Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 166 of 187
Found at i:50357747 original size:57 final size:58
Alignment explanation
Indices: 50357641--50357756 Score: 182
Period size: 57 Copynumber: 2.0 Consensus size: 58
50357631 CGGTAAAAGG
50357641 ATCTAGCCCGGACGGGTGATCTTATCCTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAA
1 ATCTAGCCCGGACGGGTGATC-T-T-CTGATATAGCCCTCCCGAAGAATATGTG-GAAAAAA
50357703 ATCTAGCCCGGACGGGTGATC-T-TGATATAGCCCTCCCGAAGAATATGTGGAAAA
1 ATCTAGCCCGGACGGGTGATCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAA
50357757 TGGATTTAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
56 5 0.09
57 27 0.50
59 1 0.02
62 21 0.39
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (58 bp):
ATCTAGCCCGGACGGGTGATCTTCTGATATAGCCCTCCCGAAGAATATGTGGAAAAAA
Found at i:50362648 original size:24 final size:24
Alignment explanation
Indices: 50362633--50362684 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
50362623 AATCAATGTC
*
50362633 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
50362657 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
50362681 AAAT
1 AAAT
50362685 CTATCTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:50364261 original size:45 final size:45
Alignment explanation
Indices: 50364196--50364345 Score: 214
Period size: 45 Copynumber: 3.3 Consensus size: 45
50364186 ATGTGCCAAC
* *
50364196 TACTGTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* *
50364241 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
*
50364286 TA-TCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGT
1 TACT-GTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
*
50364331 TACTGTTAATGTTAC
1 TACTGTTACTGTTAC
50364346 TGCTACCGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.01
45 93 0.98
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:50364336 original size:6 final size:6
Alignment explanation
Indices: 50364325--50364373 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
50364315 GTGTGTTGAA
* * *
50364325 TACTGT TACTGT TAATGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
50364374 GTGCGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:50366941 original size:17 final size:17
Alignment explanation
Indices: 50366919--50366951 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50366909 ATCTGTTGTT
*
50366919 TTAATTTTTTTATATTA
1 TTAATTTTATTATATTA
50366936 TTAATTTTATTATATT
1 TTAATTTTATTATATT
50366952 GTATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAATTTTATTATATTA
Found at i:50379450 original size:41 final size:41
Alignment explanation
Indices: 50379291--50379640 Score: 208
Period size: 44 Copynumber: 8.3 Consensus size: 41
50379281 CGGTGAAACT
* *
50379291 TCAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AG--AA
* * * * *
50379336 T-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * ** * *
50379376 TCAGATCTTATCTTTCTGAAGTTGTAGAAGAGCAGA-TCGCA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
50379417 TCCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAA
1 T-CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AG--AA
* * * * * *
50379463 T-AATCCTATCTCTTTAAAGTTGCAGTGGAGCGGATTAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * ** * *
50379503 TCAGATCTTATCTCTTTGAAGTTACAGAAGAGCAGA-TCGCA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
* * *
50379544 TCCAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGATGA
1 T-CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT-TAGA--A
* ** * *
50379589 T-AGATCTCATCTCTCTGCGGTTGCAGTAGAGCAGATT-GTA
1 TCAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
*
50379629 TCAGACTTATCT
1 TCAGTCTTATCT
50379641 TTAAAGTTGT
Statistics
Matches: 231, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
40 14 0.06
41 62 0.27
42 59 0.26
43 3 0.01
44 88 0.38
45 3 0.01
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (41 bp):
TCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGAA
Found at i:50379615 original size:127 final size:127
Alignment explanation
Indices: 50379292--50379580 Score: 490
Period size: 127 Copynumber: 2.3 Consensus size: 127
50379282 GGTGAAACTT
* *
50379292 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAATAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
**
50379357 GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTGTAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTACAGAAGAGCAGATCGCATC
* * *
50379419 CAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTTTAAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
50379484 GCAGTGGAGCGGATTAAAATCAGATCTTATCTCTT-TGAAGTTACAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAAAATCAGATCTTATCT-TTCTGAAGTTACAGAAGAGCAGATCGCATC
*
50379546 CAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
50379581 CAAGATGATA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 150 0.99
128 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAATAATCCTATCTCTCTGAAGTT
