCTGACAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTATTCAGAAAC
1 TTTTCCGTAATTTTGCTGACAGTGCATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAAC
*
31276063 ATCTTCTCAAAATTATTTTTTAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTT
66 ATCTTCTCAAAATTATTTTTTAGATACTACTGTAGCAAAAGAGCATCAACGTGGGAGCTT
*
31276123 TTTTCCGTAATTTTGCTGACAGTGCATCCTTTTTGAAGCATTTTTGACACTATTTATTCAGAAAC
1 TTTTCCGTAATTTTGCTGACAGTGCATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAAC
* **
31276188 ATCTTCTCAAAATTATTTTTTCAGATACTATTGTAGCAAAAGAGTGTCAACGTGGGAGCTT
66 ATCTTCTCAAAATTATTTTTT-AGATACTACTGTAGCAAAAGAGCATCAACGTGGGAGCTT
31276249 TTTTCCGTAATT
1 TTTTCCGTAATT
31276261 AATAGTGAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 83 0.64
126 47 0.36
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (125 bp):
TTTTCCGTAATTTTGCTGACAGTGCATCCTTCTTGAAGCATTTTTGACACTATTTATTCAGAAAC
ATCTTCTCAAAATTATTTTTTAGATACTACTGTAGCAAAAGAGCATCAACGTGGGAGCTT
Found at i:31276406 original size:17 final size:17
Alignment explanation
Indices: 31276386--31276422 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31276376 TAAAAAATCT
31276386 AAAACCTTAAACCCTAA
1 AAAACCTTAAACCCTAA
31276403 AAAACCTTAAACCCTAA
1 AAAACCTTAAACCCTAA
31276420 AAA
1 AAA
31276423 TCCTAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAACCTTAAACCCTAA
Found at i:31278274 original size:25 final size:25
Alignment explanation
Indices: 31278246--31278312 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
31278236 TTTTTTATAA
* *
31278246 ACTTTAAATTAGGAATTCTATTCGG
1 ACTTTAAATTAGGAATTCTACTCAG
31278271 ACTTTAAATTAGGAATTCTACTCAG
1 ACTTTAAATTAGGAATTCTACTCAG
*
31278296 ACTTTAAATTAGAAATT
1 ACTTTAAATTAGGAATT
31278313 AGATTAGGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTACTCAG
Found at i:31278323 original size:25 final size:25
Alignment explanation
Indices: 31278246--31278325 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
31278236 TTTTTTATAA
*
31278246 ACTTTAAATTAGGAATTCTATTCGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
31278271 ACTTTAAATTAGGAATTCTACTCA-G
1 ACTTTAAATTAGGAATTCTA-TTAGG
* **
31278296 ACTTTAAATTAGAAATTAGATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
31278321 ACTTT
1 ACTTT
31278326 CCCTTTGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.04
25 44 0.94
26 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:31280902 original size:22 final size:22
Alignment explanation
Indices: 31280874--31280917 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31280864 TGGCTGAACC
31280874 CTTAACATCTCTTCTAAAGAAA
1 CTTAACATCTCTTCTAAAGAAA
31280896 CTTAACATCTCTTCTAAAGAAA
1 CTTAACATCTCTTCTAAAGAAA
31280918 AATGCTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (22 bp):
CTTAACATCTCTTCTAAAGAAA
Found at i:31283022 original size:25 final size:25
Alignment explanation
Indices: 31282948--31283027 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
31282938 TTTTTTATAA
*
31282948 ACTTTAAATTAGGAATTCTATTAGA
1 ACTTTAAATTAGGAATTCTATTAGG
*
31282973 ACTTTAAATTAGGAATTCTACTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
**
31282998 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
31283023 ACTTT
1 ACTTT
31283028 CCCTTTGTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:31287556 original size:14 final size:14
Alignment explanation
Indices: 31287539--31287567 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31287529 AAGAGGTGGA
31287539 TAAGAAGACACATC
1 TAAGAAGACACATC
31287553 TAAGAAGACACATC
1 TAAGAAGACACATC
31287567 T
1 T
31287568 CACATGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (14 bp):
TAAGAAGACACATC
Found at i:31291619 original size:24 final size:25
Alignment explanation
Indices: 31291575--31291621 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31291565 AATCCTTATA
*
31291575 CTTTAATTTTTTGTTATTTTTAATC
1 CTTTAATTTTTTGTTAATTTTAATC
*
31291600 CTTTTATTTTTT-TTAATTTTAA
1 CTTTAATTTTTTGTTAATTTTAA
31291622 AATTGTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (25 bp):
CTTTAATTTTTTGTTAATTTTAATC
Found at i:31292175 original size:30 final size:27
Alignment explanation
Indices: 31292119--31292176 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
31292109 ATTAAATATT
* *
31292119 AAATTAAAAATAATATATATTTTTAAA
1 AAATAAAAAATAATATATATTCTTAAA
31292146 AAATAAAAAATTAATATGAATATTCTTAAA
1 AAATAAAAAA-TAATAT--ATATTCTTAAA
31292176 A
1 A
31292177 TGGGTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 6 0.23
30 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
AAATAAAAAATAATATATATTCTTAAA
Found at i:31294064 original size:53 final size:53
Alignment explanation
Indices: 31293983--31294133 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
31293973 CTTACACGGT
* *
31293983 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
31294038 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
31294091 TCACATTGCACCGATGCCATAGCCTAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
31294134 GCACACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:31298689 original size:25 final size:26
Alignment explanation
Indices: 31298628--31298690 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
31298618 TTTTATCTCA
*
31298628 ATAAAGTTTTGACAATTTTACTCCCG
1 ATAAAATTTTGACAATTTTACTCCCG
*
31298654 ATAAAATTTTGACAATTTTAC-CGCG
1 ATAAAATTTTGACAATTTTACTCCCG
*
31298679 GTAAAATTTTGA
1 ATAAAATTTTGA
31298691 GAAAATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (26 bp):
ATAAAATTTTGACAATTTTACTCCCG
Found at i:31299063 original size:30 final size:30
Alignment explanation
Indices: 31299029--31299091 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
31299019 ACTTATTTTA
31299029 TTGTTAATTTTGTTATTACTTTAAAGACAT
1 TTGTTAATTTTGTTATTACTTTAAAGACAT
* **
