Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 409 of 770
Found at i:125622090 original size:26 final size:26
Alignment explanation
Indices: 125622020--125622117 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
125622010 CTCTTTTAAT
*
125622020 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
125622046 AACTGGGG-AAAAGCCCTTTTCGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
125622071 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
125622097 AACTGGGGCAAAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
125622118 TCCACTTCCT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
25 24 0.35
26 45 0.65
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:125624067 original size:28 final size:28
Alignment explanation
Indices: 125624035--125624133 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
125624025 GCAATAAGCC
*
125624035 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
125624063 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
125624091 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
125624120 CGCACACTTAGTGC
1 CGCACACTTAGTGC
125624134 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:125628355 original size:80 final size:80
Alignment explanation
Indices: 125628271--125628419 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
125628261 TATGGTAACC
* * * *
125628271 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
125628335 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
125628351 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
125628416 CCGG
66 CCGG
125628420 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:125628361 original size:40 final size:38
Alignment explanation
Indices: 125628312--125628419 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
125628302 ATCACGATTT
*
125628312 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
125628352 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
125628392 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
125628420 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:125636466 original size:80 final size:80
Alignment explanation
Indices: 125636382--125636530 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
125636372 TATGGTAACC
* * * *
125636382 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
125636446 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
125636462 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
125636527 CCGG
66 CCGG
125636531 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:125636472 original size:40 final size:38
Alignment explanation
Indices: 125636423--125636530 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
125636413 ATCACGATTT
*
125636423 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
125636463 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
125636503 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
125636531 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:125652345 original size:32 final size:32
Alignment explanation
Indices: 125652303--125652369 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
125652293 TACTCAATTG
* * *
125652303 AATTTTCGTACATACTTGTACCATATCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
125652335 AATTTCCGTACATACCTATACCATATCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
125652367 AAT
1 AAT
125652370 CTCATACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (32 bp):
AATTTCCGTACATACCTATACCATATCGTACC
Found at i:125652556 original size:42 final size:42
Alignment explanation
Indices: 125652434--125652557 Score: 169
Period size: 42 Copynumber: 3.0 Consensus size: 42
125652424 GTTACTCAGG
* * * *
125652434 AATCTCACACACTAAGTGCCAATACCTAGCCGAAGCTAACTT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
* *
125652476 AATCACGCACACTAAGTGCCAATG-ATAGCTGAAGCTATCTT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
* *
125652517 GATCTCGCATACTAAGTGCCAATGCATAGCCGAAGCTATCT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCT
125652558 CAAATATTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 35 0.49
42 36 0.51
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
Found at i:125658497 original size:42 final size:42
Alignment explanation
Indices: 125658438--125658638 Score: 251
Period size: 42 Copynumber: 4.8 Consensus size: 42
125658428 AGGGTTACTA
* *
125658438 AGACTACGTCTAAGACCATATTTGGGATATGGCATC-ACTATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGA-TATG
* * * *
125658480 AGACTATGTGTAAGACCATATCTAGGATATGACATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
125658522 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * * *
125658564 AGACTTCTTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* * *
125658607 AGATTACATGTAAGACCATAACTGGGATATGG
1 AGACTACGTGTAAGACCATATCTGGGATATGG
125658639 AATTGGAACA
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 101 0.73
43 37 0.27
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:125663060 original size:69 final size:69
Alignment explanation
Indices: 125662897--125663388 Score: 387
Period size: 69 Copynumber: 7.1 Consensus size: 69
125662887 TGAACATTTG
* * ** * * *
125662897 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGCTAGAGGTTGTTGCTTTTCGCCTGTGAACT
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTCCTGCGAAC-
*
125662962 TTTAA
65 CTTAA
* * * * * *
125662967 TTTTATAGATGGGAGTTTTGCTCTTGCTAATTGTGCTGGAGGTTGTGGCTCTTCTCAC-GCAAAC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTC-CTGCGAAC
*
125663031 CTTAG
65 CTTAA
* * * * * * * *
125663036 TTTTATAGTTGGGAGCTTTACTCTTACTAATTGTGCTGGAGGTCGCGACTCTT-TGCCTGTGAAC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCT-CCTGCGAAC
125663100 CTTAA
65 CTTAA
* * * * * * *
125663105 TTTTACAGCTGGGATCTTTGCTCTCGTTAACTGTGCTAGAGGTTGCAGCTCTTCGCCTGCAAACC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTCCTGCGAACC
125663170 TTAA
66 TTAA
** * * *
125663174 TTTTACAGCTAAGACCTTTGATCTTGCTAATTGTGCTAGAGGTCGCGGCTCTT-TACCTGCGAAC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCT-CCTGCGAAC
125663238 CTTAA
65 CTTAA
* * * * * * * *** * * *
125663243 TTTTATAGCTAGGACCTTTGCTCTTGCTAACTGCGTTGGAGGTCATGGCTTTTCGCTTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTCCTGCGAACC
*
125663308 TTAC
66 TTAA
* * *** * * * ** *
125663312 TTTTACAGCTAGGAACTTTGCTCTCATTAACTGTGCTGGAGGTGGTAGCTCTTCACCTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTCCTGCGAACC
125663377 TTAA
66 TTAA
125663381 TTTTACAG
1 TTTTACAG
125663389 TTGACAATTT
Statistics
Matches: 340, Mismatches: 76, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
68 2 0.01
69 286 0.84
70 51 0.15
71 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (69 bp):
TTTTACAGCTGGGAGCTTTGCTCTTGCTAATTGTGCTAGAGGTTGCGGCTCTTCTCCTGCGAACC
TTAA
Found at i:125663309 original size:207 final size:207
Alignment explanation
Indices: 125662897--125663388 Score: 567
Period size: 207 Copynumber: 2.4 Consensus size: 207
125662887 TGAACATTTG
* * * * *
125662897 TTTTACAGCTGGGAGCTTTGCTCTCGCTAACTGTGCTAGAGGTTGTTGCTTTTCGCCTGTGAACT
1 TTTTACAGCTGGGAACTTTGCTCTCGTTAACTGTGCTAGAGGTTGTAGCTCTTCGCCTGCGAAC-
* * ** ** * * * *
125662962 TTTAATTTTATAGATGGGAGTTTTGCTCTTGCTAATTGTGCTGGAGGTTGTGGCTCTTCTCACGC
65 CTTAATTTTACAGATAAGACCTTTGATCTTGCTAATTGTGCTAGAGGTCGCGGCTCTTCTCACGC
* * * * * * *
125663027 AAACCTTAGTTTTATAGTTGGGAGCTTTACTCTTACTAATTGTGCTGGAGGTCGCGACTCTTTGC
130 AAACCTTAATTTTATAGCTAGGACCTTTACTCTTACTAACTGCGCTGGAGGTCACGACTCTTTGC
*
125663092 CTGTGAACCTTAA
195 CTGCGAACCTTAA
* * *
125663105 TTTTACAGCTGGGATCTTTGCTCTCGTTAACTGTGCTAGAGGTTGCAGCTCTTCGCCTGCAAACC
1 TTTTACAGCTGGGAACTTTGCTCTCGTTAACTGTGCTAGAGGTTGTAGCTCTTCGCCTGCGAACC
*
125663170 TTAATTTTACAGCTAAGACCTTTGATCTTGCTAATTGTGCTAGAGGTCGCGGCTCTT-T-ACCTG
66 TTAATTTTACAGATAAGACCTTTGATCTTGCTAATTGTGCTAGAGGTCGCGGCTCTTCTCA-C-G
* * * * * *
125663233 CGAACCTTAATTTTATAGCTAGGACCTTTGCTCTTGCTAACTGCGTTGGAGGTCATGGCT-TTTC
129 CAAACCTTAATTTTATAGCTAGGACCTTTACTCTTACTAACTGCGCTGGAGGTCACGACTCTTT-
* *
125663297 GCTTGCGAACCTTAC
193 GCCTGCGAACCTTAA
* * * * *
125663312 TTTTACAGCTAGGAACTTTGCTCTCATTAACTGTGCTGGAGGTGGTAGCTCTTCACCTGCGAACC
1 TTTTACAGCTGGGAACTTTGCTCTCGTTAACTGTGCTAGAGGTTGTAGCTCTTCGCCTGCGAACC
125663377 TTAATTTTACAG
66 TTAATTTTACAG
125663389 TTGACAATTT
Statistics
Matches: 239, Mismatches: 42, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
205 1 0.00
206 5 0.02
207 176 0.74
208 57 0.24
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (207 bp):
TTTTACAGCTGGGAACTTTGCTCTCGTTAACTGTGCTAGAGGTTGTAGCTCTTCGCCTGCGAACC
TTAATTTTACAGATAAGACCTTTGATCTTGCTAATTGTGCTAGAGGTCGCGGCTCTTCTCACGCA
AACCTTAATTTTATAGCTAGGACCTTTACTCTTACTAACTGCGCTGGAGGTCACGACTCTTTGCC
TGCGAACCTTAA
Found at i:125666233 original size:38 final size:38
Alignment explanation
Indices: 125666198--125666347 Score: 160
Period size: 38 Copynumber: 3.9 Consensus size: 38
125666188 CCGAGGCTAT
*
125666198 ATGCTGGAATTATATCTGGGTTAAATCCCGCAGGCTTC
1 ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTC
* * *
125666236 GTGCTGGTAA-CATATCCGAGTTAAATCCCGCAGGCTTC
1 ATGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTC
* * *
125666274 ATGCTGGTATTATATCCGGGTTAAATTCCGCAGGCCT-
1 ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTC
* * *
125666311 AGTGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGG
1 A-TGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGG
125666348 TTTGTGCTGG
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.02
38 76 0.81
39 8 0.09
40 8 0.09
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTC
Found at i:125666278 original size:76 final size:78
Alignment explanation