GCAGTGGAGCGGATTAAAATCAGATCTTATCTTTCTGAAGTTACAGAAGAGCAGATCGCATC
Found at i:50380946 original size:17 final size:17
Alignment explanation
Indices: 50380924--50380956 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50380914 ATCTGTTGTT
*
50380924 TTAATTTTTTTATATTA
1 TTAATTTTATTATATTA
50380941 TTAATTTTATTATATT
1 TTAATTTTATTATATT
50380957 GTATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAATTTTATTATATTA
Found at i:50387443 original size:21 final size:21
Alignment explanation
Indices: 50387418--50387463 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
50387408 CTCATAGCTG
* * * *
50387418 ATTTAGATTTAAACTTTGGAA
1 ATTTAGAGTCAAAATTTGAAA
50387439 ATTTAGAGTCAAAATTTGAAA
1 ATTTAGAGTCAAAATTTGAAA
50387460 ATTT
1 ATTT
50387464 TAAGTTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (21 bp):
ATTTAGAGTCAAAATTTGAAA
Found at i:50397265 original size:79 final size:79
Alignment explanation
Indices: 50397154--50397376 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
50397144 GCTCCTCGTT
* * *
50397154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
50397218 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
50397234 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50397297 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
50397312 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
50397374 GGA
63 GGA
50397377 CATCATCCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 57 0.45
80 23 0.18
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:50397271 original size:39 final size:40
Alignment explanation
Indices: 50397154--50397376 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
50397144 GCTCCTCGTT
* *
50397154 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
50397194 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
50397234 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
50397273 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
50397312 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
50397353 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50397377 CATCATCCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:50398473 original size:14 final size:14
Alignment explanation
Indices: 50398454--50398480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50398444 AGGATGAGCA
50398454 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
50398468 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
50398481 CTAGTTTCGG
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:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:50398757 original size:199 final size:201
Alignment explanation
Indices: 50398385--50398785 Score: 761
Period size: 199 Copynumber: 2.0 Consensus size: 201
50398375 TGCATGGCCG
50398385 AACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATG
1 AACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATG
50398450 AGCATTTTTTTTTCTTTGTTTTTTTTTCTTTCTAGTTTCGGCTAAATGAAGATGAGAAAGGATGA
66 AGCATTTTTTTTTCTTTG-TTTTTTTTCTTTCTAGTTTCGGCTAAATGAAGATGAGAAAGGATGA
*
50398515 ACAAAAAGTTTCTCCTTTCTTTTCTTTAGCTCACGGTAATGGGGGGGG-AACAACTACACACATT
130 ACAAAAAGTTTCTCCTTTCTTTTCTTTAGCTCACGGCAATGGGGGGGGAAACAACTACACACATT
50398579 TTTTTTT
195 TTTTTTT
50398586 AACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATG
1 AACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATG
50398651 AGCATTTTTTTTTCTTTG-TTTTTTTCTTTCTAGTTTCGGCTAAATGAAGATGAGAAAGGATGAA
66 AGCATTTTTTTTTCTTTGTTTTTTTTCTTTCTAGTTTCGGCTAAATGAAGATGAGAAAGGATGAA
*
50398715 CAAAAATTTTCTCCTTTCTTTTCTTTAGCTCACGGCAATGGGGGGGGAAACAACTACACACATTT
131 CAAAAAGTTTCTCCTTTCTTTTCTTTAGCTCACGGCAATGGGGGGGGAAACAACTACACACATTT
50398780 TTTTTT
196 TTTTTT
50398786 GTATTCATCA
Statistics
Matches: 197, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
199 91 0.46
200 23 0.12
201 83 0.42
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (201 bp):
AACCTCTTCAACCTTTCTTCTTCCTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATG
AGCATTTTTTTTTCTTTGTTTTTTTTCTTTCTAGTTTCGGCTAAATGAAGATGAGAAAGGATGAA
CAAAAAGTTTCTCCTTTCTTTTCTTTAGCTCACGGCAATGGGGGGGGAAACAACTACACACATTT
TTTTTT
Found at i:50409861 original size:133 final size:133
Alignment explanation
Indices: 50409617--50409914 Score: 429
Period size: 133 Copynumber: 2.2 Consensus size: 133
50409607 CTGATTCTAC
* * * *
50409617 AGATCTTGTC-CCTCTGAAGTTGCAGCGGAGCAGATCGAAGACGGTGAATCTAGTCTTCCTGAAG
1 AGATCTTGTCTCCT-TGAAGTTGCAGTGGAGCAGATCAAAAACGGTGAATCTAGGCTTCCTGAAG
* * * *
50409681 TCGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
65 TCACAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAATTGTAGTGGAGTAGGCCGAAGA
50409746 TTGT
130 TTGT
* * * *
50409750 AGATCTTGCCTCCTTGAAGTTGCAGTGGAGC-GAATCAAAAATGGTGAGTCTTGGCTTCCTGAAG
1 AGATCTTGTCTCCTTGAAGTTGCAGTGGAGCAG-ATCAAAAACGGTGAATCTAGGCTTCCTGAAG
* *
50409814 TTACAGTGAAGCAGATTTAAGCCACCACCCTATCTCCTTAAAATTGTAGTGGAGTAGGCCGAAGA
65 TCACAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAATTGTAGTGGAGTAGGCCGAAGA
