Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 161 of 290
Found at i:55074176 original size:41 final size:41
Alignment explanation
Indices: 55074099--55074176 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55074089 TTAGTATCTC
* * *
55074099 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55074140 GCACAAA-GCCTTCAGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55074177 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55085300 original size:28 final size:28
Alignment explanation
Indices: 55085265--55085318 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
55085255 CAGTAACAGT
*
55085265 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
55085293 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
55085319 TATCACTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:55085486 original size:26 final size:26
Alignment explanation
Indices: 55085436--55085486 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
55085426 CCAATATCGC
* *
55085436 AGCATAGCTGCCAGTAGTAATAATGT
1 AGCAGAGCTGCCAGTAGTAAGAATGT
*
55085462 AGCAGAGCTGCCAGTAGTCAGAATG
1 AGCAGAGCTGCCAGTAGTAAGAATG
55085487 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (26 bp):
AGCAGAGCTGCCAGTAGTAAGAATGT
Found at i:55085639 original size:32 final size:32
Alignment explanation
Indices: 55085566--55085738 Score: 125
Period size: 32 Copynumber: 5.4 Consensus size: 32
55085556 GGATTGGCAT
* * * * *
55085566 AAAGCCATCAGTAGCAGTGATATGACCGGCAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
* * * *
55085598 ACAGTCATCAATAACGGTAACATGATCGACAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
*** * *
55085630 AAAGCCATCAGTAGTAGTGATATGATCGGCAC
1 AAAGCCATCAGTAACGGTAATATGATCGACAC
* * * * *
55085662 ACAGCCATTAGTAAAAGGGAA-ATGATTGACAC
1 AAAGCCATCAGT-AACGGTAATATGATCGACAC
* *
55085694 ACAA-CCATCGGTAACGGTAATATGATCGGCAC
1 A-AAGCCATCAGTAACGGTAATATGATCGACAC
55085726 AAAGCCATCAGTA
1 AAAGCCATCAGTA
55085739 GCATCGCAGC
Statistics
Matches: 102, Mismatches: 35, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
31 8 0.08
32 90 0.88
33 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (32 bp):
AAAGCCATCAGTAACGGTAATATGATCGACAC
Found at i:55085687 original size:64 final size:65
Alignment explanation
Indices: 55085566--55085738 Score: 199
Period size: 64 Copynumber: 2.7 Consensus size: 65
55085556 GGATTGGCAT
* * * * *
55085566 AAAGCCATCAGTAGCAGTGATATGACCGGCACACAGTCATCAAT-AACGGTAACATGATCGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
* * *
55085630 AAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATTAGTAAAAGGGAA-ATGATTGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
* * * * *
55085694 ACAA-CCATCGGTAACGGTAATATGATCGGCACAAAGCCATCAGTA
1 A-AAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTA
55085739 GCATCGCAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
64 84 0.91
65 8 0.09
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (65 bp):
AAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAAAAGGGAACATGATCGACAC
Found at i:55085940 original size:24 final size:23
Alignment explanation
Indices: 55085909--55085982 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
55085899 GCCATGCTCA
*
55085909 AAATCAGTCATTCAAATCATAGAC
1 AAATCAGTCATTCAAA-CACAGAC
*
55085933 AAATCAGTCATACCAAACACAGAC
1 AAATCAGTCAT-TCAAACACAGAC
* * *
55085957 AAATCAGTCATTTAACCCCAGAC
1 AAATCAGTCATTCAAACACAGAC
55085980 AAA
1 AAA
55085983 AAAATCGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 11 0.26
24 28 0.65
25 4 0.09
ACGTcount: A:0.47, C:0.26, G:0.08, T:0.19
Consensus pattern (23 bp):
AAATCAGTCATTCAAACACAGAC
Found at i:55086379 original size:27 final size:27
Alignment explanation
Indices: 55086017--55086374 Score: 386
Period size: 27 Copynumber: 13.3 Consensus size: 27
55086007 AAAATAGCCA
* *
55086017 TTTACCC-ACCAGGGCATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
*
55086043 TTTACCTTAC-AGAGGTATTACGGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* * *
55086070 TTTACCTTACAGGGGTATTACGGTAAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
55086097 TTTACCTTACAAGGGTATTACAGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
55086124 TTTACCCTAC-AGTGGCATTACAGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* *
55086151 TTTACCCTA-TAGCGGTATTACAGTCAT
1 TTTACCCTACAAG-GGTATTACGGTCAT
* *
55086178 TTTACCCTA-TAGGGCATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
55086204 TTTACCCTACAAGGGTATT-CTGGTCAT
1 TTTACCCTACAAGGGTATTAC-GGTCAT
* *
55086231 TTTACCCTACAAGGGTATTACGATTAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* * *
55086258 TTTACCCTATAGGGGTATTACGATCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
55086285 TTTACCTTACGAGGGTATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* *
55086312 TTTATCCTACGAGGGTATTACGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
* ** * *
55086339 TTTACCTTACGGGGGTGTTTCGGTCAT
1 TTTACCCTACAAGGGTATTACGGTCAT
55086366 TTTACCCTA
1 TTTACCCTA
55086375 TGGGGCATTT
Statistics
Matches: 291, Mismatches: 33, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
26 32 0.11
27 257 0.88
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAAGGGTATTACGGTCAT
Found at i:55086410 original size:188 final size:188
Alignment explanation
Indices: 55086037--55086398 Score: 494
Period size: 188 Copynumber: 1.9 Consensus size: 188
55086027 AGGGCATTAC
* * * *
55086037 GGTCATTTTACCTTACAGAGGTATTACGGTCATTTTACCTTACAGGGGTATTACGGTAATTTTAC
1 GGTCATTTTACCCTACAGAGGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTAC
*
55086102 CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTATAGCGGT
66 CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTACAGCGGT
*
55086167 ATTACAGTCATTTTACCCTATAGGGCATTACGGTCATTTTACCCTACAAGGGTATTCT
131 ATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCCTACAAGGGTATTCT
* * *
55086225 GGTCATTTTACCCTACA-AGGGTATTACGATTATTTTACCCTATAGGGGTATTACGATCATTTTA
1 GGTCATTTTACCCTACAGA-GGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTA
* * * * * * * *
55086289 CCTTACGAGGGTATTACGGTCATTTTATCCTACGAG-GGTATTACGGTCATTTTACCTTACGGGG
65 CCTTACAAGGGTATTACAGTCATTTTACCCTAC-AGTGGCATTACAGTCATTTTACCCTACAGCG
* * * * *
55086353 GTGTTTCGGTCATTTTACCCTATGGGGCATTTCAGTCATTTTACCC
129 GTATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCC
55086399 ATCGAGGGTA
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
187 1 0.01
188 147 0.98
189 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (188 bp):
GGTCATTTTACCCTACAGAGGTATTACGATCATTTTACCCTACAGGGGTATTACGATAATTTTAC
CTTACAAGGGTATTACAGTCATTTTACCCTACAGTGGCATTACAGTCATTTTACCCTACAGCGGT
ATTACAGTCATTTTACCCTATAGGGCATTACAGTCATTTTACCCTACAAGGGTATTCT
Found at i:55087792 original size:20 final size:21
Alignment explanation
Indices: 55087748--55087799 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
55087738 AAAATCCCAC
55087748 AAGTATCGATACTTTTTAAAT
1 AAGTATCGATACTTTTTAAAT
55087769 AAGTATCGATA-TTTTTCAAA-
1 AAGTATCGATACTTTTT-AAAT
55087789 AAGTATCGATA
1 AAGTATCGATA
55087800 AAATAGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
AAGTATCGATACTTTTTAAAT
Found at i:55099877 original size:39 final size:39
Alignment explanation
Indices: 55099771--55099878 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 39
55099761 GTTTGGATAA
* * *
55099771 AAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTAAG
1 AAAACG-CGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
* * * * **
55099811 AAAACGCCCTAAAGATCGAGTACTAGCGGCACTTTTTGG
1 AAAACGCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
55099850 AAAACGCAGCTAAAAAT-GAGCATTAGCGG
1 AAAACGC-GCTAAAAATCGAGCATTAGCGG
55099879 TGTTTTCCAA
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
39 41 0.76
40 13 0.24
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (39 bp):
AAAACGCGCTAAAAATCGAGCATTAGCGGCACTTTTAAG
Found at i:55100091 original size:41 final size:41
Alignment explanation
Indices: 55099930--55100116 Score: 191
Period size: 41 Copynumber: 4.5 Consensus size: 41
55099920 CGTTGAGTTT
* *
55099930 TCGGG-CTTTAGCGACGTTTTT-AAAGAAGTGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATTC
* * * *
55099970 TCGGGTC-TTAGCGGCATTTTTGAAGAGGCGCCGCTAATAC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
* * * *
55100010 TCAGGTCTTTAGCGGCATTTTTTTTGAAGAAGCGCTGCTAATTC
1 TCGGGTCTTTAGCGGC---GTTTTTGAAAAAGCGCCGCTAATTC
*
55100054 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTA
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
* * *
55100095 TCAGGTCTTTAGCAGTGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
55100117 TCAAAAAATA
Statistics
Matches: 122, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
40 35 0.29
41 51 0.42
44 36 0.30
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTC
Found at i:55100099 original size:85 final size:84
Alignment explanation
Indices: 55099946--55100107 Score: 245
Period size: 85 Copynumber: 1.9 Consensus size: 84
55099936 TTTAGCGACG
* * *
55099946 TTTTTAAAGAAGTGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAGAGGCGCCGCTAATACT
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACT
55100011 CAGGTCTTTAGCGGCATTT
66 CAGGTCTTTAGCGGCATTT
* * *
55100030 TTTTTGAAGAAGCGCTGCTAATTCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTA
1 TTTTTAAAGAAGCGCCGCTAATTCTCGGGTC-TTAGCGGCATTTTTGAAAAAGCGCCGCTAA-TA
55100095 -TCAGGTCTTTAGC
64 CTCAGGTCTTTAGC
55100108 AGTGTTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
84 28 0.40
85 40 0.57
86 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (84 bp):
TTTTTAAAGAAGCGCCGCTAATTCTCGGGTCTTAGCGGCATTTTTGAAAAAGCGCCGCTAATACT
CAGGTCTTTAGCGGCATTT
Found at i:55101327 original size:9 final size:9
Alignment explanation
Indices: 55101313--55101390 Score: 104
Period size: 9 Copynumber: 8.7 Consensus size: 9
55101303 ATGTAGTGAT
*
55101313 TTAATTCGA
1 TTAATTCGG
55101322 TTAATTCGG
1 TTAATTCGG
55101331 TTAATTCGG
1 TTAATTCGG
*
55101340 GTAATTCAGG
1 TTAATTC-GG
55101350 -TAATTCGG
1 TTAATTCGG
55101358 TTAATTCGG
1 TTAATTCGG
**
55101367 GCAATTCGG
1 TTAATTCGG
55101376 TTAATTCGG
1 TTAATTCGG
55101385 TTAATT
1 TTAATT
55101391 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
8 2 0.03
9 57 0.93
10 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
TTAATTCGG
Found at i:55103607 original size:20 final size:19