31299059 TTGTTAATTTTGTTATTATTTTAGGGACAT
1 TTGTTAATTTTGTTATTACTTTAAAGACAT
31299089 TTG
1 TTG
31299092 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTACTTTAAAGACAT
Found at i:31299532 original size:6 final size:6
Alignment explanation
Indices: 31299521--31299554 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
31299511 AGATTGCAAG
* *
31299521 TTTTCA TTTTCA CTTTCA TTTCCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
31299555 TGGAAACCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTCA
Found at i:31301038 original size:10 final size:9
Alignment explanation
Indices: 31301003--31301039 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
31300993 GGGTTTACTC
31301003 ACAATTAAA
1 ACAATTAAA
31301012 ACAATTAAA
1 ACAATTAAA
*
31301021 AAAATTAAA
1 ACAATTAAA
31301030 ACAAGTTAAA
1 ACAA-TTAAA
31301040 CACTAACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (9 bp):
ACAATTAAA
Found at i:31303378 original size:17 final size:17
Alignment explanation
Indices: 31303356--31303390 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31303346 GATAGACTCA
31303356 TATGTAGGGTATGAGAT
1 TATGTAGGGTATGAGAT
31303373 TATGTAGGGTATGAGAT
1 TATGTAGGGTATGAGAT
31303390 T
1 T
31303391 GACACTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (17 bp):
TATGTAGGGTATGAGAT
Found at i:31303532 original size:18 final size:18
Alignment explanation
Indices: 31303509--31303544 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31303499 TATGGCGAGA
*
31303509 GTGAGGGTGAGGGTGGTG
1 GTGAGGGTGAAGGTGGTG
31303527 GTGAGGGTGAAGGTGGTG
1 GTGAGGGTGAAGGTGGTG
31303545 AGGTTGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.64, T:0.22
Consensus pattern (18 bp):
GTGAGGGTGAAGGTGGTG
Found at i:31308814 original size:82 final size:82
Alignment explanation
Indices: 31308673--31309203 Score: 976
Period size: 82 Copynumber: 6.5 Consensus size: 82
31308663 TGAATTAAGC
* **
31308673 TAGT-TAACATATTTTGTTTGTTTTTTTGAAATGATTTGTTGAAATGGT-TTTTAACATCTTACT
1 TAGTATAACATATTTTGTTTG-TTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACT
** *
31308736 TTTATAGGATCATTTCGT
65 ACTATAGGATCATTTTGT
*
31308754 TAGCATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
31308819 CTATAGGATCATTTTGT
66 CTATAGGATCATTTTGT
31308836 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
31308901 CTATAGGATCATTTTGT
66 CTATAGGATCATTTTGT
31308918 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
31308983 CTATAGGATCATTTTGT
66 CTATAGGATCATTTTGT
31309000 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
31309065 CTATAGGATCATTTTGT
66 CTATAGGATCATTTTGT
31309082 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
31309147 CTATAGGATCATTTTGT
66 CTATAGGATCATTTTGT
31309164 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTT
1 TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTT
31309204 GAAAGATGTA
Statistics
Matches: 440, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
81 29 0.07
82 411 0.93
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (82 bp):
TAGTATAACATATTTTGTTTGTTTTTTGAAATGATTTGTTAAAATGGTCAGTTAACATCTTACTA
CTATAGGATCATTTTGT
Found at i:31309470 original size:14 final size:14
Alignment explanation
Indices: 31309451--31309477 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31309441 ATAGAGAGCA
31309451 GTTTTAATCTAATG
1 GTTTTAATCTAATG
31309465 GTTTTAATCTAAT
1 GTTTTAATCTAAT
31309478 AAAAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
GTTTTAATCTAATG
Found at i:31310705 original size:69 final size:69
Alignment explanation
Indices: 31310617--31310755 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
31310607 ATAATTATTT
*
31310617 AATTAGATAAATATTATTTTAGTAATATTTTAATAAGATATATTATTATTATTTTTAGTATATGA
1 AATTAAATAAATATTATTTTAGTAATATTTTAATAAGATATATTATTATTATTTTTAGTATATGA
31310682 GGAA
66 GGAA
*
31310686 AATTAAATAAATTTTATTTTAGTAATATTTTAATAAGATATATTATTATTATTTTTAGTATATGA
1 AATTAAATAAATATTATTTTAGTAATATTTTAATAAGATATATTATTATTATTTTTAGTATATGA
31310751 GGAA
66 GGAA
31310755 A
1 A
31310756 GAAAGATGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (69 bp):
AATTAAATAAATATTATTTTAGTAATATTTTAATAAGATATATTATTATTATTTTTAGTATATGA
GGAA
Found at i:31312694 original size:24 final size:24
Alignment explanation
Indices: 31312647--31312694 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31312637 TCGTTCTGTG
**
31312647 GCAAAGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGAAAAAT
*
31312671 GCAAAGGATGAATTGATGAAAAAT
1 GCAAAGGATGAATTGACGAAAAAT
31312695 TACCCAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGAAAAAT
Found at i:31312809 original size:21 final size:21
Alignment explanation
Indices: 31312785--31312950 Score: 59
Period size: 21 Copynumber: 7.9 Consensus size: 21
31312775 CTCATATGAA
31312785 TTTCAGTTTAGCCCTTATGGG
1 TTTCAGTTTAGCCCTTATGGG
* * * * * *
31312806 TTTCCGTTCAGCTCTTTTAAGC
1 TTTCAGTTTAGCCCTTAT-GGG
* * *
31312828 TGT-AGTTTAACCCTTATAGG
1 TTTCAGTTTAGCCCTTATGGG
* * * * *
31312848 TTTCTGTTCAGCTCTTTTGAG
1 TTTCAGTTTAGCCCTTATGGG
* *
31312869 CTTCAGTTTAACCCTTATGGG
1 TTTCAGTTTAGCCCTTATGGG
* * ** * *
31312890 TTTCTGTTAAGCTTTTACGAGC
1 TTTCAGTTTAGCCCTTATG-GG
*
31312912 TTTC--TTTCAACCCTTATGGG
1 TTTCAGTTT-AGCCCTTATGGG
* *
31312932 TTTCTGTTTAGCACTTATG
1 TTTCAGTTTAGCCCTTATG
31312951 TGCTTCTGTG
Statistics
Matches: 95, Mismatches: 44, Indels: 12
0.63 0.29 0.08
Matches are distributed among these distances:
20 11 0.12
21 73 0.77
22 11 0.12
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTCAGTTTAGCCCTTATGGG
Found at i:31312850 original size:42 final size:42
Alignment explanation
Indices: 31312786--31312939 Score: 183
Period size: 42 Copynumber: 3.7 Consensus size: 42
31312776 TCATATGAAT
* *