Indices: 125666171--125666347 Score: 227
Period size: 76 Copynumber: 2.3 Consensus size: 78
125666161 TTTTGATGTG
* * * *
125666171 TATCCGTGCTTAAAGACCCG-AGGCTAT-ATGCTGGAATTATATCTGGGTTAAATCCCGCAGGCT
1 TATCCGAGCTTAAAGTCCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCC
*
125666234 TCGTGCTGGTAACA
65 TAGTGCTGGTAACA
* *
125666248 TATCCGAG-TTAAA-TCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATTCCGCAGGCCT
1 TATCCGAGCTTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
**
125666311 AGTGCTGGTATTA
66 AGTGCTGGTAACA
*
125666324 TATCTGAGCTTAAAGTCCCGCAGG
1 TATCCGAGCTTAAAGTCCCGCAGG
125666348 TTTGTGCTGG
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.06
76 60 0.70
77 12 0.14
78 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (78 bp):
TATCCGAGCTTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
AGTGCTGGTAACA
Found at i:125669947 original size:29 final size:29
Alignment explanation
Indices: 125669907--125670009 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
125669897 GTTGAGAGAT
*
125669907 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
125669936 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
125669965 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
125669994 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
125670010 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:125677728 original size:75 final size:77
Alignment explanation
Indices: 125677589--125677756 Score: 218
Period size: 75 Copynumber: 2.2 Consensus size: 77
125677579 ATGTGCATCC
* * *
125677589 GAGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCACCTTCGTGC
1 GAGCTTAAAGTCCCGCTGGCT-TCATGCTGGAATTATATCCGGGTTAAATCCCGCACCTTAGTGC
*
125677653 TGGTAATATATTT
65 TGGTAATATATCT
* * *
125677666 G-GGTTAAA-TCCCGCTGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGC-TAGTGC
1 GAGCTTAAAGTCCCGCTGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCA-CCTTAGTGC
*
125677728 TGGTATTATATCT
65 TGGTAATATATCT
125677741 GAGCTTAAAGTCCCGC
1 GAGCTTAAAGTCCCGC
125677757 AGGTTTGTGC
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
74 1 0.01
75 57 0.73
76 13 0.17
77 7 0.09
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (77 bp):
GAGCTTAAAGTCCCGCTGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCGCACCTTAGTGCT
GGTAATATATCT
Found at i:125677738 original size:37 final size:37
Alignment explanation
Indices: 125677600--125677770 Score: 166
Period size: 38 Copynumber: 4.5 Consensus size: 37
125677590 AGCTTAAAGA
* *
125677600 CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCTA-GTGCTGGTATTATATCCGGGTTAAAT
* * * **
125677638 CCCGCA-CCTTCGTGCTGGTAATATATTTGGGTTAAAT
1 CCCGCAGGC-TAGTGCTGGTATTATATCCGGGTTAAAT
*
125677675 CCCGCTGGCTTCA-TGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGC-T-AGTGCTGGTATTATATCCGGGTTAAAT
* *
125677713 CCCGCAGGCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTAGTGCTGGTATTATATCCG-GGTTAAA-T
* *
125677752 CCCGCAGGTTTGTGCTGGT
1 CCCGCAGGCTAGTGCTGGT
125677771 GACTGGATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
36 1 0.01
37 44 0.40
38 46 0.42
39 18 0.17
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (37 bp):
CCCGCAGGCTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:125683291 original size:27 final size:27
Alignment explanation
Indices: 125683261--125683335 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
125683251 ACCCCTGGTT
125683261 TGTAAAATTACTAAAATACCCTCGACC
1 TGTAAAATTACTAAAATACCCTCGACC
* * *
125683288 TGTAAAATTATTGAAATACCCTCGACT
1 TGTAAAATTACTAAAATACCCTCGACC
* *
125683315 TGTAAAATTACCAAAGTACCC
1 TGTAAAATTACTAAAATACCC
125683336 CTAATTTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTCGACC
Found at i:125683348 original size:27 final size:25
Alignment explanation
Indices: 125683318--125683391 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 25
125683308 CTCGACTTGT
125683318 AAAATTACCAAAGTACCCCTAATTTAC
1 AAAATTACCAAA-TACCCCT-ATTTAC
***
125683345 AAAATTACCGTTTTACCCTCTATTTAC
1 AAAATTACC-AAATACCC-CTATTTAC
125683372 AAAATTACCGAAATACCCCT
1 AAAATTACC-AAATACCCCT
125683392 GTAGGGAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 35 0.90
28 2 0.05
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAATTACCAAATACCCCTATTTAC
Found at i:125683404 original size:27 final size:27
Alignment explanation
Indices: 125683374--125683623 Score: 331
Period size: 27 Copynumber: 9.3 Consensus size: 27
125683364 CTATTTACAA
* *
125683374 AATTACCGAAATACCCCTGTAGGGAAG
1 AATTACCGAAATACCCTTGTAGGGTAG
125683401 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
125683428 AAATACGGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
125683455 AATTACTAAAATAACCC-TGTAAGGTAG
1 AATTACCGAAAT-ACCCTTGTAGGGTAG
125683482 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
125683509 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
125683536 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
125683563 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
125683590 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
125683617 AATTACC
1 AATTACC
125683624 ATTTTATGTG
Statistics
Matches: 198, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.02
27 190 0.96
28 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:125683905 original size:27 final size:26
Alignment explanation
Indices: 125683861--125683912 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
125683851 CTCGCTGCAA
*
125683861 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
125683888 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
125683913 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:125684152 original size:6 final size:6
Alignment explanation
Indices: 125684143--125684325 Score: 99
Period size: 6 Copynumber: 29.8 Consensus size: 6
125684133 TTGCATTCAC
* * * * *
125684143 ATTCTG ATTCTA ATTCTG -TTACTCG ATACAG ATTCTG ATTTTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CT-G ATTCTG ATTCTG ATTCTG ATT--CTG
* **
125684193 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ACACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
125684242 ATT-TG -TTACCTA ATTCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
125684291 ATTTTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
125684326 TGTAACGCCC
Statistics
Matches: 133, Mismatches: 28, Indels: 32
0.69 0.15 0.17
Matches are distributed among these distances:
4 2 0.02
5 9 0.07
6 106 0.80
7 10 0.08
8 6 0.05
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:125684280 original size:61 final size:61
Alignment explanation
Indices: 125684143--125684305 Score: 220
Period size: 61 Copynumber: 2.7 Consensus size: 61
125684133 TTGCATTCAC
* *
125684143 ATTCTGATTCTAATTCTGTTA-CTCGATACAGATTCTGATTTTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCT-GATACTGATTCTGA-TTTGTTACCTAATTCTGATTCTG
* *
125684205 GTTCTGATTCTGATTCTGTTACCTGACACTGATTCTGATTTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTTGTTACCTAATTCTGATTCTG
* * * **
125684266 ATTTTGATTTTGATTCTGTCACCTGATTTTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATT
125684306 CTGATTCTCA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 56 0.63
62 31 0.35
63 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTTGTTACCTAATTCTGATTCTG
Found at i:125686084 original size:28 final size:28
Alignment explanation
Indices: 125686044--125686108 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
125686034 ATGTACTAGA
*
125686044 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
*
125686072 ATACCCCTATGTATGTAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
125686100 ATACCCCTA
1 ATACCCCTA
125686109 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:125686272 original size:27 final size:27
Alignment explanation
Indices: 125686214--125686303 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
125686204 AGGAAGCGTC
125686214 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
125686242 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
125686269 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
125686298 CTGGTG
1 CTGGTG
125686304 ACTCTATCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:125686314 original size:29 final size:28
Alignment explanation
Indices: 125686226--125686314 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
125686216 GGTGGCTATG
* * * *
125686226 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGACACTA
* * *
125686254 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
125686281 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
125686310 TCACA
1 CCACA
125686315 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 24 0.47
28 13 0.25
29 14 0.27
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:125686322 original size:55 final size:56
Alignment explanation
Indices: 125686214--125686328 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
125686204 AGGAAGCGTC
* * *
125686214 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
* * *
125686269 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTATCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTACCACATATATCTGTAT
125686325 CTGG
1 CTGG
125686329 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
Found at i:125698328 original size:70 final size:71
Alignment explanation
Indices: 125698245--125698407 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
125698235 CGATTTGTCT
125698245 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
125698309 CTTTCA
66 CTTTCA
*
125698315 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
125698380 CTTTCA
66 CTTTCA
125698386 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