Alignment explanation
Indices: 55103575--55103621 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
55103565 CTTAATGCAG
55103575 AAAA-ATAACACAATA-ATA
1 AAAATATAACACAA-ACATA
*
55103593 ACAAATATAATACAAACATA
1 A-AAATATAACACAAACATA
55103613 AAAATATAA
1 AAAATATAA
55103622 AATAAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 12 0.48
20 12 0.48
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATATAACACAAACATA
Found at i:55103628 original size:19 final size:20
Alignment explanation
Indices: 55103590--55103628 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
55103580 TAACACAATA
*
55103590 ATAACAAATATAATACAAAC
1 ATAACAAATATAAAACAAAC
*
55103610 ATAA-AAATATAAAATAAAC
1 ATAACAAATATAAAACAAAC
55103629 CAAAACTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAACAAATATAAAACAAAC
Found at i:55105433 original size:5 final size:5
Alignment explanation
Indices: 55105423--55105449 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
55105413 GATTCTTGTT
55105423 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
55105450 GGCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:55106023 original size:43 final size:43
Alignment explanation
Indices: 55105963--55106053 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
55105953 CTTTGAGTTC
*
55105963 ATTA-CAAGATTTCCTTGATTAAGAAAATGT-ATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAT-TCATTATATCTTTT
* *
55106005 ATTACCAAGATTTACTTGATTAAGAAAATTCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
55106048 ATTACC
1 ATTACC
55106054 TTGCAATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATTCATTATATCTTTT
Found at i:55106479 original size:43 final size:43
Alignment explanation
Indices: 55106421--55106604 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
55106411 TTTTTACGAG
* * * * *
55106421 AAGCACCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGACAAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGA-TAA
* * *
55106464 AAGTGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
55106507 AAGCGCCGCTAAAGGTCATGGTCTTTTGTGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
* *
55106550 AAGCACCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
55106593 AAGCGCCGCTAA
1 AAGCGCCGCTAA
55106605 TACTTTTAGT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 104 0.85
44 19 0.15
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
Found at i:55106748 original size:16 final size:16
Alignment explanation
Indices: 55106727--55106760 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
55106717 ACAACTACTG
55106727 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
55106743 TTGTATTAACATTTAT
1 TTGTATTAACATTTAT
55106759 TT
1 TT
55106761 AGACACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTGTATTAACATTTAT
Found at i:55107280 original size:43 final size:44
Alignment explanation
Indices: 55107219--55107317 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
55107209 TGTCCCAAAC
* ** *
55107219 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCGCAACT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
*
55107263 ATGGTCTTATACG-AAATCTCAAATCGATGCCAATAGCCCAACT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
55107306 ATGGTCTTACAC
1 ATGGTCTTACAC
55107318 AAACACTGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 38 0.78
44 11 0.22
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAACT
Found at i:55113042 original size:43 final size:44
Alignment explanation
Indices: 55112981--55113079 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
55112971 TGTCTCAAAC
* **
55112981 ATGGTCTTACATGCAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
*
55113025 ATGGTCTTACACG-AAATCTCAAATCGATGCCAGTAGCCCAGCT
1 ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
*
55113068 ATGATCTTACAC
1 ATGGTCTTACAC
55113080 ATAAACACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.76
44 12 0.24
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGGTCTTACACGCAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:55126453 original size:14 final size:15
Alignment explanation
Indices: 55126434--55126473 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
55126424 GGGAAGTTGG
55126434 GAAATTAGGGAA-AA
1 GAAATTAGGGAAGAA
55126448 GAAATTAGGGAAGAA
1 GAAATTAGGGAAGAA
* *
55126463 TAACTTAGGGA
1 GAAATTAGGGA
55126474 TTTCAGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (15 bp):
GAAATTAGGGAAGAA
Found at i:55126738 original size:115 final size:116
Alignment explanation
Indices: 55126583--55126794 Score: 322
Period size: 115 Copynumber: 1.8 Consensus size: 116
55126573 AAAAACACCA
* * **
55126583 CTAATGTATAACCTTTTGTGGCGTTTTAGTCAAAATGCCACTAAAAACGTAGCTAAAAATAG-C-
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAA-AGACG
*
55126646 ATCGTTTTGTAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
65 A-CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
* *
55126699 CTAATGTATAACC-TTTGCGGCGTTTTAGACAAAATGCCACTAAAAATACAGCTAAAAACGACGA
1 CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAAAGACGA
55126763 CGTTTTGCAAACTTTTAATACATATTCACGGC
66 CGTTTTGCAAACTTTTAATACATATTCACGGC
55126795 GTTTGGACCA
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
114 1 0.01
115 72 0.83
116 14 0.16
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (116 bp):
CTAATGTATAACCTTTTGCGGCGTTTTAGACAAAATGCCACTAAAAACACAGCTAAAAAAGACGA
CGTTTTGCAAACTTTTAATACATATTCACGGCATTTTTGGTGAAAATGCTG
Found at i:55132975 original size:269 final size:269
Alignment explanation
Indices: 55132496--55132984 Score: 978
Period size: 269 Copynumber: 1.8 Consensus size: 269
55132486 TCCAGAATGG
55132496 AAATGGGAATGAATTACAATGGATTTTGTATCGGGATTGCATTTATCTCCGAGAAAGAAAGATGA
1 AAATGGGAATGAATTACAATGGATTTTGTATCGGGATTGCATTTATCTCCGAGAAAGAAAGATGA
55132561 TGTATGGGTCATTGAAGATCATTTGACGAAATCCGTACATTTTATTCCAGTACGTACAGACTATT
66 TGTATGGGTCATTGAAGATCATTTGACGAAATCCGTACATTTTATTCCAGTACGTACAGACTATT
55132626 CACTTGAAAAGTTAGTTGAATTGTACGTTTCTGAGATTGTTAGATTGCACGGTGTGCCGGTATCT
131 CACTTGAAAAGTTAGTTGAATTGTACGTTTCTGAGATTGTTAGATTGCACGGTGTGCCGGTATCT
55132691 GTAACACCCCGAACCCGAGACCGACGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGT
196 GTAACACCCCGAACCCGAGACCGACGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGT
55132756 CAGGAACGA
261 CAGGAACGA
55132765 AAATGGGAATGAATTACAATGGATTTTGTATCGGGATTGCATTTATCTCCGAGAAAGAAAGATGA
1 AAATGGGAATGAATTACAATGGATTTTGTATCGGGATTGCATTTATCTCCGAGAAAGAAAGATGA
55132830 TGTATGGGTCATTGAAGATCATTTGACGAAATCCGTACATTTTATTCCAGTACGTACAGACTATT
66 TGTATGGGTCATTGAAGATCATTTGACGAAATCCGTACATTTTATTCCAGTACGTACAGACTATT
55132895 CACTTGAAAAGTTAGTTGAATTGTACGTTTCTGAGATTGTTAGATTGCACGGTGTGCCGGTATCT
131 CACTTGAAAAGTTAGTTGAATTGTACGTTTCTGAGATTGTTAGATTGCACGGTGTGCCGGTATCT
55132960 GTAACACCCCGAACCCGAGACCGAC
196 GTAACACCCCGAACCCGAGACCGAC
55132985 ACCGACACCG
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 220 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (269 bp):
AAATGGGAATGAATTACAATGGATTTTGTATCGGGATTGCATTTATCTCCGAGAAAGAAAGATGA
TGTATGGGTCATTGAAGATCATTTGACGAAATCCGTACATTTTATTCCAGTACGTACAGACTATT
CACTTGAAAAGTTAGTTGAATTGTACGTTTCTGAGATTGTTAGATTGCACGGTGTGCCGGTATCT
GTAACACCCCGAACCCGAGACCGACGCAGGCGCTACACTCTCAAGATCATCAGCTACCTCTCGGT
CAGGAACGA
Found at i:55134756 original size:44 final size:44
Alignment explanation
Indices: 55134706--55134792 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
55134696 AATTTAACCG
55134706 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA
1 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA
55134750 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTT
1 GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTT
55134793 TTAGTAACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (44 bp):
GATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA
Found at i:55134866 original size:40 final size:40
Alignment explanation
Indices: 55134766--55135069 Score: 373
Period size: 40 Copynumber: 7.7 Consensus size: 40
55134756 GCTCCTCGTT
* * * *
55134766 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
55134806 C-AATGCCTTCGAGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
55134845 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55134885 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55134925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
55134965 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
55135004 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
55135045 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55135070 CATCATTCAA
Statistics
Matches: 233, Mismatches: 26, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 64 0.27
40 156 0.67
41 11 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55135029 original size:119 final size:120
Alignment explanation
Indices: 55134766--55135069 Score: 373
Period size: 119 Copynumber: 2.5 Consensus size: 120
55134756 GCTCCTCGTT
* * * * * * *
55134766 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGAGACATAACCCGG
1 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
55134830 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATTTAACAACTCGCACCAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
55134885 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
** * *
55134950 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATTTAACAACTCGCACCAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * * * * *
55135004 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATACCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
55135067 GGA
64 GGA
55135070 CATCATTCAA
Statistics
Matches: 162, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
118 3 0.02
119 104 0.64
120 55 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAACAACTCGCACCAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:55135053 original size:79 final size:79
Alignment explanation
Indices: 55134766--55135069 Score: 299
Period size: 79 Copynumber: 3.8 Consensus size: 79
55134756 GCTCCTCGTT
* * * * * * * * *
55134766 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGAGACATAACCCGG
1 CAAATACCTTCGGGACTTAACCCGGATATAGTAACT-AGCACAAAGCCTTCGGGACTTAGCCCGG
* **
55134830 ATTTAACAACTCGCA
65 AATTAGTAACTCGCA
* * * * *