50409879 TTGT
130 TTGT
*
50409883 AGATCTTGTCTCCATGAAGTTGCAGTGGAGCA
1 AGATCTTGTCTCCTTGAAGTTGCAGTGGAGCA
50409915 TATCGAAGTC
Statistics
Matches: 146, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
132 1 0.01
133 142 0.97
134 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (133 bp):
AGATCTTGTCTCCTTGAAGTTGCAGTGGAGCAGATCAAAAACGGTGAATCTAGGCTTCCTGAAGT
CACAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAATTGTAGTGGAGTAGGCCGAAGAT
TGT
Found at i:50409979 original size:133 final size:133
Alignment explanation
Indices: 50409666--50409985 Score: 308
Period size: 133 Copynumber: 2.4 Consensus size: 133
50409656 GACGGTGAAT
* ** * * * *
50409666 CTAGTCTTCCTGAAGTCGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGT
1 CTAG-CTTCCTAAAGTTACAGTGAAGCAGATTGAAGCAACAATCCTATCTCCCTAAAATTGTAGT
* * ***
50409731 GGAGTAGGCTGAAGATTGTAGATCTTGCCTCCTTGAAGTTGCAGTGGAGCGAATCAAAAATGGTG
65 GGAGTAGGCCGAAGATTGTAGATCTTGCCTCCATGAAGTTGCAGTGGAGCGAATCAAAAATGCAC
*
50409796 AGTC
130 AATC
* * * * * * * *
50409800 TTGGCTTCCTGAAGTTACAGTGAAGCAGATTTAAGCCACCACCCTATCTCCTTAAAATTGTAGTG
1 CTAGCTTCCTAAAGTTACAGTGAAGCAGATTGAAGCAACAATCCTATCTCCCTAAAATTGTAGTG
* * *
50409865 GAGTAGGCCGAAGATTGTAGATCTTGTCTCCATGAAGTTGCAGTGGAGC-ATATC-GAAGT-CAC
66 GAGTAGGCCGAAGATTGTAGATCTTGCCTCCATGAAGTTGCAGTGGAGCGA-ATCAAAAATGCAC
50409927 AATCC
130 AAT-C
* * *
50409932 CTATC-TCTCTAAAGTTACAGTTG-AGCAGATTGGAGCAACAATTCCTATATCCCT
1 CTAGCTTC-CTAAAGTTACAG-TGAAGCAGATTGAAGCAACAA-TCCTATCTCCCT
50409986 GAAGATGCAG
Statistics
Matches: 154, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
131 4 0.03
132 32 0.21
133 116 0.75
134 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (133 bp):
CTAGCTTCCTAAAGTTACAGTGAAGCAGATTGAAGCAACAATCCTATCTCCCTAAAATTGTAGTG
GAGTAGGCCGAAGATTGTAGATCTTGCCTCCATGAAGTTGCAGTGGAGCGAATCAAAAATGCACA
ATC
Found at i:50412073 original size:23 final size:25
Alignment explanation
Indices: 50412024--50412073 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
50412014 TAATTTAAAA
* *
50412024 ATTATTATTTTTGAATGTTTCTTTAT
1 ATTATTACTTTTG-ATGTTTCTATAT
50412050 ATTATTACTTTTG-TGTTT-TATAT
1 ATTATTACTTTTGATGTTTCTATAT
50412073 A
1 A
50412074 GTATCTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 5 0.23
24 5 0.23
26 12 0.55
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (25 bp):
ATTATTACTTTTGATGTTTCTATAT
Found at i:50412960 original size:131 final size:130
Alignment explanation
Indices: 50412781--50413247 Score: 462
Period size: 131 Copynumber: 3.6 Consensus size: 130
50412771 TTACTCATTT
* * *
50412781 AAAATTTCTTTAAAATGAAGGCAATGCTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGC
1 AAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGC
* **
50412846 TGGATTGCGATTTCTCGTTTGTTCAAAAAAATCGAATATTCCTTTGGGATTACACTCATATTTTT
66 TGGATTGCGATTTCTCGTTTGTTCAAAAAAATCGAATATTCCTTTGGGATTTCACTCAT-GCTTT
50412911 A
130 A
* * * * *
50412912 AAAAATTCTTTAAAACGAATGCAATACTCGGTGTTTGGAAATTTGGGAATCGTGCCCTATCGTGC
1 AAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGC
* * *
50412977 TGGATTGCGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGGTTTTTACTCATGCTTTA
66 TGGATTGCGATTTCTCGTTTGTTCAAAAAAATCGAATATTCCTTTGGGATTTCACTCATGCTTTA
* ** * * * ** *
50413042 AAAAACTCTCCAAAACGTAGGTAATGTTCGATGTTTGGCAATTCAGGGAATTATGCCCTATTGTG
1 AAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATT-AGGGAATCGTGCCCTATCGTG
* * * * * * * *
50413107 CTGGGTTGCAATCTC-CTATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCATG-TT
65 CTGGATTGCGATTTCTC-GTTTGTTCAAAAAAATCGAATATTCCTTTGGGATTTCACTCATGCTT
50413170 CT-
129 -TA
* * * * * * * *
50413172 CAAAATTC--TAAAA-TAAGGCAATG-TCCGATGTCTAGAAATTCAAGGAGTCGTGCCCTATTGT
1 AAAAATTCTTTAAAACGAAGGCAATGCT-CGATGTTTGGCAATT-AGGGAATCGTGCCCTATCGT
* *
50413233 GCTGGGTTTCGATTT
64 GCTGGATTGCGATTT
50413248 TCTTGTTGGA
Statistics
Matches: 279, Mismatches: 53, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
126 1 0.00
127 48 0.17
128 4 0.01
130 46 0.16
131 180 0.65
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGGCAATGCTCGATGTTTGGCAATTAGGGAATCGTGCCCTATCGTGC
TGGATTGCGATTTCTCGTTTGTTCAAAAAAATCGAATATTCCTTTGGGATTTCACTCATGCTTTA
Found at i:50424767 original size:19 final size:20
Alignment explanation
Indices: 50424743--50424785 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
50424733 ACCCGAATCA
*
50424743 ATCAAAGCAATAACTCTAG-
1 ATCAAACCAATAACTCTAGT
50424762 ATCAAACCAATAACTCTAGT
1 ATCAAACCAATAACTCTAGT
50424782 ATCA
1 ATCA
50424786 TGGAGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (20 bp):
ATCAAACCAATAACTCTAGT
Found at i:50427477 original size:16 final size:16
Alignment explanation
Indices: 50427458--50427488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50427448 CTTCTTCACT
50427458 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
50427474 TACTTACTTACTTAA
1 TACTCACTTACTTAA
50427489 TCAAATTTAT
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:50427494 original size:20 final size:20