125698408 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:125698445 original size:71 final size:70
Alignment explanation
Indices: 125698245--125698441 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
125698235 CGATTTGTCT
* * * *
125698245 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
125698309 CTTTCA
65 CTTTCA
* * * *
125698315 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
125698380 CTTTCA
65 CTTTCA
* *
125698386 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
125698442 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:125700591 original size:24 final size:25
Alignment explanation
Indices: 125700563--125700626 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
125700553 TCAACCGAAT
* * *
125700563 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
*
125700587 TCGCACACATAATGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
125700612 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
125700627 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:125700677 original size:24 final size:24
Alignment explanation
Indices: 125700650--125700699 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
125700640 CATGCATCGA
*
125700650 CATTCAAATCTGCACACATAGCGC
1 CATTCAAATCCGCACACATAGCGC
* * *
125700674 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGCGC
125700698 CA
1 CA
125700700 ATGTTAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGCGC
Found at i:125700772 original size:94 final size:94
Alignment explanation
Indices: 125700655--125700891 Score: 411
Period size: 94 Copynumber: 2.5 Consensus size: 94
125700645 ATCGACATTC
* * * *
125700655 AAATCTGCACACATAGCGCCATTTAATTCCGCACACATAGTGCCAATGTTAGCTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
125700720 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
**
125700749 AAATCTGCACACAAAGTGACATTTAATTATGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
125700814 GGCAATTTACTTATTTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
125700843 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGT
125700892 ATAAAATCTG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 134 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:125700876 original size:24 final size:24
Alignment explanation
Indices: 125700849--125700936 Score: 95
Period size: 24 Copynumber: 3.5 Consensus size: 24
125700839 TATAAAATCT
125700849 GCACACAAAGTGACATTTAATTCC
1 GCACACAAAGTGACATTTAATTCC
* * * *
125700873 GCACACATAGTGCCAATGTATAAAATCT
1 GCACACAAAGTGAC-AT-T-T-AATTCC
125700901 GCACACAAAGTGACATTTAATTCC
1 GCACACAAAGTGACATTTAATTCC
*
125700925 GCACACATAGTG
1 GCACACAAAGTG
125700937 CCAATGTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 27 0.53
25 3 0.06
26 2 0.04
27 3 0.06
28 16 0.31
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (24 bp):
GCACACAAAGTGACATTTAATTCC
Found at i:125700917 original size:52 final size:52
Alignment explanation
Indices: 125700839--125700943 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
125700829 TCAAATAGCA
125700839 TATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATG
1 TATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATG
125700891 TATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATG
1 TATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATG
125700943 T
1 T
125700944 TAACTCATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (52 bp):
TATAAAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATG
Found at i:125711132 original size:47 final size:47
Alignment explanation
Indices: 125711078--125711175 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
125711068 TGTCATGACA
125711078 TATAAGCATAACAAATAAACGGTGATATAATGATCCTACTTGAATTG
1 TATAAGCATAACAAATAAACGGTGATATAATGATCCTACTTGAATTG
125711125 TATAAGCATAACAAATAAACGGTGATATAATGATCCTACTTGAATTG
1 TATAAGCATAACAAATAAACGGTGATATAATGATCCTACTTGAATTG
125711172 TATA
1 TATA
125711176 TCGGGGTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (47 bp):
TATAAGCATAACAAATAAACGGTGATATAATGATCCTACTTGAATTG
Found at i:125711571 original size:79 final size:80
Alignment explanation
Indices: 125711398--125711585 Score: 315
Period size: 79 Copynumber: 2.4 Consensus size: 80
125711388 GGACTAAGAT
* * * *
125711398 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGTCCCGAAGGCATTTGTGTGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGATAAGTCCCAAAGGCATTTGTGCGAGTTACTA
125711463 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
*
125711478 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCA-TTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGATAAGTCCCAAAGGCATTTGTGCGAGTTACTA
125711542 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
*
125711557 CCGAAGGCATTTGTGCGAGTTGCTATATC
1 CCGAAGGCATTTGTGCGAGTTACTATATC
125711586 TGGCTAAATC
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
79 57 0.56
80 45 0.44
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGATAAGTCCCAAAGGCATTTGTGCGAGTTACTA
TATCCGGGCTAAGTC
Found at i:125711591 original size:39 final size:40
Alignment explanation
Indices: 125711398--125711602 Score: 315
Period size: 40 Copynumber: 5.2 Consensus size: 40
125711388 GGACTAAGAT
* * *
125711398 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
125711438 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
125711478 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
125711518 CCAAAGGCA-TTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
125711557 CCGAAGGCATTTGTGCGAGTTGCTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
125711596 TCGAAGG
1 CCGAAGG
125711603 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 53 0.35
40 100 0.65
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:125719990 original size:48 final size:47
Alignment explanation
Indices: 125719934--125720154 Score: 192
Period size: 48 Copynumber: 4.6 Consensus size: 47
125719924 ATAAGGTCTC
* * * * *
125719934 GTGTAAGACTATGTTTGGGATATGGCATCACCGTTGATATCTGAGTCA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAG-CA
*
125719982 GTGTAAGACAATGTCTGGGACATGGCATCAGGGTTGATATGTGAGCCA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAG-CA
* * * ** * *
125720030 GTGTAACACCATGTCTAGGTTATGGCATCAGTGTGGATATGTGAGCTA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGC-A
* ** * * *
125720078 GTGTAAGACAATGTTTGGGACATGGCATTGGCGCTGACATGTGTGCTA
1 GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGC-A
* * *
125720126 GTATAAGTTCAA-GTCTGAGACATGGCATC
1 GTGTAAG-ACAATGTCTGGGACATGGCATC
125720155 GGCACAGGCA
Statistics
Matches: 139, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 135 0.97
49 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTAAGACAATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCA
Found at i:125726497 original size:27 final size:27
Alignment explanation
Indices: 125726424--125726531 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
125726414 TGGCTGCCAC
* * *
125726424 AACAGACAA-TGTGACAGAGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
* * **
125726450 ATATAGATAATCGTGGCAGAGCCACCTT
1 A-ACAGATAATTGTGGCAGAGCCACCAG
125726478 AACAGA-AATATGTGGCAGAGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
125726505 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
125726532 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
26 4 0.06
27 45 0.69
28 16 0.25
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:125726520 original size:54 final size:54
Alignment explanation
Indices: 125726424--125726529 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
125726414 TGGCTGCCAC
* * *
125726424 AACAGACAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCACCTT
1 AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCTT
* * *
125726478 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
125726530 AGGACGCTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 27 0.60
55 18 0.40
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCTT
Found at i:125726969 original size:16 final size:15
Alignment explanation
Indices: 125726948--125726977 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
125726938 AAAATACCAA
125726948 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
125726964 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
125726978 CCGATCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:125727976 original size:24 final size:24
Alignment explanation
Indices: 125727949--125727995 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
125727939 CTAGATTTCC
**
125727949 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
125727973 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
125727996 CTCCTGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:125733416 original size:37 final size:36
Alignment explanation
Indices: 125733331--125733450 Score: 213
Period size: 36 Copynumber: 3.3 Consensus size: 36
125733321 TATAAAAGAA
*
125733331 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
125733367 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATC-G
125733404 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
*
125733440 GTCTCACCCGG
1 GTCTTACCCGG
125733451 AACATATTCC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 45 0.56
37 36 0.44
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
Found at i:125733605 original size:49 final size:49
Alignment explanation
Indices: 125733552--125733766 Score: 367
Period size: 49 Copynumber: 4.4 Consensus size: 49
125733542 TTTTACATTA
*
125733552 GCCATTAGGCCTTATCATATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