55134845 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATACCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
55134910 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
55134925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATACCTTCGGGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
55134989 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
55135004 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATACCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
55135068 GA
64 GA
55135070 CATCATTCAA
Statistics
Matches: 196, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 96 0.49
80 94 0.48
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATACCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:55136321 original size:55 final size:53
Alignment explanation
Indices: 55136237--55136352 Score: 207
Period size: 55 Copynumber: 2.2 Consensus size: 53
55136227 AGCATTTTTT
55136237 TTTGTTTTTCTTTCTAGTTTCGGCAAAATGGGGGGGGGGAGAAACAACCATACAC
1 TTTGTTTTTCTTTCTAGTTTCGGCAAAAT--GGGGGGGGAGAAACAACCATACAC
55136292 TTTGTTTTTCTTTCTAGTTTCGGCAAAATGGGGGGGGAGAAACAACCATACAC
1 TTTGTTTTTCTTTCTAGTTTCGGCAAAATGGGGGGGGAGAAACAACCATACAC
55136345 TTT-TTTTT
1 TTTGTTTTT
55136353 GTTTTCATCA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
52 5 0.08
53 27 0.44
55 29 0.48
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (53 bp):
TTTGTTTTTCTTTCTAGTTTCGGCAAAATGGGGGGGGAGAAACAACCATACAC
Found at i:55142505 original size:79 final size:81
Alignment explanation
Indices: 55142403--55142587 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
55142393 GCTCCTCGTT
* *
55142403 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55142466 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
55142483 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
55142547 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
55142563 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55142588 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:55142587 original size:40 final size:40
Alignment explanation
Indices: 55142403--55142587 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
55142393 GCTCCTCGTT
* *
55142403 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55142443 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
55142483 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
55142522 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
55142563 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55142588 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:55147000 original size:17 final size:18
Alignment explanation
Indices: 55146965--55147002 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55146955 CTTTAGGATT
55146965 TATTTTTTTTCCTTCTTC
1 TATTTTTTTTCCTTCTTC
55146983 TATTTTTTATT-CTT-TTC
1 TATTTTTT-TTCCTTCTTC
55147000 TAT
1 TAT
55147003 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTCCTTCTTC
Found at i:55148348 original size:20 final size:19
Alignment explanation
Indices: 55148305--55148350 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
55148295 GCTATTTTGT
*
55148305 TATGGGCCAACTGTATTGA
1 TATGGGCCAACTGTACTGA
* *
55148324 AATGGGTCCAACTGTGCTGA
1 TATGGG-CCAACTGTACTGA
55148344 TATGGGC
1 TATGGGC
55148351 TAGGCCCAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (19 bp):
TATGGGCCAACTGTACTGA
Found at i:55171292 original size:46 final size:45
Alignment explanation
Indices: 55171225--55171399 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
55171215 TGTAACCCGC
*
55171225 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
55171271 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * **
55171317 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
55171364 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
55171400 ATGCCCAAAC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.67
47 32 0.30
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:55171346 original size:93 final size:93
Alignment explanation
Indices: 55171233--55171404 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
55171223 GCCCATAAGT
* ** * *
55171233 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55171298 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
55171326 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55171391 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55171405 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55171419 original size:46 final size:46
Alignment explanation
Indices: 55171276--55171419 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
55171266 CGCATCCATA
* * *
55171276 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
55171325 --CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCCCATACATCCT
*
55171369 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
55171415 AGTGA
1 AGTGA
55171420 CATTTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.44
47 29 0.40
49 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:55184436 original size:33 final size:31
Alignment explanation
Indices: 55184362--55184443 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 31
55184352 AATACGAAAG
*
55184362 AAAAAAACTAGAAAA-ATAGAAAAATTAAAATT
1 AAAAAAA-TA-AAAATATATAAAAATTAAAATT
* *
55184394 AAAATAATAAAAGTATATAAAAATTTAAAATAT
1 AAAAAAATAAAAATATATAAAAA-TTAAAAT-T
55184427 AAAAAAATAAAAATATA
1 AAAAAAATAAAAATATA
55184444 AGTATAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 3 0.07
31 10 0.24
32 13 0.31
33 16 0.38
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (31 bp):
AAAAAAATAAAAATATATAAAAATTAAAATT
Found at i:55184443 original size:31 final size:29
Alignment explanation
Indices: 55184373--55184444 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 29
55184363 AAAAAACTAG
* *
55184373 AAAAATAGAAAAATTAAAATTAAAATAAT
1 AAAAATATAAAAATTAAAATTAAAAAAAT
55184402 AAAAGTATATAAAAATTTAAAATATAAAAAAAT
1 AAAA--ATATAAAAA-TTAAAAT-TAAAAAAAT
55184435 AAAAATATAA
1 AAAAATATAA
55184445 GTATAAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 4 0.11
31 14 0.38
32 7 0.19
33 12 0.32
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAAATATAAAAATTAAAATTAAAAAAAT
Found at i:55184890 original size:30 final size:30
Alignment explanation
Indices: 55184854--55184941 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
55184844 ATGTGAGATC
55184854 CCACACACCCGTGTGGCCAGGCTGTGTGCT
1 CCACACACCCGTGTGGCCAGGCTGTGTGCT
* *
55184884 CCACACACCCGTGTGGCTAGGCCGTGTGCT
1 CCACACACCCGTGTGGCCAGGCTGTGTGCT
*
55184914 CCACACACCCGTGTGGCCAGGCTATGTG
1 CCACACACCCGTGTGGCCAGGCTGTGTG
55184942 GGTCAAAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.15, C:0.36, G:0.30, T:0.19
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGGCTGTGTGCT
Found at i:55187477 original size:16 final size:16
Alignment explanation
Indices: 55187458--55187488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55187448 CTTCTTCACT
55187458 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
55187474 TACTTACTTACTTAA
1 TACTCACTTACTTAA
55187489 TCAATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:55187883 original size:55 final size:54
Alignment explanation
Indices: 55187728--55187935 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 54
55187718 ATCCTTTTGA
* * * * *
55187728 AACTTACCATTTCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
55187781 AACTCACCAATGTCATGCCTTGGCATAGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * * * *
55187835 AAGCTTATCAATGCCATGTCTTGACATGGTCTTAAATGATATCCTTGCCTTAGA-
1 AA-CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
55187889 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
55187936 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 26, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
52 1 0.01
53 40 0.32
54 12 0.10
55 69 0.56
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:55191803 original size:30 final size:30
Alignment explanation
Indices: 55191764--55191820 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
55191754 ACGGACTGGC
* *
55191764 ACATAGGCATGTGGCCAGCCCGTGTGGCTT
1 ACATAGGCATGTAGCCAGCCCATGTGGCTT
*
55191794 ACATTGGCATGTAGCCAGCCCATGTGG
1 ACATAGGCATGTAGCCAGCCCATGTGG
55191821 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (30 bp):
ACATAGGCATGTAGCCAGCCCATGTGGCTT
Found at i:55203058 original size:39 final size:39
Alignment explanation
Indices: 55203015--55203109 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
55203005 TAAAGACCCA
*
55203015 CAGGCTATATGCTGGAATTATACCCGGACTTAAGGTCCG
1 CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
*
55203054 CAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCG
1 CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
*
55203093 CAGGCTACATGCTGGAA
1 CAGGCTATATGCTGGAA
55203110 ATATGTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
CAGGCTATATGCTGGAATTATAACCGGACTTAAGGTCCG
Found at i:55208449 original size:18 final size:18
Alignment explanation
Indices: 55208426--55208471 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
55208416 ATATTTTTTG
* *
55208426 AAAACCTTGTTTTCATTA
1 AAAACCTTGTTTACAATA
*
55208444 AAAACCCTTCTTTACAATA
1 AAAA-CCTTGTTTACAATA
55208463 AAAACCTTG
1 AAAACCTTG
55208472 AGTAAAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAACCTTGTTTACAATA
Found at i:55214481 original size:28 final size:28
Alignment explanation
Indices: 55214382--55214482 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 28
55214372 CCCCTTTAGG
* * *
55214382 CCCAATCTCATTCATATGGCCCATTAGGC
1 CCCAATCACATTCATATGACCCATCA-GC
** * * * *
55214411 CTAAATCACTTTCAAATGAACCATCGGC
1 CCCAATCACATTCATATGACCCATCAGC
*
55214439 CCCAATCATATTCATATGACCCATCAGC
1 CCCAATCACATTCATATGACCCATCAGC
55214467 CCCAATCACATTCATA
1 CCCAATCACATTCATA
55214483 GTCATGCAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 1
0.75 0.23 0.01
Matches are distributed among these distances:
28 38 0.69
29 17 0.31
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.26
Consensus pattern (28 bp):
CCCAATCACATTCATATGACCCATCAGC
Found at i:55216140 original size:29 final size:29
Alignment explanation
Indices: 55216107--55216166 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
55216097 ATAACCAAAC
*
55216107 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
55216136 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