Alignment explanation
Indices: 50427455--50427494 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50427445 AAACTTCTTC
* *
50427455 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
50427475 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
50427495 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:50427869 original size:55 final size:53
Alignment explanation
Indices: 50427748--50427934 Score: 175
Period size: 55 Copynumber: 3.5 Consensus size: 53
50427738 TGCCATGTCC
50427748 GACATGGTCTTACATG-GTATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
1 GACATGGTCTTACATGAG-ATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
* * * * *
50427801 GGCATGGTCTTACATGAGA-CCTTTGCCTTATAGAAACTTATCAATTCCATGGCTT
1 GACATGGTCTTACATGAGATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCCTT
* * * *
50427856 GACATGGCCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTGCTATGCCTT
1 GACATGGTCTTACATGAGATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTT
* *
50427911 GGCATTGTCTTACATG-GTATCCTT
1 GACATGGTCTTACATGAG-ATCCTT
50427935 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 29 0.26
54 9 0.08
55 68 0.62
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
GACATGGTCTTACATGAGATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
Found at i:50429370 original size:48 final size:48
Alignment explanation
Indices: 50429318--50429450 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
50429308 CTCGTACACT
* ** **
50429318 AAGTGCTCATATCATGGCCCGAAGCCAACTCAATGTATTTCACACTTG
1 AAGTGCTCATATCATGGCCCGAAGCCAAATCAATGTAGCTCACACCCG
* * * ** *
50429366 AAGTGCTAATATCATGGCCCAAAACCAAATCAATAAAGCTCGCACCCG
1 AAGTGCTCATATCATGGCCCGAAGCCAAATCAATGTAGCTCACACCCG
*
50429414 AAGTG-TCGATATCATGGCCCGAAGCCAAATTAATGTA
1 AAGTGCTC-ATATCATGGCCCGAAGCCAAATCAATGTA
50429451 AGTCGCACTA
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (48 bp):
AAGTGCTCATATCATGGCCCGAAGCCAAATCAATGTAGCTCACACCCG
Found at i:50435830 original size:25 final size:25
Alignment explanation
Indices: 50435802--50435851 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
50435792 GCTTATCATC
* *
50435802 ATTCAGGTAGGAGGAGCTTACCGTT
1 ATTCAGCTAGAAGGAGCTTACCGTT
*
50435827 ATTCAGCTCGAAGGAGCTTACCGTT
1 ATTCAGCTAGAAGGAGCTTACCGTT
50435852 TATAGCTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (25 bp):
ATTCAGCTAGAAGGAGCTTACCGTT
Found at i:50440036 original size:40 final size:39
Alignment explanation
Indices: 50439999--50440182 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
50439989 GCTACTCGTT
*
50439999 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGTTATAGTAACTCGCA
*
50440039 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
50440079 CCAATGCCTTCGGGCTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
50440118 CAAATGCCTTCGGATCTTAGTCCGGTTATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
50440159 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
50440183 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
39 34 0.28
40 71 0.59
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:50440124 original size:39 final size:40
Alignment explanation
Indices: 50440027--50440130 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
50440017 AGCCCGGTTA
* *
50440027 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
* *
50440067 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
50440106 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
50440131 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
Found at i:50440167 original size:79 final size:80
Alignment explanation
Indices: 50440027--50440180 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
50440017 AGCCCGGTTA
* *
50440027 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACCAAAGCCTTCGG
50440092 G-CTTAGCCCAGAAT
66 GACTTAGCCCAGAAT
** * *
50440106 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG-TTATGGTCACTTAGCA-CAAAGCCTT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT-TAGTAAC-TAGCACCAAAGCCTT
50440168 CGGGACTTAGCCC
63 CGGGACTTAGCCC
50440181 GGACATCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.08
79 48 0.74
80 12 0.18
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCAGAAT
Found at i:50441588 original size:56 final size:56
Alignment explanation
Indices: 50441521--50441640 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
50441511 TATTAGTTTA
50441521 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
50441577 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
50441633 TTGCCCAT
1 TTGCCCAT
50441641 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:50441591 original size:211 final size:211
Alignment explanation
Indices: 50441222--50441605 Score: 759
Period size: 211 Copynumber: 1.8 Consensus size: 211
50441212 ACATGAGAGC
50441222 TTTTCTTTTCTTTTTTTTTGGTCATGCATGAGAATGATGGACACATTTTTTTCTCTTTGTTTTCT
1 TTTTCTTTTCTTTTTTTTTGGTCATGCATGAGAATGATGGACACATTTTTTTCTCTTTGTTTTCT
50441287 TCCTTCAATTTCTTATTAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
66 TCCTTCAATTTCTTATTAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
50441352 TTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCACTATTCGGCCAAGAACAACATG
131 TTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCACTATTCGGCCAAGAACAACATG
50441417 AGAGCTTTTCTCTTCT
196 AGAGCTTTTCTCTTCT
*
50441433 TTTTTTTTTCTTTTTTTTTGGTCATGCATGAGAATGATGGACACATTTTTTTCTCTTTGTTTTCT
1 TTTTCTTTTCTTTTTTTTTGGTCATGCATGAGAATGATGGACACATTTTTTTCTCTTTGTTTTCT
50441498 TCCTTCAATTTCTTATTAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
66 TCCTTCAATTTCTTATTAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
50441563 TTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCA
131 TTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCA
50441606 TTAACACAAC
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
211 172 1.00
ACGTcount: A:0.19, C:0.20, G:0.10, T:0.51
Consensus pattern (211 bp):
TTTTCTTTTCTTTTTTTTTGGTCATGCATGAGAATGATGGACACATTTTTTTCTCTTTGTTTTCT
TCCTTCAATTTCTTATTAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
TTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCACTATTCGGCCAAGAACAACATG
AGAGCTTTTCTCTTCT
Found at i:50449641 original size:43 final size:42
Alignment explanation
Indices: 50449578--50449700 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
50449568 AGCTTGTACA
* * * *
50449578 ATGCCATATCCCAGATATGGTCTTACATGTCAAT-ACATTTCG
1 ATGCCATGTCCCAGACATGGTCTTACACGT-AATCACACTTCG
* *
50449620 ATGCCACTGTCCCAGACATGGTCTTACACGTTATCTCACTTCG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAATCACACTTCG
* *
50449663 ATGCCAATGTCTCAGACATGGTCTTACACGAAATCACA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACA
50449701 TCTCAGAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 8 0.12
43 59 0.87
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAATCACACTTCG
Found at i:50461564 original size:69 final size:70
Alignment explanation
Indices: 50461435--50461574 Score: 210
Period size: 69 Copynumber: 2.0 Consensus size: 70
50461425 ACATATAAAT
* * *
50461435 GTTATATGTTTTATATGAAATTCAAGAGAAAGAAAAGAAATGAGGGGATATAATTGAAGAAAAAG
1 GTTATATGTTTTATATGAAATTCAAGAGAAAGAAAAGAAATGAGAGGACATAATTAAAGAAAAAG
*
50461500 GGAAA
66 GCAAA
* * *
50461505 GTTATATGTTTTATATGAAATTGAAGA-AAGGAAAAGAAATGAGAGGACCTAATTAAAGAAAAAG
1 GTTATATGTTTTATATGAAATTCAAGAGAAAGAAAAGAAATGAGAGGACATAATTAAAGAAAAAG
50461569 GCAAA
66 GCAAA
50461574 G
1 G
50461575 AGAAGGCTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 37 0.59
70 26 0.41
ACGTcount: A:0.50, C:0.03, G:0.24, T:0.24
Consensus pattern (70 bp):
GTTATATGTTTTATATGAAATTCAAGAGAAAGAAAAGAAATGAGAGGACATAATTAAAGAAAAAG
GCAAA
Found at i:50462109 original size:22 final size:22
Alignment explanation
Indices: 50462052--50462116 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
50462042 CTCCGATTAT
* *
50462052 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
* **
50462074 TAACACATCCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
50462096 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
50462117 TCAATAGGGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:50464540 original size:80 final size:80
Alignment explanation
Indices: 50464398--50464643 Score: 298
Period size: 80 Copynumber: 3.1 Consensus size: 80
50464388 AATTATTGTA
* *
50464398 TGAATGCACATACGTGCCCC-AGTTTGTACTTCGGTACCCCTGA-TGTCACATACGTGCTCCTAT
1 TGAATGCACATACGTGCCCCTA-TTTGTACTTCGGTACCCCTGATTG-CACATATGTGCCCCTAT
*
50464461 TTGTACTTTGATACCCC
64 TTGTACTTCGATACCCC
* * * * **
50464478 TAAATGCACATTCGTGCCCCTATTTGTATTTTGGTACTGCTGATTGCACATATGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTT
*
50464543 GTACTTCAATACCCC
66 GTACTTCGATACCCC
* * * * * ** *
50464558 TGAATTCACATACGTGCCCCTTTTTGTACTTCAGTACCCCTGATTGTACATTTGTGCCTATGTTT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTT
50464623 GTACTTCGATACCCC
66 GTACTTCGATACCCC
50464638 TGAATG
1 TGAATG
50464644 TACTCAATAC
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
80 135 0.98
81 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTT
GTACTTCGATACCCC
Found at i:50464604 original size:20 final size:20
Alignment explanation
Indices: 50464581--50464659 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
50464571 GTGCCCCTTT
50464581 TTGTACTTCAGTACCCCTGA
1 TTGTACTTCAGTACCCCTGA
* * ** *
50464601 TTGTACATT-TGTGCCTATGT
1 TTGTAC-TTCAGTACCCCTGA
50464621 TTGTACTTC-GATACCCCTGA
1 TTGTACTTCAG-TACCCCTGA
* *
50464641 ATGTAC-TCAATACCCCTGA
1 TTGTACTTCAGTACCCCTGA
50464660 ATGCACTTAC
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
19 14 0.32
20 28 0.64
21 2 0.05
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTACTTCAGTACCCCTGA
Found at i:50464624 original size:120 final size:120
Alignment explanation
Indices: 50464402--50464625 Score: 283
Period size: 120 Copynumber: 1.9 Consensus size: 120
50464392 ATTGTATGAA
** *
50464402 TGCACATACGTGCCCCAGTTTGTACTTCGGTACCCCTGATGTCACATACGTGCTCCTATTTGTAC