125733601 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
125733650 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
125733699 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
125733748 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
125733767 CATATATGTA
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 159 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:125738063 original size:27 final size:26
Alignment explanation
Indices: 125738026--125738137 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
125738016 AGCATGGCTG
* *
125738026 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
125738052 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
125738080 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
125738107 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
125738134 CCAG
1 CCAG
125738138 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:125738118 original size:54 final size:54
Alignment explanation
Indices: 125738026--125738137 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
125738016 AGCATGGCTG
* *
125738026 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
125738080 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
125738134 CCAG
1 CCAG
125738138 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:125739584 original size:24 final size:24
Alignment explanation
Indices: 125739557--125739603 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
125739547 CTAGATTTCC
**
125739557 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
125739581 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
125739604 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:125743117 original size:49 final size:47
Alignment explanation
Indices: 125742896--125743165 Score: 396
Period size: 47 Copynumber: 5.7 Consensus size: 47
125742886 CCCTTCGGGA
* * * *
125742896 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
125742943 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
125742990 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
125743037 CTTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
125743084 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
125743133 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCAC--ATATATACACTTTCACATTCATC
125743166 GCGTAAAATC
Statistics
Matches: 209, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 138 0.66
49 71 0.34
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:125745794 original size:40 final size:39
Alignment explanation
Indices: 125745750--125745968 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
125745740 GCTCGATTGT
* * *
125745750 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
125745790 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
125745830 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
125745870 CTTCGGGTCTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
125745910 CTTCAGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
125745951 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
125745969 ACACCATTCG
Statistics
Matches: 152, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.01
40 123 0.81
41 26 0.17
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:125753881 original size:40 final size:39
Alignment explanation
Indices: 125753837--125754053 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
125753827 GCTCGATTGT
* * *
125753837 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
125753877 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
125753917 CTT--GGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
125753955 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
125753995 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
125754036 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
125754054 ACACCATTCG
Statistics
Matches: 152, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 33 0.22
39 2 0.01
40 89 0.59
41 27 0.18
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:125753956 original size:78 final size:80
Alignment explanation
Indices: 125753864--125754054 Score: 242
Period size: 78 Copynumber: 2.4 Consensus size: 80
125753854 GTTATAGTGA
* * * *
125753864 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTT-GGACTTAA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGAATTAA
* *
125753928 CCCGGTTTTGGTAAC
66 CCCGGATTTAGTAAC
* * * *
125753943 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC-GGAATTA
*
125754007 ACCCGGATTTAGTCAC
65 ACCCGGATTTAGTAAC
* *
125754023 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
125754055 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 49 0.52
80 18 0.19
81 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGAATTAA
CCCGGATTTAGTAAC
Found at i:125762725 original size:16 final size:17
Alignment explanation
Indices: 125762694--125762727 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
125762684 TTTTTGGGTT
125762694 AATGGGCCAAAACGGGCC
1 AATGGGCC-AAACGGGCC
125762712 AATGGGCC-AACGGGCC
1 AATGGGCCAAACGGGCC
125762728 CACTTTGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.29, G:0.35, T:0.06
Consensus pattern (17 bp):
AATGGGCCAAACGGGCC
Found at i:125763114 original size:27 final size:26
Alignment explanation
Indices: 125763076--125763135 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
125763066 ATATATATAT
* *
125763076 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
125763102 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
125763129 ATATCTG
1 ATATCTG
125763136 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:125765731 original size:40 final size:39
Alignment explanation
Indices: 125765581--125765733 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
125765571 AAATGTTCGA
* *
125765581 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
125765620 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
125765659 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
125765698 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
125765734 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:125765749 original size:40 final size:39
Alignment explanation
Indices: 125765582--125765764 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
125765572 AATGTTCGAG
* * *
125765582 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
125765621 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
125765660 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
125765699 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
125765739 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
125765765 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:125765800 original size:79 final size:79
Alignment explanation
Indices: 125765588--125765802 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
125765578 CGAGTGATAT
** * * * * * *
125765588 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
125765651 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
125765666 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
125765731 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
125765745 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
125765803 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:125770163 original size:101 final size:98
Alignment explanation
Indices: 125769980--125770218 Score: 334
Period size: 101 Copynumber: 2.4 Consensus size: 98
125769970 GTGAGGTCAT
* * *
125769980 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
*
125770045 GCAGGCTACTATGTGTACCCGATAACTTCGATCAC
66 GCAGGCTACTACGTGTACCCGATAA-TT-GATCAC
* ** *
125770080 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
* * *
125770145 TGCAGGCTACTACGTGTACCGGATAATTGGTCGC
65 TGCAGGCTACTACGTGTACCCGATAATTGATCAC
* *
125770179 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
125770219 GCATTGGCTA
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 40 0.33
100 40 0.33
101 43 0.35
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCCGATAATTGATCAC
Found at i:125770213 original size:49 final size:50
Alignment explanation
Indices: 125769981--125770218 Score: 318
Period size: 49 Copynumber: 4.8 Consensus size: 50
125769971 TGAGGTCATG
* * *
125769981 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * *
125770030 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCACA
* ** *
125770081 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * *
125770131 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
*
125770180 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
125770219 GCATTGGCTA
Statistics
Matches: 166, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 79 0.48
50 47 0.28
51 40 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
Found at i:125775258 original size:49 final size:49
Alignment explanation
Indices: 125775186--125775425 Score: 259
Period size: 49 Copynumber: 4.8 Consensus size: 49
125775176 TTTGAGGTCA
*
125775186 CATGTGTAGTACTAAGTACAGGCTACTATGTGTACCAGATAATTAGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGTCG
** * * *
125775235 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAG-TCG
** * * * **
125775286 TGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCAG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA-GTC-G
* * *
125775337 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATTAGTCG
* *
125775385 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
125775426 GCTTTGGGTA
Statistics
Matches: 157, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 76 0.48
50 45 0.29
51 35 0.22
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGTCG
Found at i:125776971 original size:43 final size:44
Alignment explanation
Indices: 125776801--125776972 Score: 115
Period size: 43 Copynumber: 4.0 Consensus size: 44
125776791 ATATAGGATC
* * * **
125776801 CGATATGTG-TTTTCATGTAACACCACGTCTGGGTTGTTGGCAT
1 CGATATTTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * * * * * *
125776844 C-A-ACTTATGATTTACGTGTGAGACCATGTTTGGGACATCGACAT
1 CGATA-TT-TGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
* ** * *
125776888 CG-CATTTGATTT-CATGTAAGACCTTGTCTGGTATAG-TGGCAT
1 CGATATTTGATTTACATGTAAGACCACGTCTGGGA-CGTTGGCAT
125776930 CGATATTTG-TTTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
125776973 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 26, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 38 0.40
44 26 0.28
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
CGATATTTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:125779322 original size:48 final size:47
Alignment explanation
Indices: 125779250--125779576 Score: 334
Period size: 48 Copynumber: 6.9 Consensus size: 47
125779240 GTAAGATGTT
* * * * * *
125779250 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCTTATAAATTCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAGT-C
* * * * *
125779298 AATGTCATGTTCCAAACATGGTCTTA-ACTGGCTCACATATCGAGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT-AAAGTC
* * *
125779345 GAT-CCTATGTACCAGACATGGTCTTACACTAGCTCTCATATAAATGTC
1 GATGCC-ATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA-GTC
* * * *
125779393 AATGCCATGTTCCAAACATGGTCTTGCACTAGCTCACATATCGAGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT-AAAGTC
* * *
125779441 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAT-AAAGTC
* * * * *
125779489 GATGCCATGTACTAGACATGGTCTTACACTAGCTCTCATATAAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA-GTC
*
125779537 GATGCGATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
125779577 ACCCTAATAT
Statistics
Matches: 230, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
46 1 0.00
47 35 0.15
48 191 0.83
49 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (47 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAGTC
Found at i:125779481 original size:96 final size:95
Alignment explanation
Indices: 125779250--125779576 Score: 379
Period size: 96 Copynumber: 3.4 Consensus size: 95
125779240 GTAAGATGTT
* * * * * *
125779250 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCTTATAAAT-TCCAATGTCATGTTCCAAA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGT-CAATGCCATGTTCCAAA
* *
125779314 CATGGTCTTAACTGGCTCACATATCGAGGTC
65 CATGGTCTTCACTAGCTCACATATCGAGGTC
* * *
125779345 GAT-CCTATGTACCAGACATGGTCTTACACTAGCTCTCATATAAATGTCAATGCCATGTTCCAAA
1 GATGCC-ATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGTCAATGCCATGTTCCAAA
125779409 CATGGTCTTGCACTAGCTCACATATCGAGGTC
65 CATGGTCTT-CACTAGCTCACATATCGAGGTC
* * * * * * * *
125779441 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTACTAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGTCAATGCCATGTTCCAAAC
* ** * *
125779506 ATGGTCTTACACTAGCTCTCATATAAATGCC
66 ATGGTCTT-CACTAGCTCACATATCGAGGTC
*
125779537 GATGCGATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
125779577 ACCCTAATAT
Statistics
Matches: 203, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
94 2 0.01
95 64 0.32
96 135 0.67
97 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (95 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGTCAATGCCATGTTCCAAAC
ATGGTCTTCACTAGCTCACATATCGAGGTC
Found at i:125779524 original size:144 final size:143
Alignment explanation
Indices: 125779303--125779576 Score: 460
Period size: 144 Copynumber: 1.9 Consensus size: 143
125779293 ATTCCAATGT
* *
125779303 CATGTTCCAAACATGGTCTTAACTGGCTCACATATCGAGGTCGATCCTATGTACCAGACATGGTC
1 CATGTTCCAAACATGGTCTTAACTGGCTCACATATCAAGGCCGATCCTATGTACCAGACATGGTC
* *
125779368 TTACACTAGCTCTCATATAAATGTCAATGCCATGTTCCAAACATGGTCTTGCACTAGCTCACATA
66 TTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
125779433 TCGAGGTCGATGC
131 TCGAGGTCGATGC
*
125779446 CATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCC-ATGTACTAGACATGG
1 CATGTTCCAAACATGGTCTTA-ACTGGCTCACATATCAAGGCCGAT-CCTATGTACCAGACATGG
* *
125779510 TCTTACACTAGCTCTCATATAAATGCCGATGCGATGTTCCAAACATGGTCTTACACTAGCTCACA
64 TCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACA
125779575 TA
129 TA
125779577 ACCCTAATAT
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
143 21 0.17
144 99 0.81
145 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (143 bp):
CATGTTCCAAACATGGTCTTAACTGGCTCACATATCAAGGCCGATCCTATGTACCAGACATGGTC
TTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
TCGAGGTCGATGC
Found at i:125780270 original size:51 final size:51
Alignment explanation
Indices: 125780210--125780320 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
125780200 CATGGCAAAA
125780210 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
1 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
125780261 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
1 CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
*
125780312 CCCAAAAGT
1 CCCTAAAGT
125780321 ACAAAAATTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.30, G:0.10, T:0.26
Consensus pattern (51 bp):
CCCTAAAGTTTCAACCATTTGCAAAAATAACTCTCCCATTCCTACAAGGGT
Found at i:125786127 original size:24 final size:24
Alignment explanation
Indices: 125786091--125786204 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
125786081 CTTATTATGT
**
125786091 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
125786114 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125786138 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125786162 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125786186 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
125786205 TATTTCCAGC
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.07
24 82 0.93
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:125789785 original size:24 final size:24
Alignment explanation
Indices: 125789749--125789886 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
125789739 CTTATTATGT
**
125789749 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
125789772 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125789796 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125789820 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125789844 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125789868 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
125789887 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.05
24 106 0.95
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:125789927 original size:28 final size:29
Alignment explanation
Indices: 125789869--125789941 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 29
125789859 CATAGTAAAT
*
125789869 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
125789898 CGCACACTTAGTGCCAT-TATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
125789926 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
125789942 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 27 0.63
29 16 0.37
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:125793495 original size:24 final size:24
Alignment explanation
Indices: 125793459--125793572 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
125793449 CTTATTATGT
**
125793459 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
125793482 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125793506 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125793530 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
125793554 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
125793573 TATTTCCAGC
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.07
24 82 0.93
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:125793597 original size:29 final size:29
Alignment explanation
Indices: 125793555--125793628 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
125793545 CATAGTAAAT
*
125793555 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
125793584 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
125793613 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
125793629 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:125795239 original size:29 final size:29
Alignment explanation
Indices: 125795214--125795336 Score: 237
Period size: 29 Copynumber: 4.2 Consensus size: 29
125795204 TCCCACACCC
*
125795214 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
125795243 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
125795272 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
125795301 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
125795330 AGTGCCA
1 AGTGCCA
125795337 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:125803360 original size:29 final size:29
Alignment explanation
Indices: 125803261--125803448 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
125803251 ACTCGATTTC
* * **
125803261 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
125803290 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
125803318 CGCACAC-CAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
125803347 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
125803376 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
125803405 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
125803434 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
125803449 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 22 0.16
29 118 0.84