55216165 CT
1 CT
55216167 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:55216159 original size:15 final size:15
Alignment explanation
Indices: 55216113--55216160 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
55216103 AAACCTACAA
*
55216113 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
55216128 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
55216142 AAACTTCATATCCAT
1 AAACTTCATATCCAT
55216157 AAAC
1 AAAC
55216161 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:55230208 original size:16 final size:17
Alignment explanation
Indices: 55230175--55230209 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
55230165 TAATTATTTG
55230175 TTTTTTATTTATATAAA
1 TTTTTTATTTATATAAA
55230192 TTTTTTATTTATA-AAA
1 TTTTTTATTTATATAAA
55230208 TT
1 TT
55230210 GGCATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATTTATATAAA
Found at i:55238119 original size:30 final size:30
Alignment explanation
Indices: 55238085--55238145 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55238075 TCCTTAACTC
55238085 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55238115 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55238145 A
1 A
55238146 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55240638 original size:30 final size:30
Alignment explanation
Indices: 55240604--55240663 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55240594 ATTTAATACG
55240604 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55240634 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55240664 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55240984 original size:46 final size:46
Alignment explanation
Indices: 55240931--55241024 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
55240921 CTTACTACTA
55240931 AACTTTCCAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTG
1 AACTTTCCAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTG
*
55240977 AACTTTCCAAAAATTCCTTCCATGTCCTAATTTTTTCCATGAACTG
1 AACTTTCCAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTG
55241023 AA
1 AA
55241025 AATTTGTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (46 bp):
AACTTTCCAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTG
Found at i:55244354 original size:204 final size:204
Alignment explanation
Indices: 55244004--55244410 Score: 796
Period size: 204 Copynumber: 2.0 Consensus size: 204
55243994 TCACAAAGCC
55244004 TTTATCAGTCAACTCTTGCAACTGCGACTTTAATTCTTTCAACTCTGTTGGTGCCATTCTATATG
1 TTTATCAGTCAACTCTTGCAACTGCGACTTTAATTCTTTCAACTCTGTTGGTGCCATTCTATATG
55244069 GAGCAATCGAGATCGGAGCTGTTCCCGGTATCAAATCTATACCAAATTCTACTTCCCTGACTGGA
66 GAGCAATCGAGATCGGAGCTGTTCCCGGTATCAAATCTATACCAAATTCTACTTCCCTGACTGGA
*
55244134 GGCAAACCCGGCAATTCTTCTGGAAATACGTCCGCAAATTCACACACAACCGGCACTGATTCAAC
131 GGCAAACCCGGCAATTCTTCTGGAAATACATCCGCAAATTCACACACAACCGGCACTGATTCAAC
55244199 TTTCTTTTT
196 TTTCTTTTT
55244208 TTTATCAGTCAACTCTTGCAACTGCGACTTTAATTCTTTCAACTCTGTTGGTGCCATTCTATATG
1 TTTATCAGTCAACTCTTGCAACTGCGACTTTAATTCTTTCAACTCTGTTGGTGCCATTCTATATG
55244273 GAGCAATCGAGATCGGAGCTGTTCCCGGTATCAAATCTATACCAAATTCTACTTCCCTGACTGGA
66 GAGCAATCGAGATCGGAGCTGTTCCCGGTATCAAATCTATACCAAATTCTACTTCCCTGACTGGA
*
55244338 GGCAAACCCGGCAATTCTTCTGGAAATACATCCGCAAATTCACACACAACCGGTACTGATTCAAC
131 GGCAAACCCGGCAATTCTTCTGGAAATACATCCGCAAATTCACACACAACCGGCACTGATTCAAC
55244403 TTTCTTTT
196 TTTCTTTT
55244411 CAACTTCTTT
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 201 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (204 bp):
TTTATCAGTCAACTCTTGCAACTGCGACTTTAATTCTTTCAACTCTGTTGGTGCCATTCTATATG
GAGCAATCGAGATCGGAGCTGTTCCCGGTATCAAATCTATACCAAATTCTACTTCCCTGACTGGA
GGCAAACCCGGCAATTCTTCTGGAAATACATCCGCAAATTCACACACAACCGGCACTGATTCAAC
TTTCTTTTT
Found at i:55247531 original size:46 final size:46
Alignment explanation
Indices: 55247464--55247816 Score: 416
Period size: 46 Copynumber: 7.6 Consensus size: 46
55247454 TACATCTCAC
*
55247464 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
* *
55247510 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
* * * *
55247556 GAACCCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGT
*
55247603 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
* *
55247649 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
* * * *
55247695 GAACCCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGT
*
55247742 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
*
55247788 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
55247817 TGCTCAACCA
Statistics
Matches: 261, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
42 4 0.02
43 8 0.03
44 4 0.02
45 4 0.02
46 169 0.65
47 54 0.21
48 4 0.02
49 4 0.02
50 6 0.02
51 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
Found at i:55247746 original size:93 final size:96
Alignment explanation
Indices: 55247463--55247819 Score: 404
Period size: 93 Copynumber: 3.8 Consensus size: 96
55247453 TTACATCTCA
*
55247463 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55247528 ACGAGCTCGG--G-C-GTTCGCATCCATAAG
66 ACGAGCTCGGATGCCAGTTCACATCCATAAG
* * * * *
55247555 TGAACCCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCGGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGTGAACTCGGACTCA
* *
55247616 ACTCAACGAGTTCGGA---CA-TTCGCATCCATAAG
61 ACTCAACGAGCTCGGATGCCAGTTCACATCCATAAG
* * * *
55247648 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55247713 ACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-
66 ACGAGCTCGGATGCC-AGTTCACATCCATAAG
*
55247741 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55247806 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
55247820 TCAACCATCC
Statistics
Matches: 226, Mismatches: 23, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
88 2 0.01
89 3 0.01
90 2 0.01
91 2 0.01
92 54 0.24
93 143 0.63
94 4 0.02
95 4 0.02
96 8 0.04
97 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (96 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCAGTTCACATCCATAAG
Found at i:55247835 original size:139 final size:139
Alignment explanation
Indices: 55247442--55247815 Score: 739
Period size: 139 Copynumber: 2.7 Consensus size: 139
55247432 AAGTACATAC
55247442 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
55247507 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACT
66 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACT
55247572 CAACGAGCT
131 CAACGAGCT
55247581 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
55247646 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACT
66 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACT
55247711 CAACGAGCT
131 CAACGAGCT
55247720 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
*
55247785 AGTGAACTCGGACTCAACTCAACGAGTTCGG
66 AGTGAACTCGGACTCAACTCAACGAGCTCGG
55247816 ATGCTCAACC
Statistics
Matches: 234, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 234 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (139 bp):
CGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACT
CAACGAGCT
Found at i:55249367 original size:211 final size:211
Alignment explanation
Indices: 55249003--55250024 Score: 1890
Period size: 211 Copynumber: 4.8 Consensus size: 211
55248993 ATACTAAAAA
55249003 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
1 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
55249068 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
66 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
55249133 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
131 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
55249198 AGGATATTACAAGAAC
196 AGGATATTACAAGAAC
55249214 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
1 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
55249279 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
66 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
55249344 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
131 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
55249409 AGGATATTACAAGAAC
196 AGGATATTACAAGAAC
55249425 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
1 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
55249490 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
66 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
55249555 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
131 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
55249620 AGGATATTACAAGAAC
196 AGGATATTACAAGAAC
55249636 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
1 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
55249701 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
66 CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
55249766 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
131 TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
55249831 AGGATATTACAAGAAC
196 AGGATATTACAAGAAC
*
55249847 CTTCTAGAATGCAAGTTTTGCAACTTATTCAATTTAGTCCCTAAC-TTCGAA-TTAAGCACTTTA
1 CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCT-ACTTTC-AATTTAAGCACTTTA
* * * *
55249910 TGCATAGAATTTCTTCACGAAATTTTTACACAATCATGCAATCATATCATAGA-CCTCAAAATAA
64 GGCATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATA-ATCATCAAAATAA
* * * *
55249974 TCATAAAATAATTATTTATATCTCAG-ATTTTGTGGTCCCAAAACCTCTATT
128 TTATAAAATAATTATTTCTATCTC-GTA-TTTGTGGTCACAAAACCACTATT
55250025 CCAACTAGAC
Statistics
Matches: 797, Mismatches: 9, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
211 770 0.97
212 27 0.03
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (211 bp):
CTTCTAGAATGCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGG
CATAGAATTTCATCACGAAATTTTCACACAATCATGCAATCATATCATAATCATCAAAATAATTA
TAAAATAATTATTTCTATCTCGTATTTGTGGTCACAAAACCACTATTTCGATTAAGCCCTAATTC
AGGATATTACAAGAAC
Found at i:55251989 original size:54 final size:54
Alignment explanation
Indices: 55251907--55252022 Score: 223
Period size: 54 Copynumber: 2.1 Consensus size: 54
55251897 GATTTGTTTG
55251907 ATCAGCTAAAAAGAGCGACATGGTTTTCAAAGATTGACTTGAGATCTGGGTATT
1 ATCAGCTAAAAAGAGCGACATGGTTTTCAAAGATTGACTTGAGATCTGGGTATT
*
55251961 ATCAGCTAAAAGGAGCGACATGGTTTTCAAAGATTGACTTGAGATCTGGGTATT
1 ATCAGCTAAAAAGAGCGACATGGTTTTCAAAGATTGACTTGAGATCTGGGTATT
55252015 ATCAGCTA
1 ATCAGCTA