31312786 TTCAGTTTAGCCCTTATGGGTTTCCGTTCAGCTCTTTTAAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTAAGC
* *
31312828 TGT-AGTTTAACCCTTATAGGTTTCTGTTCAGCTCTTTTGAGC
1 T-TCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTAAGC
*
31312870 TTCAGTTTAACCCTTATGGGTTTCTGTTAAG--CTTTTACGAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTA--AGC
31312912 TTTC--TTTCAACCCTTATGGGTTTCTGTT
1 -TTCAGTTT-AACCCTTATGGGTTTCTGTT
31312940 TAGCACTTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
40 5 0.05
41 4 0.04
42 86 0.87
43 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTAAGC
Found at i:31312956 original size:84 final size:83
Alignment explanation
Indices: 31312786--31312956 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 83
31312776 TCATATGAAT
* * *
31312786 TTCAGTTTAGCCCTTATGGGTTTCCGTTCAGCTCTTTTAAGCTGTAGTTTAACCCTTATAGGTTT
1 TTCAGTTTAACCCTTATGGGTTTCCGTTAAGC-CTTTTAAGCTGTACTTTAACCCTTATAGGTTT
* *
31312851 CTGTTCAGCTCTTTTGAGC
65 CTGTTCAGCACTTATGAGC
* * *
31312870 TTCAGTTTAACCCTTATGGGTTTCTGTTAAG-CTTTTACGAGCT-TTCTTTCAACCCTTATGGGT
1 TTCAGTTTAACCCTTATGGGTTTCCGTTAAGCCTTTTA--AGCTGTACTTT-AACCCTTATAGGT
* *
31312933 TTCTGTTTAGCACTTATGTGC
63 TTCTGTTCAGCACTTATGAGC
31312954 TTC
1 TTC
31312957 TGTGCAGCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.08
83 4 0.05
84 64 0.86
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (83 bp):
TTCAGTTTAACCCTTATGGGTTTCCGTTAAGCCTTTTAAGCTGTACTTTAACCCTTATAGGTTTC
TGTTCAGCACTTATGAGC
Found at i:31314413 original size:9 final size:9
Alignment explanation
Indices: 31314399--31314427 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31314389 ATCAACATCC
31314399 AATTAAAAA
1 AATTAAAAA
31314408 AATTAAAAA
1 AATTAAAAA
31314417 AA-TAAAAA
1 AATTAAAAA
31314425 AAT
1 AAT
31314428 CCCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATTAAAAA
Found at i:31319113 original size:4 final size:4
Alignment explanation
Indices: 31319098--31319188 Score: 64
Period size: 4 Copynumber: 22.0 Consensus size: 4
31319088 TAATTAATAA
* *
31319098 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACG AAACG AAACG AAACAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAA-G AAA-G AAA-G -AA-AG
*
31319148 AAAG -AAG AAAG AAAG -AA- AAAG AAA- AAGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
31319189 TAGAAAGACA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
3 9 0.12
4 40 0.55
5 20 0.27
6 3 0.04
7 1 0.01
ACGTcount: A:0.69, C:0.05, G:0.23, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:31319131 original size:5 final size:5
Alignment explanation
Indices: 31319121--31319150 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
31319111 AAGAAAGATA
31319121 GAAAC GAAAC GAAAC GAAAC GAAAC AGAAA
1 GAAAC GAAAC GAAAC GAAAC GAAAC -GAAA
31319151 GAAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.63, C:0.17, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAC
Found at i:31321548 original size:27 final size:27
Alignment explanation
Indices: 31321510--31321561 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31321500 TGGTGCAATA
*
31321510 GAATTCTTAGGATTGAAAGGCGTTGGT
1 GAATTCTTAGGATTGAAAGGAGTTGGT
*
31321537 GAATTTTTAGGATTGAAAGGAGTTG
1 GAATTCTTAGGATTGAAAGGAGTTG
31321562 ATCCTTCTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.35
Consensus pattern (27 bp):
GAATTCTTAGGATTGAAAGGAGTTGGT
Found at i:31328623 original size:26 final size:26
Alignment explanation
Indices: 31328594--31328700 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
31328584 TGATACAAAT
31328594 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31328620 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31328646 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31328672 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
31328697 TGAT
1 TGAT
31328701 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 6 0.08
26 70 0.92
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31331556 original size:4 final size:4
Alignment explanation
Indices: 31331541--31331631 Score: 64
Period size: 4 Copynumber: 22.0 Consensus size: 4
31331531 TAATTAATAA
* *
31331541 AAAG AAAT AAAG AAAG AAAG ATAG AAACG AAACG AAACG AAACG AAACAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAA-G AAA-G AAA-G -AA-AG
*
31331591 AAAG -AAG AAAG AAAG -AA- AAAG AAA- AAGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
31331632 TAGAAAGACA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
3 9 0.12
4 40 0.55
5 20 0.27
6 3 0.04
7 1 0.01
ACGTcount: A:0.69, C:0.05, G:0.23, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:31331574 original size:5 final size:5
Alignment explanation
Indices: 31331564--31331593 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
31331554 AAGAAAGATA
31331564 GAAAC GAAAC GAAAC GAAAC GAAAC AGAAA
1 GAAAC GAAAC GAAAC GAAAC GAAAC -GAAA
31331594 GAAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.63, C:0.17, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAC
Found at i:31338834 original size:36 final size:36
Alignment explanation
Indices: 31338791--31338860 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
31338781 CTTTTATGTT
31338791 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
1 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
*
31338827 AGTTTGTGTGTTTATTTTAACTTTTTCGCCTTTT
1 AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTT
31338861 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (36 bp):
AGTTTGTGTGTTTATTTTAACTTTTTCACCTTTTTC
Found at i:31344346 original size:160 final size:160
Alignment explanation
Indices: 31344157--31344448 Score: 383
Period size: 160 Copynumber: 1.8 Consensus size: 160
31344147 TAAGGATGGG
* * *
31344157 AATCAAGTTTGAAAAACTATTGTCCAAATCAAGGACTAAGATTACA-AAATTCATTAAATTAGGT