1 TGCACATACGTGCCCCAGTTTGTACTTCAATACCCCTGATGTCACATACGTGCCCCTATTTGTAC
* *
50464467 TTTGATACCCCTAAATGCACATTCGTGCCCCTATTTGTATTTTGGTACTGCTGAT
66 TTAGATACCCCTAAATGCACATTCGTGCCCATATTTGTATTTTGGTACTGCTGAT
* *
50464522 TGCACATATGTGCCCCTA-TTTGTACTTCAATACCCCTGAAT-TCACATACGTGCCCCTTTTTGT
1 TGCACATACGTGCCCC-AGTTTGTACTTCAATACCCCTG-ATGTCACATACGTGCCCCTATTTGT
* * * * * *
50464585 ACTTCAG-TACCCCTGATTGTACATTTGTGCCTATGTTTGTA
64 ACTT-AGATACCCCTAAATGCACATTCGTGCCCATATTTGTA
50464626 CTTCGATACC
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
120 84 0.95
121 4 0.05
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (120 bp):
TGCACATACGTGCCCCAGTTTGTACTTCAATACCCCTGATGTCACATACGTGCCCCTATTTGTAC
TTAGATACCCCTAAATGCACATTCGTGCCCATATTTGTATTTTGGTACTGCTGAT
Found at i:50464646 original size:40 final size:40
Alignment explanation
Indices: 50464398--50464646 Score: 227
Period size: 40 Copynumber: 6.2 Consensus size: 40
50464388 AATTATTGTA
* *
50464398 TGAATGCACATACGTGCCCC-AGTTTGTACTTCGGTACCCC
1 TGAATGTACATACGTGCCCCTA-TTTGTACTTCGATACCCC
* *
50464438 TG-ATGTCACATACGTGCTCCTATTTGTACTTTGATACCCC
1 TGAATGT-ACATACGTGCCCCTATTTGTACTTCGATACCCC
* * * * * * **
50464478 TAAATGCACATTCGTGCCCCTATTTGTATTTTGGTACTGC
1 TGAATGTACATACGTGCCCCTATTTGTACTTCGATACCCC
* * * *
50464518 TGATTGCACATATGTGCCCCTATTTGTACTTCAATACCCC
1 TGAATGTACATACGTGCCCCTATTTGTACTTCGATACCCC
*
50464558 TGAAT-TCACATACGTGCCCCTTTTTGTACTTC-AGTACCCC
1 TGAATGT-ACATACGTGCCCCTATTTGTACTTCGA-TACCCC
* ** ** *
50464598 TGATTGTACATTTGTGCCTATGTTTGTACTTCGATACCCC
1 TGAATGTACATACGTGCCCCTATTTGTACTTCGATACCCC
50464638 TGAATGTAC
1 TGAATGTAC
50464647 TCAATACCCC
Statistics
Matches: 169, Mismatches: 33, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
39 4 0.02
40 159 0.94
41 6 0.04
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (40 bp):
TGAATGTACATACGTGCCCCTATTTGTACTTCGATACCCC
Found at i:50472071 original size:16 final size:16
Alignment explanation
Indices: 50472050--50472118 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
50472040 TTTGGTTCGC
50472050 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50472066 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50472082 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
50472099 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50472115 TGTA
1 TGTA
50472119 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50472096 original size:33 final size:32
Alignment explanation
Indices: 50472050--50472118 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
50472040 TTTGGTTCGC
50472050 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
50472082 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
50472115 TGTA
1 TGTA
50472119 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:50472183 original size:44 final size:45
Alignment explanation
Indices: 50472099--50472189 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
50472089 GGATTAGAGG
* * *
50472099 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
50472144 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
50472188 TG
1 TG
50472190 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:50472375 original size:18 final size:17
Alignment explanation
Indices: 50472354--50472388 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50472344 TTATTATTAA
*
50472354 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50472372 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50472389 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50476682 original size:8 final size:9
Alignment explanation
Indices: 50476662--50476696 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
50476652 ATATTACAAC
50476662 AAAAATTTA
1 AAAAATTTA
50476671 AAAAATTTA
1 AAAAATTTA
50476680 AAAAATTT-
1 AAAAATTTA
50476688 AAAAATTTA
1 AAAAATTTA
50476697 GAAGAGTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTTA
Found at i:50476685 original size:18 final size:17
Alignment explanation
Indices: 50476662--50476696 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
50476652 ATATTACAAC
50476662 AAAAATTTAAAAAATTTA
1 AAAAATTT-AAAAATTTA
50476680 AAAAATTTAAAAATTTA
1 AAAAATTTAAAAATTTA
50476697 GAAGAGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAAATTTA
Found at i:50482910 original size:20 final size:20
Alignment explanation
Indices: 50482887--50482929 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50482877 AAAAATTAAA
50482887 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
** *
50482907 AAAATTTTAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
50482927 AAA
1 AAA
50482930 GTTCAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTT
Found at i:50482956 original size:20 final size:19
Alignment explanation
Indices: 50482893--50483009 Score: 70
Period size: 19 Copynumber: 6.4 Consensus size: 19
50482883 TAAAAAAAAA
50482893 TCAAAATAATTTTTAAAATT
1 TCAAAATAA-TTTTAAAATT
* * *
50482913 TTAAAATAATTTTTAAAGT