55252023 CGAGTGAAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (54 bp):
ATCAGCTAAAAAGAGCGACATGGTTTTCAAAGATTGACTTGAGATCTGGGTATT
Found at i:55255968 original size:93 final size:93
Alignment explanation
Indices: 55255809--55255979 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55255799 GGATGGTTGA
55255809 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATGTCCGAACTCGTTGAGT
*
55255874 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
55255902 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATGTC-CGAACTCGTTGAG
55255966 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
55255980 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55255982 original size:46 final size:47
Alignment explanation
Indices: 55255812--55255984 Score: 214
Period size: 46 Copynumber: 3.7 Consensus size: 47
55255802 TGGTTGAGCA
*
55255812 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
55255858 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
55255904 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
55255952 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55255985 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 59 0.55
47 29 0.27
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:55262680 original size:40 final size:40
Alignment explanation
Indices: 55262635--55262767 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 40
55262625 GATATATTAA
* *
55262635 ATATCCGGGTTAAATCCCGTAAGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
*
55262675 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
* * *
55262715 ATATCCGGGTTAAATCCCGCAGGCTTAGTGTTGGT-A-CT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
55262753 ATATCCGGGCTTAAA
1 ATATCCGGG-TTAAA
55262768 GTTCCACAGG
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
38 10 0.12
39 6 0.07
40 69 0.81
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
Found at i:55262792 original size:80 final size:80
Alignment explanation
Indices: 55262635--55262792 Score: 187
Period size: 80 Copynumber: 2.0 Consensus size: 80
55262625 GATATATTAA
* * * *
55262635 ATATCCGGGTTAAATCCCGTAAGCTTCGTGCTGGTAATGTATATCCGGGTTAAATCTCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAAGCTTAGTGCTGGTAATCTATATCCGGGTTAAATCTCACAGGCT
* *
55262700 TCGTGCTGGTAATGT
66 TCGAGCTAGTAATGT
* *
55262715 ATATCCGGGTTAAATCCCGCAGGCTTAGTGTTGGT-A-CTATATCCGGGCTTAAAGT-TCCACAG
1 ATATCCGGGTTAAATCCCGCAAGCTTAGTGCTGGTAATCTATATCCGGG-TTAAA-TCT-CACAG
*
55262777 GCTTTGAGCTAGTAAT
63 GCTTCGAGCTAGTAAT
55262793 TGGATTCGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
78 10 0.15
79 7 0.11
80 49 0.74
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (80 bp):
ATATCCGGGTTAAATCCCGCAAGCTTAGTGCTGGTAATCTATATCCGGGTTAAATCTCACAGGCT
TCGAGCTAGTAATGT
Found at i:55268563 original size:29 final size:29
Alignment explanation
Indices: 55268530--55268589 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
55268520 ATAACCAAAC
*
55268530 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTTATATCCATAAAACCAT
*
55268559 CTACATAAACTTTATATCCATAAAACCAT
1 CTACAAAAACTTTATATCCATAAAACCAT
55268588 CT
1 CT
55268590 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTTATATCCATAAAACCAT
Found at i:55268582 original size:15 final size:15
Alignment explanation
Indices: 55268536--55268582 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
55268526 AAACCTACAA
55268536 AAACTTTATATCCAT
1 AAACTTTATATCCAT
** * *
55268551 AAAC-CCATCTACAT
1 AAACTTTATATCCAT
55268565 AAACTTTATATCCAT
1 AAACTTTATATCCAT
55268580 AAA
1 AAA
55268583 ACCATCTTTG
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (15 bp):
AAACTTTATATCCAT
Found at i:55270261 original size:30 final size:30
Alignment explanation
Indices: 55270176--55270272 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
55270166 TAAACTAAAA
* *
55270176 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
55270206 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
55270236 TGAGCTAAGTTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
55270265 ATGAGCTA
1 -TGAGCTA
55270273 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:55270604 original size:20 final size:20
Alignment explanation
Indices: 55270579--55270633 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
55270569 TGTGGTTCAA
*
55270579 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
55270599 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
55270619 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
55270634 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:55271606 original size:20 final size:20
Alignment explanation
Indices: 55271560--55271606 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
55271550 AGCTCGTTTC
*
55271560 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
55271580 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
55271600 CAGCTCA
1 CAGCTCA
55271607 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:55277371 original size:20 final size:19
Alignment explanation
Indices: 55277348--55277412 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
55277338 AAGCTCAAAC
55277348 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
55277368 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
55277388 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
55277408 GAGCT
1 GAGCT
55277413 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:55280076 original size:17 final size:18
Alignment explanation
Indices: 55280054--55280091 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55280044 GCTACAACCG
55280054 AATTTA-TG-TTGTGTCTT
1 AATTTATTGTTTGTGT-TT
55280071 AATTTATTGTTTGTGTTT
1 AATTTATTGTTTGTGTTT
55280089 AAT
1 AAT
55280092 ATGTCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (18 bp):
AATTTATTGTTTGTGTTT
Found at i:55285239 original size:27 final size:28
Alignment explanation
Indices: 55285208--55285359 Score: 100
Period size: 27 Copynumber: 5.4 Consensus size: 28
55285198 CAAGCTCTCC
*
55285208 TTCAATTTCTTTT-TTCGCTTTTTCTTT
1 TTCAATTTCTTTTCTTCTCTTTTTCTTT
* **
55285235 TTCAATTTTTTTTCATTCTCAATTTCTTT
1 TTCAATTTCTTTTC-TTCTCTTTTTCTTT
55285264 TTCAATTTTCTTTTCTTCATTTTCTTTTTCTTT
1 TTCAA-TTTCTTTTCTTC----TCTTTTTCTTT
* *
55285297 TGCAATTTC--TT-TT-TCTTTTTCGTT
1 TTCAATTTCTTTTCTTCTCTTTTTCTTT
** * **
55285321 TTCTTTTTGTTTTCTT-TCAATTTCTTT
1 TTCAATTTCTTTTCTTCTCTTTTTCTTT
*
55285348 TTCAATCTCTTT
1 TTCAATTTCTTT
55285360 CTCCTTTTAT
Statistics
Matches: 95, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
24 15 0.16
26 2 0.02
27 30 0.32
29 21 0.22
30 10 0.11
32 4 0.04
33 13 0.14
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.69
Consensus pattern (28 bp):
TTCAATTTCTTTTCTTCTCTTTTTCTTT
Found at i:55285268 original size:29 final size:27
Alignment explanation
Indices: 55285228--55285293 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 27
55285218 TTTTTCGCTT
55285228 TTTCTTTTTCAATTTT-TTTTCATTCTCAA
1 TTTCTTTTTCAATTTTCTTTTC--T-TCAA
*
55285257 TTTCTTTTTCAATTTTCTTTTCTTCAT
1 TTTCTTTTTCAATTTTCTTTTCTTCAA
55285284 TTTCTTTTTC
1 TTTCTTTTTC
55285294 TTTTGCAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 13 0.37
28 1 0.03
29 16 0.46
30 5 0.14
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTCTTTTTCAATTTTCTTTTCTTCAA
Found at i:55285277 original size:12 final size:12
Alignment explanation
Indices: 55285228--55285359 Score: 52
Period size: 12 Copynumber: 11.6 Consensus size: 12
55285218 TTTTTCGCTT
55285228 TTTCTTTTTCAA
1 TTTCTTTTTCAA
55285240 TTT-TTTTTC-A
1 TTTCTTTTTCAA
55285250 -TTC----TCAA
1 TTTCTTTTTCAA
55285257 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
55285269 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
*
55285284 TTTCTTTTTC-T
1 TTTCTTTTTCAA
** **
55285295 TTTGCAATTTCTT
1 TTT-CTTTTTCAA
**
55285308 TTTCTTTTTCGT
1 TTTCTTTTTCAA
*
55285320 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
55285330 TTT-TCTTTCAA
1 TTTCTTTTTCAA
55285341 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
55285353 TCTCTTT
1 TTTCTTT
55285360 CTCCTTTTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 30
0.70 0.08 0.22
Matches are distributed among these distances:
6 2 0.02
7 1 0.01
8 3 0.03
9 6 0.06
10 4 0.04
11 13 0.14
12 43 0.46
13 11 0.12
14 7 0.07
15 4 0.04
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:55285278 original size:18 final size:18
Alignment explanation
Indices: 55285225--55285333 Score: 84
Period size: 18 Copynumber: 6.3 Consensus size: 18
55285215 TCTTTTTTCG
* **
55285225 CTTTTTCTTTTTCAATTT
1 CTTTTTCATTTTCTTTTT
* **
55285243 -TTTTTCATTCTCAATTT
1 CTTTTTCATTTTCTTTTT
55285260 CTTTTTCAATTTTC-TTTT
1 CTTTTTC-ATTTTCTTTTT
55285278 C---TTCATTTTCTTTTT
1 CTTTTTCATTTTCTTTTT
* *
55285293 CTTTTGCAATTTCTTTTT
1 CTTTTTCATTTTCTTTTT
*
55285311 CTTTTTCGTTTTCTTTTT
1 CTTTTTCATTTTCTTTTT
*
55285329 GTTTT
1 CTTTT
55285334 CTTTCAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.08
15 8 0.11
17 15 0.20
18 41 0.55
19 5 0.07
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.72
Consensus pattern (18 bp):
CTTTTTCATTTTCTTTTT
Found at i:55285345 original size:33 final size:35
Alignment explanation
Indices: 55285263--55285351 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 35
55285253 TCAATTTCTT
55285263 TTTCAATTTTCTTTTCTTCATTTTCTTTTTCTTTTGCAA
1 TTTCAA-TTTC-TTT-TTCATTTTCTTTTTCTTTTGC-A
** * *
55285302 TTTCTTTTTCTTTTTCGTTTTCTTTTTGTTTT-C-
1 TTTCAATTTCTTTTTCATTTTCTTTTTCTTTTGCA
55285335 TTTCAATTTCTTTTTCA
1 TTTCAATTTCTTTTTCA
55285352 ATCTCTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
33 14 0.33
35 1 0.02
36 17 0.40
37 3 0.07
38 4 0.09
39 4 0.09
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.71
Consensus pattern (35 bp):
TTTCAATTTCTTTTTCATTTTCTTTTTCTTTTGCA
Found at i:55285350 original size:6 final size:6
Alignment explanation
Indices: 55285225--55285337 Score: 68
Period size: 6 Copynumber: 18.7 Consensus size: 6
55285215 TCTTTTTTCG
** * * ** *
55285225 CTTTTT CTTTTT CAATTT -TTTTT CATTCT CAATTT CTTTTT CAATTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT
* * ** *
55285273 CTTTTCTT CATTTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT
1 C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
55285323 CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTT