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:125804931 original size:14 final size:14
Alignment explanation
Indices: 125804912--125804943 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
125804902 TGCACTAATA
125804912 AGCCATTTAAAATT
1 AGCCATTTAAAATT
125804926 AGCCATTTAAAATT
1 AGCCATTTAAAATT
125804940 AGCC
1 AGCC
125804944 TATCATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (14 bp):
AGCCATTTAAAATT
Found at i:125806044 original size:29 final size:29
Alignment explanation
Indices: 125806011--125806069 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
125806001 AATAAATCAT
125806011 TTGTAATACAGATTTTCAAATACTGAGCA
1 TTGTAATACAGATTTTCAAATACTGAGCA
*
125806040 TTGTAATACAGATTTTCAAATGCTGAGCA
1 TTGTAATACAGATTTTCAAATACTGAGCA
125806069 T
1 T
125806070 ACTCTAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (29 bp):
TTGTAATACAGATTTTCAAATACTGAGCA
Found at i:125811312 original size:48 final size:48
Alignment explanation
Indices: 125811247--125811403 Score: 188
Period size: 48 Copynumber: 3.3 Consensus size: 48
125811237 AGTTATGTGT
*
125811247 GAGCCAGTGTAGGACCATGTTTGGAACATGGCATCGGCATTATTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * * * *
125811295 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
* * * * *
125811343 GAGCCAGTGTAAGACCATGTTTGAAACATGGCACCAGCATTGTTACGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
*
125811391 GAGCTAGTGTAAG
1 GAGCCAGTGTAAG
125811404 TGTGACAGCC
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
Found at i:125813187 original size:39 final size:40
Alignment explanation
Indices: 125813132--125813302 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
125813122 GGACTAAGAT
* *
125813132 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
125813171 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
125813210 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
125813250 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
125813290 CCGAAGGCATTTG
1 CCGAAGGCATTTG
125813303 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:125822404 original size:68 final size:70
Alignment explanation
Indices: 125822332--125822529 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
125822322 ACACCCTGTA
* * * *
125822332 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
125822394 ATAAAT
65 ATAAAT
*
125822400 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
125822465 ATAAAT
65 ATAAAT
*
125822471 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
125822530 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:125822443 original size:41 final size:41
Alignment explanation
Indices: 125822398--125822515 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
125822388 TGAAAGATAA
125822398 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
125822439 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
125822469 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
125822510 ATGTAG
1 ATGTAG
125822516 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:125822455 original size:71 final size:71
Alignment explanation
Indices: 125822366--125822529 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
125822356 GAGATGTATC
125822366 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
125822431 AGGACA
66 AGGACA
125822437 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
125822502 AGGACA
66 AGGACA
125822508 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
125822530 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:125829970 original size:68 final size:70
Alignment explanation
Indices: 125829898--125830095 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
125829888 ACACCCTGTA
* * *
125829898 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
125829960 ATAAAT
65 ATAAAT
* *
125829966 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
125830031 ATAAAT
65 ATAAAT
*
125830037 GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
125830096 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:125830021 original size:71 final size:71
Alignment explanation
Indices: 125829932--125830095 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
125829922 GAGATGTATC
*
125829932 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
125829997 AGGACA
66 AGGACA
125830003 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
125830068 AGGACA
66 AGGACA
125830074 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
125830096 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
AGGACA
Found at i:125843310 original size:43 final size:44
Alignment explanation
Indices: 125843244--125843370 Score: 118
Period size: 45 Copynumber: 2.9 Consensus size: 44
125843234 TTTTCTCAAA
* * * *
125843244 TCACCAGCATT-TCGCCTGTTAGGCTC-GAGGCCCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-AT-AGATC
125843286 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG-ATC
** * * *
125843331 TCACCGGCATTATAGTTTGCCAAGCTCAAAGGCCCAAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
125843371 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.17
43 15 0.21
44 9 0.13
45 35 0.49
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGATC
Found at i:125843752 original size:43 final size:43
Alignment explanation
Indices: 125843700--125843897 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
125843690 CCGGCATTAC
*
125843700 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
125843743 GCCTACTAGGTACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
125843786 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
125843829 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
125843872 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
125843898 TAATACCAGC
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:125843941 original size:86 final size:86
Alignment explanation
Indices: 125843700--125843921 Score: 322
Period size: 86 Copynumber: 2.6 Consensus size: 86
125843690 CCGGCATTAC
* * * * * *
125843700 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCTACTAGGTACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAGCCTGCGAGGCACGAAGGCCCG
125843765 AATACACATCACCGACACGAA
66 AATACACATCACCGACACGAA
* * *
125843786 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAGCCTGCGAGGCACGAAGGCCCG
*
125843851 AATACACATCACCGGCACGAA
66 AATACACATCACCGACACGAA
* *
125843872 GCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGCGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAGCCTGCGAG
125843922 ATTTATCCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
84 16 0.13
85 2 0.02
86 107 0.86
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAGCCTGCGAGGCACGAAGGCCCG
AATACACATCACCGACACGAA
Found at i:125845920 original size:29 final size:29
Alignment explanation
Indices: 125845888--125845960 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
125845878 CTTCGAGCTC
*
125845888 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
125845917 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
125845946 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
125845961 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:125853965 original size:29 final size:29
Alignment explanation
Indices: 125853933--125854005 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
125853923 CTTCGAGCTC
*
125853933 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
125853962 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
125853991 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
125854006 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:125856341 original size:2 final size:2
Alignment explanation
Indices: 125856323--125856357 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
125856313 CACTTTCAAA
*
125856323 AT AT A- AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125856358 TCGACTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:125864792 original size:40 final size:39
Alignment explanation
Indices: 125864773--125864889 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 39
125864763 CCGGATGTAG
*
125864773 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-AAT
125864813 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA-AT
*
125864853 TACCAGCACGAAGCCTGCGGGATTTAACCTGGATATA
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
125864890 TAATATATCG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:125870152 original size:40 final size:40
Alignment explanation
Indices: 125870108--125870224 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
125870098 CCAGATATAG
* * *
125870108 TACCAGCACTAAGCCTGTGGGATTTAACCCGGATATGCAT
1 TACCAGCACGAAGCCTGAGGGATTTAACCCGGATATACAT
*
125870148 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGAGGGATTTAACCCGGATATACAT
* * *
125870188 TACCATCACGAAGCCTGAAGGATTTAACCCAGATATA
1 TACCAGCACGAAGCCTGAGGGATTTAACCCGGATATA
125870225 TAATATATCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGAGGGATTTAACCCGGATATACAT
Found at i:125874068 original size:19 final size:20
Alignment explanation
Indices: 125874044--125874081 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
125874034 GGTACCACCA
125874044 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
125874063 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
125874082 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:125874421 original size:47 final size:46
Alignment explanation
Indices: 125874309--125874479 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
125874299 TGCGCCTAAG
* * * *
125874309 TGAACTCGGACTCAACTCAACAAGCTC-G--GCCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC---AA