1 AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTA-AGAAATTCATTAAATTAAGT
* * * *
31344221 AATTCAAAAAAGAAAGAATTCTT-ATTTGAAGCATCGTAAAAAAA-CTTCTTCCTCTAAAATTTT
65 AATTCAAAAAAGAAAGAATTCTTAATTT-AAGC-TCATAAAAAAAGCTTCTCCCTCAAAAAGTTT
31344284 AATTGATCAATTACAGGGGGTAATTGGGGTGGA
128 AATTGATCAATTACAGGGGGTAATTGGGGTGGA
** * * *
31344317 AATCAAGTTTGAAAATTTGTTATCCAAATCAAAGACTGAGATTAAGAAATTCGTTAAATTAAGTA
1 AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTAAGAAATTCATTAAATTAAGTA
* * * * *
31344382 ATTCATATAAGGAATAATTCTTAATTTAAGCTTATAAAAAAAGCTTCTCCCTCAAAAAGTTTAAT
66 ATTCAAAAAAGAAAGAATTCTTAATTTAAGCTCATAAAAAAAGCTTCTCCCTCAAAAAGTTTAAT
31344447 TG
131 TG
31344449 GTGAATTAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
159 10 0.09
160 98 0.88
161 4 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (160 bp):
AATCAAGTTTGAAAAACTATTATCCAAATCAAAGACTAAGATTAAGAAATTCATTAAATTAAGTA
ATTCAAAAAAGAAAGAATTCTTAATTTAAGCTCATAAAAAAAGCTTCTCCCTCAAAAAGTTTAAT
TGATCAATTACAGGGGGTAATTGGGGTGGA
Found at i:31346154 original size:62 final size:62
Alignment explanation
Indices: 31346063--31346531 Score: 492
Period size: 62 Copynumber: 7.5 Consensus size: 62
31346053 GTGTAGGGTT
* * * *
31346063 CACACGGCTAGGGACACGAGCGTGTGCCCAAGCTGTGTAACTCACTGCTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* ** * * * * * *
31346125 CATACAACCAGGGACATGAGCATGTGCCCAAGCCGTGTAACTCATTATTTATACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * ** * * *
31346187 CACACGGCCAGGGACACGGGTGTGTGTTCAGGGCTTGTAACTCACTTTTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * *
31346249 CACACGGCCAGGGATACGGGCGTGTGCCCAGGCTGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * * * * *
31346311 CACATGGCTAAGGACACGGGCGTATGCCCAGGCCGTGTAATTCACAGTTTGTACTTAAGAAC
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * ** * * *
31346373 CACACGACCAGGGATACGAGCGTGTGCTTAGGCCGTGTAACTCACTGTTTGTAGTTAACAAT
1 CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* * * * *
31346435 TACACGGCCAGGGACACG-GACGTGTGCCCAGGTCGTGTAACTCGCTGTTTGTGCTTAAAAAC
1 CACACGGCCAGGGACACGAG-CGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
* *
31346497 CACACGGCCAAGGCACACG-GACGTATGCCCAGGCC
1 CACACGGCC-AGGGACACGAG-CGTGTGCCCAGGCC
31346532 ATGTGGTAGG
Statistics
Matches: 333, Mismatches: 72, Indels: 3
0.82 0.18 0.01
Matches are distributed among these distances:
61 1 0.00
62 310 0.93
63 22 0.07
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (62 bp):
CACACGGCCAGGGACACGAGCGTGTGCCCAGGCCGTGTAACTCACTGTTTGTACTTAAGAAC
Found at i:31346377 original size:186 final size:186
Alignment explanation
Indices: 31346063--31346531 Score: 557
Period size: 186 Copynumber: 2.5 Consensus size: 186
31346053 GTGTAGGGTT
* * * * *
31346063 CACACGGCTAGGGACACGAGCGTGTGCCCAAGCTGTGTAACTCACTGCTTGTACTTAAGAACCAT
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCTGTGTAACTCACTGTTTGTACTTAAGAACCAC
** * * * * * * *
31346128 ACAACCAGGGACATGAGCATGTGCCCAAGCCGTGTAACTCATTATTTATACTTAAGAACCACACG
66 ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCATTTATACTTAAGAACCACACG
* * * * * * *
31346193 GCCAGGGACACGGGTGTGTG-TTCAGGGCTTGTAACTCACTTTTTGTACTTAAGAAC
131 ACCAGGGACACGAGCGTGTGCTT-AGGCCGTGTAACTCACTGTTTGTACTTAACAAC
* *
31346249 CACACGGCCAGGGATACGGGCGTGTGCCCAGGCTGTGTAACTCACTATTTGTACTTAAGAACCAC
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCTGTGTAACTCACTGTTTGTACTTAAGAACCAC
* * * *
31346314 ATGGCTAAGGACACGGGCGTATGCCCAGGCCGTGTAATTCA-CAGTTTGTACTTAAGAACCACAC
66 ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCA-TTTATACTTAAGAACCACAC
* * *
31346378 GACCAGGGATACGAGCGTGTGCTTAGGCCGTGTAACTCACTGTTTGTAGTTAACAAT
130 GACCAGGGACACGAGCGTGTGCTTAGGCCGTGTAACTCACTGTTTGTACTTAACAAC
* * * * *
31346435 TACACGGCCAGGGACACGGACGTGTGCCCAGG-TCGTGTAACTCGCTGTTTGTGCTTAAAAACCA
1 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCT-GTGTAACTCACTGTTTGTACTTAAGAACCA
*
31346499 CACGGCCAAGGCACACGGACGTATGCCCAGGCC
65 CACGGCCAAGG-ACACGGGCGTATGCCCAGGCC
31346532 ATGTGGTAGG
Statistics
Matches: 239, Mismatches: 40, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
185 2 0.01
186 215 0.90
187 22 0.09
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (186 bp):
CACACGGCCAGGGACACGGGCGTGTGCCCAGGCTGTGTAACTCACTGTTTGTACTTAAGAACCAC
ACGGCCAAGGACACGGGCGTATGCCCAGGCCGTGTAACTCATCATTTATACTTAAGAACCACACG
ACCAGGGACACGAGCGTGTGCTTAGGCCGTGTAACTCACTGTTTGTACTTAACAAC
Found at i:31346884 original size:30 final size:30
Alignment explanation
Indices: 31346849--31346905 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31346839 AGGAACTTCT
31346849 ACACGGGTA-ATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
*
31346879 ACACGGGTAGACTACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
31346906 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.18
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:31351558 original size:20 final size:20
Alignment explanation
Indices: 31351533--31351571 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31351523 TCTTCTCCCT
31351533 ACCCACACACCCA-CCATTCC
1 ACCCACAC-CCCAGCCATTCC
31351553 ACCCACACCCCAGCCATTC
1 ACCCACACCCCAGCCATTC
31351572 GCAATACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.59, G:0.03, T:0.10
Consensus pattern (20 bp):
ACCCACACCCCAGCCATTCC
Found at i:31353339 original size:21 final size:21
Alignment explanation
Indices: 31353299--31353339 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31353289 ACTGTGTTCA
* *
31353299 GAGGTTCGACAGTCTTGATGC
1 GAGGTTCGACAGTATCGATGC
31353320 GAGGTTCGACAGTATCGATG
1 GAGGTTCGACAGTATCGATG
31353340 AGACTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (21 bp):
GAGGTTCGACAGTATCGATGC
Found at i:31353443 original size:6 final size:6
Alignment explanation