55285338 CAATTTCTTT
Statistics
Matches: 78, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
5 7 0.09
6 59 0.76
7 9 0.12
8 3 0.04
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:55290964 original size:72 final size:72
Alignment explanation
Indices: 55290874--55291017 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 72
55290864 TTATGAAAGT
* *
55290874 GATTAACCATCCCCGTGGCCAA-TC-CATGTCAAGCATATCCACACCAAATGATTATAACATTAT
1 GATTAACCATCCCCGTGGCCAATTCTCA-AT-AACCATATCCACACCAAATGATTATAACATTAT
55290937 ACTCAAACA
64 ACTCAAACA
*
55290946 GATTAACCATCCCCGTGGCCAATTCTCAATAACCATATCCATACCAAATGATTATAACATTATAC
1 GATTAACCATCCCCGTGGCCAATTCTCAATAACCATATCCACACCAAATGATTATAACATTATAC
55291011 TCAAACA
66 TCAAACA
55291018 TATATAAGCC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
72 62 0.93
73 3 0.04
74 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.25
Consensus pattern (72 bp):
GATTAACCATCCCCGTGGCCAATTCTCAATAACCATATCCACACCAAATGATTATAACATTATAC
TCAAACA
Found at i:55291633 original size:40 final size:40
Alignment explanation
Indices: 55291585--55291808 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
55291575 GCTCCTCGTT
*
55291585 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55291625 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
55291665 CAAATGCCTTCTGGACTTAACCCGGATT-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
55291705 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
55291744 CAAATGCGTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
55291785 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
55291809 ACATCATTTA
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 111 0.71
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55291769 original size:79 final size:80
Alignment explanation
Indices: 55291585--55291809 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 80
55291575 GCTCCTCGTT
* * * * * * *
55291585 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCTGGACTTAACCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
55291650 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
55291665 CAAATGCCTTCTGGACTTAACCCGGATTTAGTAATTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCTGGACTTAACCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
55291729 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* ** * * *
55291744 CAAATGCGTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCTGGA-CTTAACCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
55291807 GGA
64 GGA
55291810 CATCATTTAA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
78 3 0.02
79 54 0.43
80 68 0.54
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCTGGACTTAACCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:55291769 original size:119 final size:120
Alignment explanation
Indices: 55291585--55291809 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
55291575 GCTCCTCGTT
* *
55291585 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
55291650 ATTTAGTAAC-TCGCACAAATGCCTTCTGGACTTAACCCGGATTTAGTAATTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
* * * **
55291705 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCGTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
55291767 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
55291810 CATCATTTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 4 0.04
119 63 0.71
120 22 0.25
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
Found at i:55295675 original size:30 final size:30
Alignment explanation
Indices: 55295618--55295675 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55295608 TTTTCGAGCA
* **
55295618 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGATCATTTTACCAAAGTC
55295648 TAGGGGCAAAATGATCATTTTACCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
55295676 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGTC
Found at i:55296161 original size:46 final size:46
Alignment explanation
Indices: 55296063--55296283 Score: 152
Period size: 46 Copynumber: 4.7 Consensus size: 46
55296053 TTATGAGAGC
55296063 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGAGTGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAGATGAGTGT
* * *
55296111 CAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGTCAGA-GA-TAG-
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCATAG--AGATGAGT-GT
* *
55296157 CAGTGTAAGACGTGTCT-GGAGCATGCATCGGC-TA-AGA-G-TTGT
1 CAGTGTAAGACATGTCTGGGA-CATGCATCGGCATAGAGATGAGTGT
* * ** * * *
55296199 GCTAGTGTAAGACATATCTGGGACATGCATCAGCACGCGTATATGAGAGC
1 -C-AGTGTAAGACATGTCTGGGACATGCATCGGCA-TAG-AGATGAGTGT
**
55296249 CAGTGTAAGATCATGTCTGAAACATGGCATCGGCA
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
55296284 ATATATCCCA
Statistics
Matches: 137, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 1 0.01
44 24 0.18
45 7 0.05
46 37 0.27
47 16 0.12
48 24 0.18
49 13 0.09
50 9 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATGAGTGT
Found at i:55304905 original size:12 final size:12
Alignment explanation
Indices: 55304888--55304913 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55304878 ACCTTAACAT
55304888 AAGAGGGAACCA
1 AAGAGGGAACCA
55304900 AAGAGGGAACCA
1 AAGAGGGAACCA
55304912 AA
1 AA
55304914 TATCTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAGGGAACCA
Found at i:55309291 original size:24 final size:24
Alignment explanation
Indices: 55309276--55309433 Score: 244
Period size: 24 Copynumber: 6.6 Consensus size: 24
55309266 CGGATTTGAG
*
55309276 TGGCACTATGTGTGCGTAATTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
55309300 TGGCACTATGTGTGCGTAATTGTA
1 TGGCACTATGTGTGCGTATTTGTA
55309324 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
55309348 TGGCACTATGTGTGCATATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
* *
55309372 TGGCACTAAGTGTGCGTATATGTA
1 TGGCACTATGTGTGCGTATTTGTA
* * *
55309396 TGGCACTATGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGTATTTGTA
55309420 TGGCACTATGTGTG
1 TGGCACTATGTGTG
55309434 TGGAGTTGAA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 124 1.00
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTATTTGTA
Found at i:55311494 original size:40 final size:40
Alignment explanation
Indices: 55311362--55311487 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
55311352 AACCCAAGTA
* *
55311362 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
55311401 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55311441 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55311481 CCTTCGG
1 CCTTCGG
55311488 ATCTTAGTCT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.16
40 67 0.83
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:55312882 original size:13 final size:13
Alignment explanation
Indices: 55312864--55312889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55312854 ATTTTTATTT
55312864 TTAACATAAAATA
1 TTAACATAAAATA
55312877 TTAACATAAAATA
1 TTAACATAAAATA
55312890 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:55320987 original size:27 final size:27
Alignment explanation
Indices: 55320956--55321133 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
55320946 TAAATTGTAC
55320956 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55320983 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55321009 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55321037 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55321065 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55321092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
55321119 AGCACTGAGAGTGCG
1 AGCACTAAGTGTGCG
55321134 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55321070 original size:82 final size:81
Alignment explanation
Indices: 55320957--55321112 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55320947 AAATTGTACA
* *
55320957 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55321021 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55321038 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55321103 TGCGAGTTGA
65 TGCGAATTGA
55321113 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55323230 original size:11 final size:10
Alignment explanation
Indices: 55323210--55323235 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
55323200 AATGTATCGC
55323210 AAAGAAAAAA
1 AAAGAAAAAA
55323220 AAAGAAAAAA
1 AAAGAAAAAA
55323230 AAAGAA
1 AAAGAA
55323236 CACAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:55323487 original size:14 final size:14
Alignment explanation
Indices: 55323468--55323494 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55323458 TTCTCTTGCA
55323468 CACTTGTATTTTAG
1 CACTTGTATTTTAG
55323482 CACTTGTATTTTA
1 CACTTGTATTTTA
55323495 CTTTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAG
Found at i:55333289 original size:47 final size:44
Alignment explanation
Indices: 55333176--55333302 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 44
55333166 TCATTTGTGT
*
55333176 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATTACGA
* *
55333222 GAGCCAGTGTAAGACTATGTCTAGGACATGGCATCGG-TATTGGGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTATT---ACGA
*
55333270 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC
55333303 AGCCTCGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.06
46 19 0.27
47 24 0.34
48 23 0.33
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATTACGA
Found at i:55333489 original size:49 final size:48
Alignment explanation
Indices: 55333365--55333497 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 48
55333355 TAAATGTTTT
* * * *
55333365 AGTGTAAGACCATGTCTGGGACATGGAATCAGTAGGTTATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGTACG-TAAGTGAGAGCC
* *
55333414 AGTGTAAGACCATGTCTGGGGCATGGCATCAGCCT-CG-AAGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG--TACGTAAG-TGAGAGCC
*
55333463 AGTGTAAGACCATGTCTGGGACATGGCATCGGTAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGTAC
55333498 CTTACCCATG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
47 1 0.01
48 3 0.04
49 66 0.92
50 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGTACGTAAGTGAGAGCC
Found at i:55336530 original size:28 final size:28
Alignment explanation
Indices: 55336490--55336543 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