125874355 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAA
*
125874402 TGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-A
*
125874446 GTGAACTCGGACTCAACTCAATGAGTTCGGATGC
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGC
125874480 TCAACCATCC
Statistics
Matches: 106, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.27
46 25 0.24
47 32 0.30
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAA
Found at i:125874438 original size:93 final size:92
Alignment explanation
Indices: 125874309--125874479 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
125874299 TGCGCCTAAG
* *
125874309 TGAACTCGGACTCAACTCAACAAGCTCGGCCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCAT-AATGAACTCGGACTCAACTCA
125874374 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
125874402 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 TGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
*
125874467 TGAGTTCGGATGC
66 CGAGTTCGGATGC
125874480 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 33 0.46
93 39 0.54
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (92 bp):
TGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:125874929 original size:30 final size:30
Alignment explanation
Indices: 125874893--125874954 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
125874883 CAGCATTTAA
125874893 TAAAC-TTTGAAAAAATTACACTTTTGCCCC
1 TAAACTTTTG-AAAAATTACACTTTTGCCCC
* *
125874923 TAAACTTTTGCATAATTACACTTTTGCCCC
1 TAAACTTTTGAAAAATTACACTTTTGCCCC
125874953 TA
1 TA
125874955 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.37
Consensus pattern (30 bp):
TAAACTTTTGAAAAATTACACTTTTGCCCC
Found at i:125882006 original size:92 final size:92
Alignment explanation
Indices: 125881849--125882017 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
125881839 CGCCCTAAGT
*
125881849 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
125881914 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
125881941 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
125882005 CGAGTTCGGATGC
65 CGAGTTCGGATGC
125882018 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 61 0.84
93 12 0.16
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:125882014 original size:45 final size:46
Alignment explanation
Indices: 125881844--125882014 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
125881834 TAACCCGCCC
* *
125881844 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
125881889 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
125881937 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
125881982 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
125882015 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:125883894 original size:27 final size:26
Alignment explanation
Indices: 125883856--125883964 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 26
125883846 ATACTTTAGT
*
125883856 TTACCAAAATACCACTGGTTTGTAAAA
1 TTACC-AAATACCCCTGGTTTGTAAAA
* * *
125883883 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCA-AATACCCCTGGTTTGTAAAA
* *
125883910 TCACCAAAATACCCCTGGTCTGT-AAA
1 TTACC-AAATACCCCTGGTTTGTAAAA
*
125883936 TTACCAAAAACCCCTGGTTTGTAAAA
1 TTACCAAATACCCCTGGTTTGTAAAA
125883962 TTA
1 TTA
125883965 TCAATAATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
25 15 0.22
26 14 0.21
27 37 0.55
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
TTACCAAATACCCCTGGTTTGTAAAA
Found at i:125884015 original size:26 final size:25
Alignment explanation
Indices: 125883971--125884128 Score: 77
Period size: 26 Copynumber: 6.0 Consensus size: 25
125883961 ATTATCAATA
125883971 ATTGTAAAATTACCAAAATATCCCTG
1 ATTGTAAAATTACCAAAATA-CCCTG
* **
125883997 ATTGTGAAATTACTGAAATACCCTCG
1 ATTGTAAAATTACCAAAATACCCT-G
* ***
125884023 ACCTGTAAAATT-TTGAAATACCCTG
1 A-TTGTAAAATTACCAAAATACCCTG
* *
125884048 AACTTGTAGAATTACCAAAGTACCCTTG
1 -A-TTGTAAAATTACCAAAATACCC-TG
* ***
125884076 ATT-TACAGCATTACCATTTTACCCTTG
1 ATTGTA-A-AATTACCAAAATACCC-TG
**
125884103 ACTTACAAAATTACCAAAATACCCTG
1 A-TTGTAAAATTACCAAAATACCCTG
125884129 TAGGGTAGAA
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
25 7 0.07
26 44 0.44
27 44 0.44
28 5 0.05
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (25 bp):
ATTGTAAAATTACCAAAATACCCTG
Found at i:125884088 original size:27 final size:27
Alignment explanation
Indices: 125884057--125884127 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
125884047 GAACTTGTAG
* * *
125884057 AATTACCAAAGTACCCTTGATTTACAG
1 AATTACCAAAATACCCTTGACTTACAA
* ***
125884084 CATTACCATTTTACCCTTGACTTACAA
1 AATTACCAAAATACCCTTGACTTACAA
125884111 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
125884128 GTAGGGTAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGACTTACAA
Found at i:125884149 original size:26 final size:26
Alignment explanation
Indices: 125884111--125884400 Score: 305
Period size: 26 Copynumber: 11.3 Consensus size: 26
125884101 TGACTTACAA
**
125884111 AATTACCAAAATACCCTGTAGGGTAG
1 AATTACCGGAATACCCTGTAGGGTAG
125884137 AATTACCGGAATACCCTGTAGGGTAG
1 AATTACCGGAATACCCTGTAGGGTAG
125884163 AATTACCGGAATACCCTTGTA-GGTAG
1 AATTACCGGAATACCC-TGTAGGGTAG
125884189 AATTACC-GAATATCCCTGTAGGGTAG
1 AATTACCGGAATA-CCCTGTAGGGTAG
* *
125884215 AATTACCGGAATACCCCTATAAGGTAG
1 AATTACCGGAATA-CCCTGTAGGGTAG
*
125884242 AATTACCAGAATACCCCTGTA-GGTAG
1 AATTACCGGAATA-CCCTGTAGGGTAG
125884268 AATTACCGGAATACCCTG-AGGGT--
1 AATTACCGGAATACCCTGTAGGGTAG
*
125884291 --TTACC-G-TTACCCTTGTAGGGTAG
1 AATTACCGGAATACCC-TGTAGGGTAG
*
125884314 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGGAATA-CCCTGTAGGGTAG
*** *
125884341 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGGAATA-CCCTGTAGGGTAG
* * *
125884368 AATTACC-GAGATACCTTGTGGGGTAA
1 AATTACCGGA-ATACCCTGTAGGGTAG
125884394 AATTACC
1 AATTACC
125884401 ATTTTGCCCC
Statistics
Matches: 229, Mismatches: 20, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.02
20 3 0.01
21 10 0.04
24 1 0.00
25 22 0.10
26 101 0.44
27 84 0.37
28 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
AATTACCGGAATACCCTGTAGGGTAG
Found at i:125884382 original size:54 final size:53
Alignment explanation
Indices: 125884298--125884399 Score: 141
Period size: 54 Copynumber: 1.9 Consensus size: 53
125884288 GGTTTACCGT
* *
125884298 TACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 TACCCCTGTAGGGTAGAATTACCGAAATA-CCCTGTAGGGTAAAATTACTAAAA
* * * *
125884352 TACCCCTGTAGGGTGGAATTACCGAGATACCTTGTGGGGTAAAATTAC
1 TACCCCTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAAAATTAC
125884400 CATTTTGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 16 0.38
54 26 0.62
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (53 bp):
TACCCCTGTAGGGTAGAATTACCGAAATACCCTGTAGGGTAAAATTACTAAAA
Found at i:125884871 original size:22 final size:22
Alignment explanation
Indices: 125884827--125884891 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
125884817 TTAAAGCCTT
* * **
125884827 CTGATTATGGCTTTGTGTTAAC
1 CTGAATATGGCTCTGTGCCAAC
125884849 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGTGCCAAC
* *
125884871 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCTCTGTGCCAA
125884892 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:125885292 original size:31 final size:31
Alignment explanation
Indices: 125885254--125885394 Score: 201
Period size: 31 Copynumber: 4.5 Consensus size: 31
125885244 TTGCATTCAC
125885254 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
125885285 ATTCTGATTTTGATTCTGTTACCTGATGCTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
125885316 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
125885347 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
125885378 ATTCTGGTTCTGATTCT
1 ATTCTGATTTTGATTCT
125885395 AATTCTGATT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:125885293 original size:6 final size:6
Alignment explanation
Indices: 125885254--125885421 Score: 112
Period size: 6 Copynumber: 27.3 Consensus size: 6
125885244 TTGCATTCAC
* * *
125885254 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
125885303 -TTACCTG ATGCTA ATTCTG ATTTTG ATTC-G GTTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
125885353 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG GTTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
125885402 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
125885422 AATGTTTCTT
Statistics
Matches: 124, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
5 9 0.07
6 100 0.81
7 10 0.08
8 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:125886611 original size:11 final size:10
Alignment explanation
Indices: 125886583--125886616 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
125886573 AGCCTGTAAG
125886583 TATTCTGAAT
1 TATTCTGAAT
*
125886593 TTTTCTGAAT
1 TATTCTGAAT
125886603 ATATTCTGAAT
1 -TATTCTGAAT
125886614 TAT
1 TAT
125886617 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:125893111 original size:28 final size:28
Alignment explanation
Indices: 125893071--125893131 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
125893061 ACTAGAATAT
*
125893071 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
*
125893099 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
125893127 CCCTA
1 CCCTA
125893132 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:125893278 original size:28 final size:27
Alignment explanation
Indices: 125893237--125893326 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
125893227 AGGAAGTGTC
*
125893237 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
125893265 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