Indices: 31353428--31353472 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
31353418 TTTGAGTCCA
31353428 TTTA-T TTTATT TTTATT TTTATT TTT-TAT TTTATCT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTAT-T TTTATT TTT
31353473 GAAAACTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
5 5 0.14
6 24 0.67
7 7 0.19
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:31353456 original size:19 final size:19
Alignment explanation
Indices: 31353428--31353472 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
31353418 TTTGAGTCCA
*
31353428 TTTATTTTAT-TTTTAT-T
1 TTTATTTTTTATTTTATCT
31353445 TTTATTTTTTATTTTATCT
1 TTTATTTTTTATTTTATCT
31353464 TTTATTTTT
1 TTTATTTTT
31353473 GAAAACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 10 0.40
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTATTTTTTATTTTATCT
Found at i:31363254 original size:62 final size:62
Alignment explanation
Indices: 31363181--31363372 Score: 285
Period size: 62 Copynumber: 3.1 Consensus size: 62
31363171 GTGCAGGGTT
*
31363181 CACACGGCCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
* *
31363243 CACACGACCAGGGACACGGGCGTGTGCCTAGGTCGTGTAACTCACTATTTGTACTTAAGAAC
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
* *** * * * *
31363305 CACACGACCAGGAACACGGGCAAATGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAAT
1 CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
31363367 CACACG
1 CACACG
31363373 GTGGGCCCAG
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 118 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (62 bp):
CACACGACCAGGGACACGGGCGTGTGCCAAGGCCGTGTAACTCACTATTTGTACTTAAGAAC
Found at i:31363480 original size:109 final size:109
Alignment explanation
Indices: 31363280--31363482 Score: 273
Period size: 109 Copynumber: 1.9 Consensus size: 109
31363270 CTAGGTCGTG
*
31363280 TAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACGGGCAAATGCCCAGGCCATGTAA
1 TAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCCCAGGCCATGTAA
* * *
31363345 CTCACTGTTTGTACTTAAGAATCACACGGTGGGCCCAGGCCATA
66 CTCACTATTTGTACTTAAAAACCACACGGTGGGCCCAGGCCATA
* * * * * *** *
31363389 TAACTCACTGTTTGTACTTAAGAACCACATGGCTAGGGACACAGGCGTGTGCCCAGGTCATGTAA
1 TAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCCCAGGCCATGTAA
31363454 CTCACTATTTGTGA-TTAAAAACCACACGG
66 CTCACTATTTGT-ACTTAAAAACCACACGG
31363483 CCAAGGCACA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
109 79 0.99
110 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (109 bp):
TAACTCACTATTTGTACTTAAGAACCACACGACCAGGAACACAGGCAAATGCCCAGGCCATGTAA
CTCACTATTTGTACTTAAAAACCACACGGTGGGCCCAGGCCATA
Found at i:31374517 original size:4 final size:4
Alignment explanation
Indices: 31374508--31374532 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31374498 TAAGGAGCGA
31374508 GGAT GGAT GGAT GGAT GGAT GGAT G
1 GGAT GGAT GGAT GGAT GGAT GGAT G
31374533 AGGGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GGAT
Found at i:31375313 original size:21 final size:21
Alignment explanation
Indices: 31375287--31375332 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31375277 TAGAAACCGG
31375287 TAAAATTGTA-ATTCCAGAAAA
1 TAAAATT-TATATTCCAGAAAA
* *
31375308 TAAAATTTATTTTTCAGAAAA
1 TAAAATTTATATTCCAGAAAA
31375329 TAAA
1 TAAA
31375333 TTCACACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
TAAAATTTATATTCCAGAAAA
Found at i:31380318 original size:56 final size:56
Alignment explanation
Indices: 31380251--31380364 Score: 194
Period size: 56 Copynumber: 2.0 Consensus size: 56
31380241 ATAAGATGGA
*
31380251 TAGCAGGAATGAGGAGTATAAACTCCTCGAA-CACCCATGACCATTCAATGGAGAGG
1 TAGCAGGAATGAGAAGTATAAACTCCTCGAACCA-CCATGACCATTCAATGGAGAGG
*
31380307 TAGCAGGAATGAGAAGTATAAACTCTTCGAACCACCATGACCATTCAATGGAGAGG
1 TAGCAGGAATGAGAAGTATAAACTCCTCGAACCACCATGACCATTCAATGGAGAGG
31380363 TA
1 TA
31380365 AGTCAAGCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 53 0.96
57 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (56 bp):
TAGCAGGAATGAGAAGTATAAACTCCTCGAACCACCATGACCATTCAATGGAGAGG
Found at i:31394153 original size:39 final size:39
Alignment explanation
Indices: 31394099--31394269 Score: 195
Period size: 39 Copynumber: 4.4 Consensus size: 39
31394089 TGCATGGTAT
*
31394099 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
31394138 TGGAAATATATCCGGACTTGAAGTCTGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
31394177 TGGAAATATATCCGGACTTAAAGTCCACAGGC-TAAGTGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
* * * *
31394216 TGGAAAAATATCCGGGC-T-AAGTCCCGAAGGCATTCATGC
1 TGGAAATATATCCGGACTTGAAGT-CCGCAGGC-TTTATGC
* *
31394255 TGGTATTATATCCGG
1 TGGAAATATATCCGG
31394270 GCTAAGTCCT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 4 0.04
38 9 0.08
39 99 0.87
40 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:31394255 original size:78 final size:78
Alignment explanation
Indices: 31394106--31394436 Score: 298
Period size: 78 Copynumber: 4.2 Consensus size: 78
31394096 TATTGGAAAA
* * * * * *
31394106 ATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGGAAATATATCCGGACTTGAAGT-CTGCAGG
1 ATATCCGGGCTT-AAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGG
* *
31394169 C-TTTATGCTGGAAAT
63 CATTCATGCTGGTAAT
* * *
31394184 ATATCCGGACTTAAAGTCC-ACAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTT-AAGTCCGA-AGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGC
*
31394247 ATTCATGCTGGTATT
64 ATTCATGCTGGTAAT
* * * *
31394262 ATATCCGGGC-TAAGTCCTGAAGGCATTCGTGCTAGTATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTTAAGTCC-GAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCA
* **
31394326 TTCGTGCTGGTGCT
65 TTCATGCTGGTAAT
* *** *
31394340 ATATCCGGGC-TAAGTCCTGAAGGCATTCGTGCTGGCGTTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTTAAGTCC-GAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCA
* *
31394404 TTCGTGCTGGTATT
65 TTCATGCTGGTAAT
*
31394418 ATATCTGGGCTTAAAGTCC
1 ATATCCGGGCTT-AAGTCC
31394437 CGCATGCTTT
Statistics
Matches: 217, Mismatches: 27, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
76 10 0.05
77 14 0.06
78 186 0.86
79 1 0.00
80 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (78 bp):
ATATCCGGGCTTAAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCAT
TCATGCTGGTAAT
Found at i:31394270 original size:39 final size:39
Alignment explanation
Indices: 31394223--31394438 Score: 324
Period size: 39 Copynumber: 5.5 Consensus size: 39
31394213 TGCTGGAAAA
*
31394223 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
31394262 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
31394301 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
31394340 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
31394379 ATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
31394418 ATATCTGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
31394439 CATGCTTTTT
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 150 0.94
40 1 0.01
41 8 0.05
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:31394305 original size:117 final size:118
Alignment explanation
Indices: 31394183--31394437 Score: 329
Period size: 117 Copynumber: 2.2 Consensus size: 118
31394173 ATGCTGGAAA
*
31394183 TATATCCGGACTTAAAGT-CCACAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGG
1 TATATCCGGGCTTAAAGTCCCA-AGGCATAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGG
* *
31394246 CATTCATGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTAT
65 CATTCATGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTAT
** **** *
31394300 TATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAGTCCTGAAGG
1 TATATCCGGGCTTAAAGTCCC-AAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGG
* * * *
31394363 CATTCGTGCTGGCGTTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTAT
65 CATTCATGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTAT
*
31394417 TATATCTGGGCTTAAAGTCCC
1 TATATCCGGGCTTAAAGTCCC
31394438 GCATGCTTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
115 4 0.03
116 7 0.06
117 99 0.84
118 1 0.01
119 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (118 bp):
TATATCCGGGCTTAAAGTCCCAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGC
ATTCATGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTAT
Found at i:31420764 original size:17 final size:17
Alignment explanation
Indices: 31420744--31420776 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31420734 TTATACGCAT
*
31420744 ATAATATATATACACAC
1 ATAATATATACACACAC
31420761 ATAATATATACACACA
1 ATAATATATACACACA
31420777 ATTATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATATACACACAC
Found at i:31435747 original size:17 final size:18
Alignment explanation
Indices: 31435725--31435758 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31435715 CACATTGAAG
31435725 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
31435742 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
31435759 CTTCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:31437057 original size:28 final size:28
Alignment explanation
Indices: 31437014--31437087 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
31437004 GGCCCCTTTC
* * *
31437014 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGACCCATCA
* *
31437042 GGCCCAATCACTTTCATATGACCCGTCA
1 GGCCCAATCACATTCATATGACCCATCA
*
31437070 GGCCCAATCACACTCATA
1 GGCCCAATCACATTCATA
31437088 GTCATGCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGACCCATCA
Found at i:31437326 original size:16 final size:16
Alignment explanation
Indices: 31437305--31437337 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31437295 CCAAACTTCT
31437305 GGCTTTTCAGCATTTC
1 GGCTTTTCAGCATTTC
*
31437321 GGCTTTTCGGCATTTC
1 GGCTTTTCAGCATTTC
31437337 G
1 G
31437338 ATATTTTCCT
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:0.09, C:0.24, G:0.24, T:0.42
Consensus pattern (16 bp):
GGCTTTTCAGCATTTC
Found at i:31438773 original size:40 final size:40
Alignment explanation
Indices: 31438703--31438880 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
31438693 AAGCCAAGTA
* * * *
31438703 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
31438742 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31438782 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31438822 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31438862 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31438881 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 13 0.10
40 112 0.90
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31450161 original size:29 final size:29
Alignment explanation
Indices: 31450088--31450326 Score: 273
Period size: 29 Copynumber: 8.2 Consensus size: 29
31450078 TTTGCTAAAT
* *
31450088 GATGGTCGAAACCATCCCTTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTC-ATATTC
* *
31450118 GATGGTTGAAACCATCCCTTTGCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
31450147 AATGGTCGAAGCCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
31450176 GATGGTTGAAACCATCCCTTTTCATATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * *
31450205 GATGGTCGAAACCATCTCTATTCTTTAATT-
1 GATGGTCGAAACCATCCCTTTTC-AT-ATTC
* *
31450235 GATGGTTGAAGCCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
31450264 GATGGTCGTCACCATCCTTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
31450293 GATGGTCGAAACCATCTGTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
31450322 GATGG
1 GATGG
31450327 GCATCAATAC
Statistics
Matches: 175, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