1 TCAAAATAATTTTAAAATT
50482932 TCAAAAT-ATTTATAAGAATT
1 TCAAAATAATTT-TAA-AATT
50482952 TC---A-AATTTT-AAATT
1 TCAAAATAATTTTAAAATT
* *
50482966 T-AAAA-AATTATAAAAAT
1 TCAAAATAATTTTAAAATT
* *
50482983 TCTAAAATAAATATAAAATT
1 TC-AAAATAATTTTAAAATT
*
50483003 TTAAAAT
1 TCAAAAT
50483010 TTTTCTAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 7 0.09
17 10 0.13
18 4 0.05
19 25 0.33
20 24 0.32
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (19 bp):
TCAAAATAATTTTAAAATT
Found at i:50484096 original size:15 final size:15
Alignment explanation
Indices: 50484076--50484105 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50484066 ATCAATTTAA
*
50484076 TTATTTTTAAATTTT
1 TTATTTTAAAATTTT
50484091 TTATTTTAAAATTTT
1 TTATTTTAAAATTTT
50484106 AATCTAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTAAAATTTT
Found at i:50485924 original size:28 final size:28
Alignment explanation
Indices: 50485884--50485937 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
50485874 TTTAGTAAAT
*
50485884 GTTTCACCTGTCAACATATGAAGAGCAA
1 GTTTCAACTGTCAACATATGAAGAGCAA
50485912 GTTTCAACTGTCAACATATGAAGAGC
1 GTTTCAACTGTCAACATATGAAGAGC
50485938 TTAGGGCCTT
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:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (28 bp):
GTTTCAACTGTCAACATATGAAGAGCAA
Found at i:50486492 original size:31 final size:31
Alignment explanation
Indices: 50486457--50486515 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
50486447 AGGCATAAGC
* *
50486457 TAAATGTTGAGAGCTTATTTGGGTACAATTT
1 TAAATGTTGAGAACTTATTTGAGTACAATTT
50486488 TAAATGTTGAGAACTTATTTGAGTACAA
1 TAAATGTTGAGAACTTATTTGAGTACAA
50486516 GATAAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (31 bp):
TAAATGTTGAGAACTTATTTGAGTACAATTT
Found at i:50492115 original size:116 final size:121
Alignment explanation
Indices: 50491972--50492206 Score: 329
Period size: 126 Copynumber: 1.9 Consensus size: 121
50491962 TAAATATAAA
*
50491972 ATATTTTATATTAAATTAATTTAATATTTTATAATAA-ATTAT-A-TTAAAATATTTTA-TTTTA
1 ATATTTTATATCAAATTAATTTAATATTTTATAATAATATTATAATTTAAAATATTTTATTTTTA
*
50492033 TATTATT-TGAAATTTGGAAATAATATTTTATATTAAATTATATTAAAATATTTAAC
66 TATT-TTCTAAAATTTGGAAATAATATTTTATATTAAATTATATTAAAATATTTAAC
* *
50492089 ATATTTTATA-CAAATTAATTTTATATTTTATATTAAGTTATTATAAAAGATTTAAAATATTTTA
1 ATATTTTATATCAAATTAATTTAATATTTTATAATAA--TATTAT---A-ATTTAAAATATTTTA
50492153 TTTTTATATTTTCTAAAATTTGGAAATAATATTTTATATTAAATTATATTAAAA
60 TTTTTATATTTTCTAAAATTTGGAAATAATATTTTATATTAAATTATATTAAAA
50492207 GTTTTTTTTA
Statistics
Matches: 103, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
116 23 0.22
117 10 0.10
119 5 0.05
124 1 0.01
125 15 0.15
126 49 0.48
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (121 bp):
ATATTTTATATCAAATTAATTTAATATTTTATAATAATATTATAATTTAAAATATTTTATTTTTA
TATTTTCTAAAATTTGGAAATAATATTTTATATTAAATTATATTAAAATATTTAAC
Found at i:50500608 original size:108 final size:108
Alignment explanation
Indices: 50500484--50500701 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
50500474 TTACATAATG
50500484 CATGACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAAAACA
1 CATGACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAAAACA
50500549 GACTAAAATAACTAAAAATTAATGAATCAAAGTCCTTATTTTC
66 GACTAAAATAACTAAAAATTAATGAATCAAAGTCCTTATTTTC
50500592 CATGACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAAAACA
1 CATGACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAAAACA
50500657 GACTAAAATAACTAAAAATTAATGAATCAAAGTCCTTATTTTC
66 GACTAAAATAACTAAAAATTAATGAATCAAAGTCCTTATTTTC
50500700 CA
1 CA
50500702 GCAGCCAAAC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.29
Consensus pattern (108 bp):
CATGACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAAAACA
GACTAAAATAACTAAAAATTAATGAATCAAAGTCCTTATTTTC
Found at i:50502293 original size:19 final size:18
Alignment explanation
Indices: 50502257--50502296 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50502247 TTTCCACTCG
*
50502257 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
50502275 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
50502294 TTT
1 TTT
50502297 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:50503373 original size:13 final size:14
Alignment explanation
Indices: 50503355--50503389 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
50503345 AAAACTAGCT
50503355 TTTTTTTTCACG-A
1 TTTTTTTTCACGAA
50503368 TTTTTTTTCACGAA
1 TTTTTTTTCACGAA
50503382 TTTTTTTT
1 TTTTTTTT
50503390 TCAACTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTTTTTTCACGAA
Found at i:50503374 original size:15 final size:14
Alignment explanation
Indices: 50503354--50503392 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
50503344 CAAAACTAGC
50503354 TTTTTTTTTCACGA
1 TTTTTTTTTCACGA
50503368 -TTTTTTTTCACGAA
1 TTTTTTTTTCACG-A
50503382 TTTTTTTTTCA
1 TTTTTTTTTCA
50503393 ACTTGATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.52
14 1 0.04
15 10 0.43