125893292 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
125893321 CTGGTG
1 CTGGTG
125893327 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:125893295 original size:27 final size:28
Alignment explanation
Indices: 125893237--125893326 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
125893227 AGGAAGTGTC
* *
125893237 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
125893265 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
125893292 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
125893321 CTGGTG
1 CTGGTG
125893327 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:125893337 original size:29 final size:28
Alignment explanation
Indices: 125893247--125893337 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
125893237 CTGGTGGCTA
* * * *
125893247 TGCCACAAATTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
125893275 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
125893302 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
125893331 TGTCACA
1 TGCCACA
125893338 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:125893345 original size:55 final size:56
Alignment explanation
Indices: 125893237--125893351 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
125893227 AGGAAGTGTC
* * *
125893237 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
125893292 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGCCACATATATCTGTAT
125893348 CTGG
1 CTGG
125893352 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:125912470 original size:14 final size:14
Alignment explanation
Indices: 125912448--125912477 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
125912438 AAGAGAGAAT
125912448 GATGATGAATAAGG
1 GATGATGAATAAGG
*
125912462 GATGCTGAATAAGG
1 GATGATGAATAAGG
125912476 GA
1 GA
125912478 ATGAAGGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.20
Consensus pattern (14 bp):
GATGATGAATAAGG
Found at i:125915611 original size:40 final size:40
Alignment explanation
Indices: 125915566--125915733 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
125915556 CGGAATATAA
125915566 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
125915606 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
125915646 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
125915686 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
125915726 CCGGATAT
1 CCGGATAT
125915734 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:125915716 original size:80 final size:80
Alignment explanation
Indices: 125915566--125915733 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
125915556 CGGAATATAA
*
125915566 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
*
125915631 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * * ** *
125915646 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
125915708 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
125915726 CCGGATAT
1 CCGGATAT
125915734 CATTCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:125923714 original size:40 final size:40
Alignment explanation
Indices: 125923577--125923736 Score: 164
Period size: 40 Copynumber: 4.0 Consensus size: 40
125923567 ATAACCGGAT
* *
125923577 ATAACCAGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
1 ATAACCA--GCACAATTGCCTTCGGGTCTTAGCCCGGATATA
125923619 ATAACTC-GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 ATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA
*** * *
125923659 GCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 ATAACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATATA
** * *
125923699 ATTTCCAGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 ATAACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
125923737 CATTCAATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
39 15 0.15
40 77 0.77
41 2 0.02
42 5 0.05
43 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
ATAACCAGCACAATTGCCTTCGGGTCTTAGCCCGGATATA
Found at i:125923720 original size:80 final size:78
Alignment explanation
Indices: 125923571--125923736 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 78
125923561 CGGAATATAA
* *
125923571 CCGGATATAACCAGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGC
125923636 CTTCGGGTCTTAGC
66 CTTCGGG-CTTAGC
* * * ** *
125923650 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-
*
125923713 TGTCTTCGGGCTTAGC
63 TGCCTTCGGGCTTAGC
125923729 CCGGATAT
1 CCGGATAT
125923737 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 30 0.40
80 45 0.60
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGC
CTTCGGGCTTAGC
Found at i:125927182 original size:12 final size:12
Alignment explanation
Indices: 125927165--125927191 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
125927155 CCTTAGCCAA
125927165 ATCTCCTTCTAG
1 ATCTCCTTCTAG
125927177 ATCTCCTTCTAG
1 ATCTCCTTCTAG
125927189 ATC
1 ATC
125927192 ATGGGCCGGC
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:0.19, C:0.33, G:0.07, T:0.41
Consensus pattern (12 bp):
ATCTCCTTCTAG
Found at i:125932296 original size:46 final size:46
Alignment explanation
Indices: 125932246--125932418 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
125932236 TTGAGCATCT
125932246 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
125932292 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
125932339 GAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
125932384 TGAGCTCGTTGAGTTGAGTCCGAGTTCACGTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
125932419 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:125932399 original size:93 final size:93
Alignment explanation
Indices: 125932240--125932410 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
125932230 GGATGGTTGA
* * *
125932240 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
125932305 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
125932333 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
125932397 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
125932411 ACGTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:125943464 original size:40 final size:40
Alignment explanation
Indices: 125943399--125943605 Score: 316
Period size: 40 Copynumber: 5.3 Consensus size: 40
125943389 TCTTCGGAAT
* ** *
125943399 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
125943438 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
125943478 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
125943517 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
125943557 TTAGCCC-GATATAACAACTCGCAC-AATGCCTT-GGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
125943594 TTAGCCCGGATA
1 TTAGCCCGGATA
125943606 AATCAGCTTA
Statistics
Matches: 155, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
37 12 0.08
38 12 0.08
39 57 0.37
40 74 0.48
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:125943502 original size:79 final size:78
Alignment explanation
Indices: 125943399--125943605 Score: 326
Period size: 79 Copynumber: 2.6 Consensus size: 78
125943389 TCTTCGGAAT
* * ** * * *
125943399 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCCGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
125943464 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
125943478 TTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
1 TTAGCCCGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
125943543 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
125943557 TTAGCCCGATATAACAACTCGCACAATGCCTT-GGGTCTTAGCCCGGATA
1 TTAGCCCGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATA
125943606 AATCAGCTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
77 17 0.14
78 8 0.07
79 93 0.77
80 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (78 bp):
TTAGCCCGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:125957269 original size:29 final size:29
Alignment explanation
Indices: 125957236--125957367 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
125957226 GTGACGAGAT
125957236 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
125957265 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
125957294 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
125957323 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
125957352 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
125957368 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:125963057 original size:28 final size:28
Alignment explanation
Indices: 125962988--125963088 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
125962978 GACAAGATTG
* * * *
125962988 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
125963018 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
125963046 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
125963075 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
125963089 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:125972845 original size:42 final size:45
Alignment explanation
Indices: 125972767--125972888 Score: 110
Period size: 45 Copynumber: 2.8 Consensus size: 45
125972757 CTCAAATCAC
* * *
125972767 CGGCATT-TCGCCTGTTAGGCTCGAGGCCCGATATTAGT-T-T-AT
1 CGGCATTATAGCCTGCTAGGCTCGAGGCCCGA-ATTAGTATCTCAG
*
125972809 CGGCATTATAGCCTGCTAGGCTTGAAGGCCCG-ATTAGTATCTCAG
1 CGGCATTATAGCCTGCTAGGCTCG-AGGCCCGAATTAGTATCTCAG
** * *
125972854 CGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAAT
1 CGGCATTATAGCCTGCTAGGCTC-GAGGCCCGAAT
125972889 AATCAAGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 13 0.20
43 14 0.22
44 8 0.12
45 27 0.42
46 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCGAGGCCCGAATTAGTATCTCAG
Done.