28 3 0.02
29 128 0.73
30 41 0.23
31 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:31450240 original size:88 final size:87
Alignment explanation
Indices: 31450088--31450318 Score: 286
Period size: 88 Copynumber: 2.6 Consensus size: 87
31450078 TTTGCTAAAT
* * * *
31450088 GATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGAAACCATCCCTTTGCATATTCAATGGT
1 GATGGTCGAAACCATCCCTTTTC-ATATTCGATGGTCGAAACCATCTCTTTGCATATTCAATGGT
31450153 CGAAGCCATCCCTTTTCATATTC
65 CGAAGCCATCCCTTTTCATATTC
* * * *
31450176 GATGGTTGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCTCTATT-CTTTAATT-GATG
1 GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCT-TTGC-AT-ATTCAATG
*
31450239 GTTGAAGCCATCCCTTTTCATATTC
63 GTCGAAGCCATCCCTTTTCATATTC
** * * *
31450264 GATGGTCGTCACCATCCTTTTTCATATTCGATGGTCGAAACCATCTGTTTTCATA
1 GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTTTGCATA
31450319 ATCGATGGGC
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
86 1 0.01
87 24 0.20
88 95 0.77
89 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (87 bp):
GATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTTTGCATATTCAATGGTC
GAAGCCATCCCTTTTCATATTC
Found at i:31450293 original size:117 final size:117
Alignment explanation
Indices: 31450087--31450318 Score: 349
Period size: 117 Copynumber: 2.0 Consensus size: 117
31450077 GTTTGCTAAA
*
31450087 TGATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGAAACCATCCCTTTGCATATTCAATGG
1 TGATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTGCATATTCAATGG
*
31450152 TCGAAGCCATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATT
66 TCGAAGCCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATT
* * * * *
31450204 TGATGGTCGAAACCATCTCTATTCTTTAATTGATGGTTGAAGCCATCCCTTTTCATATTCGATGG
1 TGATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTGCATATTCAATGG
* * **
31450269 TCGTCA-CCATCCTTTTTCATATTCGATGGTCGAAACCATCTGTTTTCATA
66 TCG-AAGCCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATA
31450319 ATCGATGGGC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 102 0.99
118 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (117 bp):
TGATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTGCATATTCAATGG
TCGAAGCCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATT
Found at i:31458732 original size:28 final size:28
Alignment explanation
Indices: 31458688--31458765 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
31458678 TTTTGGCTAT
* *
31458688 GTATGGCACTTAATGTGCGAGATATCAA
1 GTATGGAACTTAGTGTGCGAGATATCAA
* * *
31458716 GTATGGAACTTAGTGTGCAAAATATTAA
1 GTATGGAACTTAGTGTGCGAGATATCAA
* * *
31458744 GAACGGTACTTAGTGTGCGAGA
1 GTATGGAACTTAGTGTGCGAGA
31458766 CATCGAGCAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (28 bp):
GTATGGAACTTAGTGTGCGAGATATCAA
Found at i:31466395 original size:27 final size:27
Alignment explanation
Indices: 31466365--31466542 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31466355 ATATTGAGTC
* * * *
31466365 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31466392 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31466419 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31466447 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31466474 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31466501 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31466528 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31466543 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31466504 original size:82 final size:81
Alignment explanation
Indices: 31466386--31466541 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31466376 TGCTATATAA
* *
31466386 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31466451 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31466468 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31466532 CACTTAGTGC
65 CACTTAGTGC
31466542 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31467033 original size:12 final size:12
Alignment explanation
Indices: 31467016--31467042 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31467006 ATGGCATACT
31467016 TATGTATATATA
1 TATGTATATATA
31467028 TATGTATATATA
1 TATGTATATATA
31467040 TAT
1 TAT
31467043 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:31468695 original size:19 final size:21
Alignment explanation
Indices: 31468652--31468698 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
31468642 CAAAAGCAAA
*
31468652 GTTGCAACATTCGAATCCAAT
1 GTTGCAACATTCCAATCCAAT
*
31468673 GTTGCAACA-TCCAA-CCGAT
1 GTTGCAACATTCCAATCCAAT
31468692 GTTGCAA
1 GTTGCAA
31468699 TATTTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 9 0.38
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (21 bp):
GTTGCAACATTCCAATCCAAT
Found at i:31470014 original size:16 final size:17
Alignment explanation
Indices: 31469984--31470017 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
31469974 AGGGATGGCG
31469984 TTTGTTTGATTTTTATT
1 TTTGTTTGATTTTTATT
31470001 TTTGTTTG-TTTTTATT
1 TTTGTTTGATTTTTATT
31470017 T
1 T
31470018 CATGATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (17 bp):
TTTGTTTGATTTTTATT
Found at i:31471353 original size:30 final size:30
Alignment explanation
Indices: 31471319--31471378 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
31471309 AAATTCTACA
*
31471319 ACACTTAGAAAAATTTTCACCAAAACAGGG
1 ACACTCAGAAAAATTTTCACCAAAACAGGG
31471349 ACACTCAGAAAAATTTTCACCAAAACAGGG
1 ACACTCAGAAAAATTTTCACCAAAACAGGG
31471379 TTGCACGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (30 bp):
ACACTCAGAAAAATTTTCACCAAAACAGGG
Found at i:31472514 original size:20 final size:20
Alignment explanation