55336480 TCTAAGATTA
55336490 ATTTGAGGTCGAGACACTATCATTTGTG
1 ATTTGAGGTCGAGACACTATCATTTGTG
*
55336518 ATTTGAGGTCGAGATACTATCATTTG
1 ATTTGAGGTCGAGACACTATCATTTG
55336544 CAAGTGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (28 bp):
ATTTGAGGTCGAGACACTATCATTTGTG
Found at i:55343176 original size:27 final size:26
Alignment explanation
Indices: 55343128--55343187 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55343118 GCGAAGCTGC
*
55343128 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55343155 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55343181 CAGATAT
1 CAGATAT
55343188 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55343200 original size:33 final size:32
Alignment explanation
Indices: 55343149--55343212 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
55343139 ACGAAGTCAC
* *
55343149 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
55343181 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
55343213 TTGCAGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:55343276 original size:27 final size:26
Alignment explanation
Indices: 55343229--55343279 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
55343219 TGAGGCTGCT
*
55343229 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
55343255 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
55343280 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:55349996 original size:27 final size:26
Alignment explanation
Indices: 55349948--55350007 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55349938 GCGAGGCTGC
*
55349948 TAGATATTGTGACGAAGTCACCAGATA
1 TAGATATTGTGACGAAGCCACCAGA-A
* * *
55349975 TAGATATTGTGGCTAGGCCACCAGAA
1 TAGATATTGTGACGAAGCCACCAGAA
*
55350001 CAGATAT
1 TAGATAT
55350008 ATATATGTGG
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:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
TAGATATTGTGACGAAGCCACCAGAA
Found at i:55350026 original size:31 final size:32
Alignment explanation
Indices: 55349969--55350030 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
55349959 ACGAAGTCAC
* *
55349969 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
55350001 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
55350031 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:55350053 original size:71 final size:67
Alignment explanation
Indices: 55349976--55350116 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
55349966 CACCAGATAT
* * * *
55349976 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTCCAGCGAG
55350041 GCTGCC
62 GCTGCC
* * * *
55350047 AGATATTGTGACGAAGTCACTAGAACAGATATATGTGGCGAGGCCACCATATTCCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTCCAGCGAGGCTG
55350112 CC
66 CC
55350114 AGA
1 AGA
55350117 ACGCTTCCGC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 39 0.63
71 23 0.37
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTCCAGCGAGGCTG
CC
Found at i:55353830 original size:45 final size:45
Alignment explanation
Indices: 55353772--55353863 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
55353762 TTCGATGATC
*
55353772 TCTTATGTGAATCTCTAGCTTCAAAGTCAGCTTTTCTTTTCTCTT
1 TCTTATGTGAATCTCTAGCTTCAAAGTCAGCTTTTCTTTTCCCTT
* *
55353817 TCTTATGTGAATCTCTAGCTTCAAATTCATCTTTTCTTTTCCCTT
1 TCTTATGTGAATCTCTAGCTTCAAAGTCAGCTTTTCTTTTCCCTT
55353862 TC
1 TC
55353864 CCAAGCTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (45 bp):
TCTTATGTGAATCTCTAGCTTCAAAGTCAGCTTTTCTTTTCCCTT
Found at i:55356613 original size:56 final size:56
Alignment explanation
Indices: 55356493--55356614 Score: 149
Period size: 56 Copynumber: 2.2 Consensus size: 56
55356483 TCCTAGACAG
** **
55356493 GGTCTTACTCGTACACATATATCAGAGTCACATATCAATCCTAACGTATAAAATGT
1 GGTCTTACTCACACACATATATCAGAGTCACATATCAATCCTAACGTATAAAACAT
* * *
55356549 AGTTTTACTCACACACATATATCTA-AGTCACATATCGATGCC-AACGTATAAAACAT
1 GGTCTTACTCACACACATATATC-AGAGTCACATATCAAT-CCTAACGTATAAAACAT
55356605 GGTCTTACTC
1 GGTCTTACTC
55356615 GCACTGTAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 52 0.95
57 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAGAGTCACATATCAATCCTAACGTATAAAACAT
Found at i:55357317 original size:22 final size:23
Alignment explanation
Indices: 55357275--55357317 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
55357265 AAGATCCTAC
* *
55357275 CCATCCATCCTCTACATTCCACT
1 CCATCCAACCTCTACACTCCACT
55357298 CCATCCAACC-CTACACTCCA
1 CCATCCAACCTCTACACTCCA
55357318 TGTGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.26, C:0.51, G:0.00, T:0.23
Consensus pattern (23 bp):
CCATCCAACCTCTACACTCCACT
Found at i:55359709 original size:33 final size:33
Alignment explanation
Indices: 55359666--55359913 Score: 308
Period size: 33 Copynumber: 7.6 Consensus size: 33
55359656 TCTTTCTGAG
*
55359666 TGGTACACACAAAGTATACATTTCCTTTTCATA
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
55359699 TGGTATACACAAAGTATATC-TTTCCTTTTCATA
1 TGGTATACACAAAGTATA-CATTTCCTTTTCATA
*
55359732 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
* *
55359765 TGGTATATACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
*
55359798 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
* * **
55359830 -GTGTACACACAAAGTGTACATAACCTTTTCA-A
1 TG-GTATACACAAAGTATACATTTCCTTTTCATA
* * ** *
55359862 -GTGTACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTATACACAAAGTATACATTTCCTTTTCATA
55359895 TGGTATACACAAAGTATAC
1 TGGTATACACAAAGTATAC
55359914 CTAAATTTTC
Statistics
Matches: 199, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.01
32 58 0.29
33 138 0.69
34 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (33 bp):
TGGTATACACAAAGTATACATTTCCTTTTCATA
Found at i:55359857 original size:32 final size:32
Alignment explanation
Indices: 55359821--55359909 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 32
55359811 GTATACCTTT
55359821 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
55359853 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* *
55359885 CCTTTTCATGTGGTATACACAAAGT
1 CCTTTTCAAGT-GTACACACAAAGT
55359910 ATACCTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
32 42 0.78
33 12 0.22
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:55359956 original size:29 final size:29
Alignment explanation
Indices: 55359919--55360073 Score: 238
Period size: 29 Copynumber: 5.3 Consensus size: 29
55359909 TATACCTAAA
* *
55359919 TTTTCACATTTGATAGCCAAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
55359948 TTTTCACATTCGATAGCCGAAGCTATCCCC
1 TTTTCACATTCGATAGCCGAAGCTAT-CCC
* * *
55359978 TTTTTACATTCGATAGCCAAAGCTATCCT
1 TTTTCACATTCGATAGCCGAAGCTATCCC
* *
55360007 TTTTCGCATTCAATAGCCGAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
55360036 TTTTCACATTCGATAGCCGAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
55360065 TTTTCACAT
1 TTTTCACAT
55360074 GGTACACATA
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 86 0.76
30 27 0.24
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (29 bp):
TTTTCACATTCGATAGCCGAAGCTATCCC
Found at i:55359994 original size:59 final size:58
Alignment explanation
Indices: 55359919--55360073 Score: 247
Period size: 59 Copynumber: 2.7 Consensus size: 58
55359909 TATACCTAAA
* *
55359919 TTTTCACATTTGATAGCCAAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCCCC
1 TTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATTCAATAGCCGAAGCTAT-CCC
* * *
55359978 TTTTTACATTCGATAGCCAAAGCTATCCTTTTTCGCATTCAATAGCCGAAGCTATCCC
1 TTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATTCAATAGCCGAAGCTATCCC
*
55360036 TTTTCACATTCGATAGCCGAAGCTATCCCTTTTCACAT
1 TTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACAT
55360074 GGTACACATA
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 37 0.43
59 50 0.57
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (58 bp):
TTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATTCAATAGCCGAAGCTATCCC
Found at i:55366620 original size:53 final size:53
Alignment explanation
Indices: 55366535--55366641 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
55366525 ATAGTTACGC
* *
55366535 TCTTTCACTTCTAAAGCGAAATCTTAACTGGCTGAAGCAACCCTGAAGGCAAT
1 TCTTCCACTTCCAAAGCGAAATCTTAACTGGCTGAAGCAACCCTGAAGGCAAT
55366588 TCTTCCACTTCCAAAGCGAAATCTTAACTGGCTGAAGCAACCCTGAAGGCAAT
1 TCTTCCACTTCCAAAGCGAAATCTTAACTGGCTGAAGCAACCCTGAAGGCAAT
55366641 T
1 T
55366642 GATGCTCCGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (53 bp):
TCTTCCACTTCCAAAGCGAAATCTTAACTGGCTGAAGCAACCCTGAAGGCAAT
Found at i:55369404 original size:22 final size:22
Alignment explanation
Indices: 55369379--55369443 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
55369369 GCAAATACGT
*
55369379 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
55369401 TTGGCACAAAGCAAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
55369423 TTGGCATAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
55369444 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:55369647 original size:41 final size:41
Alignment explanation
Indices: 55369590--55369707 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
55369580 GCCACCAGTA
* * *
55369590 GATCCACAGTCGTCAAGCAACCATGCGATCCTTAATTGGTG
1 GATCCACAGTTGTCAAGCAACCATGCGATCCTCAATCGGTG
55369631 GATCCACAGTTGTCAAGCAACCATGCGATCCTCAATCGGTG
1 GATCCACAGTTGTCAAGCAACCATGCGATCCTCAATCGGTG
* * * *
55369672 GATACACGGTTGTCAAGCAACCATACGCTCCTCAAT
1 GATCCACAGTTGTCAAGCAACCATGCGATCCTCAAT
55369708 TTCTTCCTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (41 bp):
GATCCACAGTTGTCAAGCAACCATGCGATCCTCAATCGGTG
Found at i:55370295 original size:27 final size:27
Alignment explanation
Indices: 55369938--55370283 Score: 270
Period size: 27 Copynumber: 12.8 Consensus size: 27
55369928 CTTCACCCTA
* * * *
55369938 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
55369965 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * ** *
55369992 CAATGGTATTTCT-ATAATTTTTTATAGT
1 CAAGGGTATTT-TGGTAATTTTACA-AAT
* * *
55370020 CAACGGTATTTCT-ATAATTTTTCAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * * * *
55370047 TAAGGGTATTTCGATAACTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
55370074 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
55370101 CGAA-GGTATTTTAGTAATTTTACAAGT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*** *
55370128 CAAGGGTATTTCAATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*** *
55370155 CAAGGGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
55370182 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
55370208 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* * *
55370235 CTAGAGGTATTTTGGTAATTTTTCTAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
55370263 CGAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
55370284 GTAAACCAAG
Statistics
Matches: 267, Mismatches: 44, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.01
27 236 0.88
28 28 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:55370320 original size:27 final size:27
Alignment explanation
Indices: 55370290--55370399 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 27
55370280 TTTTGTAAAC
55370290 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
*
55370317 CAAGGGCATTTCAGTAATTCTATCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
* * *
55370344 TAATGGCATTTTAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
* * * * *
55370371 TAGGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
55370398 CA
1 CA
55370400 GATATGAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATTCTACCCTA
Found at i:55375789 original size:49 final size:49
Alignment explanation
Indices: 55375587--55376109 Score: 868
Period size: 49 Copynumber: 10.9 Consensus size: 49
55375577 GAAATGATAG
55375587 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55375634 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55375681 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55375728 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55375777 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55375826 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
55375873 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55375920 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55375969 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55376018 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55376067 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
55376110 NNNNNNNNNN
Statistics
Matches: 455, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 210 0.46
48 2 0.00
49 243 0.53
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55375920 original size:192 final size:192
Alignment explanation
Indices: 55375587--55376106 Score: 900
Period size: 192 Copynumber: 2.7 Consensus size: 192
55375577 GAAATGATAG
55375587 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
55375650 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
*
55375715 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
55375777 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
55375842 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
55375907 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55375969 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
55376034 ACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
55376099 AGTGTATA
129 AGTGTATA
55376107 TATNNNNNNN
Statistics
Matches: 306, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 35 0.11
192 226 0.74
194 45 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55379714 original size:28 final size:29
Alignment explanation
Indices: 55379645--55379715 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
55379635 TTGGTTTTCA
* *
55379645 GCACTAAGTGTGCGGGCTTGAAATGCATG
1 GCACTAAGTGTGCGAGCTTGAAATACATG
*
55379674 GCACTAAGTGTGCGAG-TTTAAAGTACAT-
1 GCACTAAGTGTGCGAGCTTGAAA-TACATG
55379702 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55379716 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTTGAAATACATG
Found at i:55380151 original size:40 final size:40
Alignment explanation
Indices: 55380107--55380263 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
55380097 GAGTTACTAA
*
55380107 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
55380147 ATCCGGGCTAAGTCCCGAAGAGCATCCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
55380187 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
55380227 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
55380264 CGTGTATTCG
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:55380165 original size:80 final size:80
Alignment explanation
Indices: 55380028--55380250 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
55380018 TCGAATGATG
** * * *
55380028 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGCGA-TATATCCGGGCTAAG-TCCCGAAGAGC
*** *
55380089 ATTGGTGCGAGTTACTAAA
63 ATCCATGCGAGTGA-TAAA
*
55380108 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCATC
* **
55380173 CATGCTAGTGATGTA
66 CATGCGAGTGATAAA
* * * *
55380188 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCA
55380251 ATCATGCTGG
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 97 0.80
81 17 0.14
82 6 0.05
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAGTCCCGAAGAGCATC
CATGCGAGTGATAAA
Found at i:55383382 original size:49 final size:49
Alignment explanation
Indices: 55383180--55383702 Score: 868
Period size: 49 Copynumber: 10.9 Consensus size: 49
55383170 GAAATGATAG
55383180 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55383227 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55383274 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55383321 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383370 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383419 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
55383466 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55383513 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383562 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383611 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383660 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
55383703 NNNNNNNNNN
Statistics
Matches: 455, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 210 0.46
48 2 0.00
49 243 0.53
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55383513 original size:192 final size:192
Alignment explanation
Indices: 55383180--55383699 Score: 900
Period size: 192 Copynumber: 2.7 Consensus size: 192
55383170 GAAATGATAG
55383180 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
55383243 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
*
55383308 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
55383370 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
55383435 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
55383500 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55383562 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
55383627 ACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
55383692 AGTGTATA
129 AGTGTATA
55383700 TATNNNNNNN
Statistics
Matches: 306, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 35 0.11
192 226 0.74
194 45 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55393896 original size:28 final size:28
Alignment explanation
Indices: 55393856--55394019 Score: 240
Period size: 28 Copynumber: 5.9 Consensus size: 28
55393846 TGGGAAGTAG
* * *
55393856 TTGGGCTTGATGGCCCGTATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
55393884 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55393912 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55393940 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
55393968 TTGGGCCTGAT-GGCCATGTGAATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
55393995 TTGGGCCTAAATGGGCCAAATGAAT
1 TTGGGCCT-GATGGGCCATATGAAT
55394020 AAGTGTGAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.18
28 92 0.74
29 10 0.08
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:55394724 original size:27 final size:27
Alignment explanation
Indices: 55394319--55394711 Score: 442
Period size: 27 Copynumber: 14.7 Consensus size: 27
55394309 TAATAAAAAG
*
55394319 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55394346 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55394373 AAATTACTAAAATGCCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
55394399 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
55394426 AAATTACTGAAATACCCTCGATTT-TG
1 AAATTACTGAAATACCCTCGATTTGTA
*
55394452 AAATTACTGAAATACCCTCGTTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55394479 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
55394505 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
55394532 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
55394559 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
55394586 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
55394613 AAATTA-TAGAAATACCCTCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
55394640 TAATTA-TCGTAACACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
55394667 AAATTATTGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
*
55394694 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
55394712 TGTAGTGTAA
Statistics
Matches: 309, Mismatches: 49, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
26 70 0.23
27 237 0.77
28 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:55394735 original size:27 final size:27
Alignment explanation
Indices: 55394675--55394754 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
55394665 TAAAATTATT
*
55394675 GAAATACCCTTGTAGTGTAAAATTACC
1 GAAATACCCTTGTAGTGTAAAATGACC
55394702 GAAATACCCTTGTAGTGTAAAATGACC
1 GAAATACCCTTGTAGTGTAAAATGACC
* *
55394729 -AACATACCCCTGTAGGGTAAAATGAC
1 GAA-ATACCCTTGTAGTGTAAAATGAC
55394755 TGTTTTGCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACC
Found at i:55398965 original size:61 final size:61
Alignment explanation
Indices: 55398870--55398991 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
55398860 TAATTTCTTC
55398870 AAGTTAGTGGCATGTATAGGGACTTAATTATTGATATGTGTTTTTATATTTTGGCCAAGAT
1 AAGTTAGTGGCATGTATAGGGACTTAATTATTGATATGTGTTTTTATATTTTGGCCAAGAT
55398931 AAGTTAGTGGCATGTATAGGGACTTAATTATTGATATGTGTTTTTATATTTTGGCCAAGAT
1 AAGTTAGTGGCATGTATAGGGACTTAATTATTGATATGTGTTTTTATATTTTGGCCAAGAT
55398992 GTTGGCTTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.43
Consensus pattern (61 bp):
AAGTTAGTGGCATGTATAGGGACTTAATTATTGATATGTGTTTTTATATTTTGGCCAAGAT
Done.