Indices: 31472481--31472519 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31472471 ACTGGAAACT
*
31472481 TACCATAATCTTTCACAACA
1 TACCATAATATTTCACAACA
* *
31472501 TACCATAGTATTTCTCAAC
1 TACCATAATATTTCACAAC
31472520 TTAAACATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (20 bp):
TACCATAATATTTCACAACA
Found at i:31472716 original size:42 final size:43
Alignment explanation
Indices: 31472610--31472718 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
31472600 TACCAATGCT
* * *
31472610 ATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGCCA
* * *
31472653 ATAGCCCAGATATGGTCTTACACGA-AGTTTCATATCAATGTC-
1 ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCAATGCCA
31472695 ATATCCCAGATATGGTCTTACACG
1 ATATCCCAGATATGGTCTTACACG
31472719 TAATATCAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGCCA
Found at i:31478383 original size:12 final size:13
Alignment explanation
Indices: 31478368--31478417 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
31478358 ATTCTTATGA
31478368 AATTT-ATTATTT
1 AATTTAATTATTT
31478380 AATTTTAA-T-TTT
1 AA-TTTAATTATTT
31478392 AATTTAATT-TTT
1 AATTTAATTATTT
31478404 -ATTTAATTATTT
1 AATTTAATTATTT
31478416 AA
1 AA
31478418 ATTTTTGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 13 0.39
12 14 0.42
13 5 0.15
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTAATTATTT
Found at i:31478390 original size:11 final size:11
Alignment explanation
Indices: 31478377--31478411 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
31478367 AAATTTATTA
31478377 TTTAATTTTAAT
1 TTTAA-TTTAAT
31478389 TTTAATTTAAT
1 TTTAATTTAAT
*
31478400 TTTTATTTAAT
1 TTTAATTTAAT
31478411 T
1 T
31478412 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:31487832 original size:25 final size:25
Alignment explanation
Indices: 31487804--31487857 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
31487794 AGACAAAATA
31487804 CAACCATCCTCGTGGGATCAATATC
1 CAACCATCCTCGTGGGATCAATATC
31487829 CAACCATCCTCGTGGGATCAATATC
1 CAACCATCCTCGTGGGATCAATATC
31487854 CAAC
1 CAAC
31487858 AGACTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (25 bp):
CAACCATCCTCGTGGGATCAATATC
Found at i:31497230 original size:44 final size:42
Alignment explanation
Indices: 31497181--31497338 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
31497171 ATGAGTTATT
* *
31497181 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTAT
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GA-TTAC
*
31497225 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGACTT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA-TTAC
** * *
31497267 GTGTAAGACCTTGTCTGAGACAATGGCATCGTCATTTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGT-ATTTGATTAC
* *
31497310 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
31497339 TGTACGAGTT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 31 0.32
43 34 0.35
44 29 0.30
45 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTAC
Found at i:31497294 original size:42 final size:43
Alignment explanation
Indices: 31497181--31497326 Score: 138
Period size: 42 Copynumber: 3.4 Consensus size: 43
31497171 ATGAGTTATT
* * ** *
31497181 GTGTAAGACCACGTCTGGGACGTTGGCATCG--ATTTGAGATTTAT
1 GTGTAAGACCATGTCTGAGACAATGGCATCGTCATTT--GA-TTAC
* *
31497225 GTGTAAGACCATGTCTGGGACATTGGCATCGT-ATTTGACTT-C
1 GTGTAAGACCATGTCTGAGACAATGGCATCGTCATTTGA-TTAC
*
31497267 GTGTAAGACCTTGTCTGAGACAATGGCATCGTCATTTGATTAC
1 GTGTAAGACCATGTCTGAGACAATGGCATCGTCATTTGATTAC
* *
31497310 ATGTAAGACCACGTCTG
1 GTGTAAGACCATGTCTG
31497327 GGACGTTGGC
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 31 0.35
43 25 0.28
44 29 0.33
45 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGAGACAATGGCATCGTCATTTGATTAC
Found at i:31509368 original size:40 final size:40
Alignment explanation
Indices: 31509320--31509628 Score: 537
Period size: 40 Copynumber: 7.7 Consensus size: 40
31509310 GCAAACACAT
* *
31509320 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31509360 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31509400 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31509440 TTGCCTTCGGGTCTTAGCCCGGATATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCATAA
** *
31509482 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31509522 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31509562 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31509602 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
31509629 ATCCAATGTT
Statistics
Matches: 256, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
40 219 0.86
42 37 0.14
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31509587 original size:162 final size:162
Alignment explanation
Indices: 31509320--31509628 Score: 564
Period size: 162 Copynumber: 1.9 Consensus size: 162
31509310 GCAAACACAT
**
31509320 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCACAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31509385 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGG
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGG
31509450 GTCTTAGCCCGGATATATATCATCTCGCATAA
131 GTCTTAGCCCGGATATATATCATCTCGCATAA
* * *
31509482 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAGTTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCACAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
31509547 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGG
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGG
31509612 GTCTTAGCCCGGATATA
131 GTCTTAGCCCGGATATA
31509629 ATCCAATGTT
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 141 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (162 bp):
TTGCCTTCGGGTCACAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGG
GTCTTAGCCCGGATATATATCATCTCGCATAA
Done.