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (14 bp):
TTTTTTTTTCACGA
Found at i:50504885 original size:98 final size:98
Alignment explanation
Indices: 50504774--50504969 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
50504764 ACATAATGCA
50504774 GACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAACACAAAC
1 GACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAACACAAAC
50504839 TAAAATAACTAAAAATTAATGAATCAAAGTCCT
66 TAAAATAACTAAAAATTAATGAATCAAAGTCCT
50504872 GACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAACACAAAC
1 GACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAACACAAAC
50504937 TAAAATAACTAAAAATTAATGAATCAAAGTCCT
66 TAAAATAACTAAAAATTAATGAATCAAAGTCCT
50504970 TATTTTCCAG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (98 bp):
GACTTTATTAAATGCAAAACACATATTAATGATGTGCAAACTATGACATAATTAAAAACACAAAC
TAAAATAACTAAAAATTAATGAATCAAAGTCCT
Found at i:50524281 original size:37 final size:38
Alignment explanation
Indices: 50524224--50524307 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
50524214 CACAGAGCAT
* * **
50524224 GAATATCACTGGCACAAAGCCTGCTAGACACGGAGCCC
1 GAATATCACTGACACAAAGCCTGCTAAACACAAAGCCC
50524262 GAATATCAC-GACACAAAGCCTGCTAAACACAAAGCCC
1 GAATATCACTGACACAAAGCCTGCTAAACACAAAGCCC
*
50524299 AAATATCAC
1 GAATATCAC
50524308 CACGTTTCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 32 0.78
38 9 0.22
ACGTcount: A:0.39, C:0.31, G:0.17, T:0.13
Consensus pattern (38 bp):
GAATATCACTGACACAAAGCCTGCTAAACACAAAGCCC
Found at i:50525776 original size:13 final size:13
Alignment explanation
Indices: 50525758--50525783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50525748 AGGTATAGGG
50525758 TTTTTGCATGATT
1 TTTTTGCATGATT
50525771 TTTTTGCATGATT
1 TTTTTGCATGATT
50525784 CTTGATTTTC
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:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTTTGCATGATT
Found at i:50526311 original size:40 final size:41
Alignment explanation
Indices: 50526250--50526365 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
50526240 AGAAAAATGA
* *
50526250 TGAATTGCACATATGTTCCCCTATTTGTACTTCGATACCC-
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCT
*
50526290 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCT
* * *
50526331 TGAATTACACACACGTGCCCCTGATTAG-ACTTCGA
1 TGAATTGCACATACGTGCCCCT-ATTTGTACTTCGA
50526366 AAATTCTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.55
41 27 0.40
42 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCT
Found at i:50526363 original size:41 final size:40
Alignment explanation
Indices: 50526267--50526365 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 40
50526257 CACATATGTT
* * * *
50526267 CCCCTATTTGTACTTCGATACCCTGAATTGCACATACGTG
1 CCCCTGTTAGTACTTCGATACCCTGAATTACACACACGTG
*
50526307 CCCCTGTTTGTACTTCGATACCCTTGAATTACACACACGTG
1 CCCCTGTTAGTACTTCGATACCC-TGAATTACACACACGTG
50526348 CCCCTGATTAG-ACTTCGA
1 CCCCTG-TTAGTACTTCGA
50526366 AAATTCTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 22 0.42
41 28 0.53
42 3 0.06
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (40 bp):
CCCCTGTTAGTACTTCGATACCCTGAATTACACACACGTG
Found at i:50532601 original size:49 final size:49
Alignment explanation
Indices: 50532541--50532661 Score: 196
Period size: 47 Copynumber: 2.6 Consensus size: 49
50532531 GATAATTGTG
* *
50532541 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
50532588 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
50532635 ATGTGAAAGTGTATATATATGTGATAA
1 ATGTGAAAGTGTATATATATGTGATAA
50532662 TATGGATGGA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
47 50 0.74
48 2 0.03
49 16 0.24
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:50533068 original size:47 final size:46
Alignment explanation
Indices: 50533014--50533563 Score: 676
Period size: 47 Copynumber: 11.6 Consensus size: 46
50533004 TATTTGAATA
* *
50533014 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
50533061 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
50533110 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
50533159 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533208 CCGATGTGATGAATGT-GA-A-GTGATAAGGCCGAATGGCCAATGTGATG
1 --AATGTGA--AATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533255 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533302 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533349 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533396 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
50533443 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
50533490 AATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATG
1 AATGTGAAA-TGTATATATGTGATAAG-GCCGAATGGCCAATGTGATG
* *
50533537 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAA-TGTATATATGTGATAAG
50533564 TCCCGAAGGG
Statistics
Matches: 475, Mismatches: 15, Indels: 25
0.92 0.03 0.05
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 7 0.01
46 3 0.01
47 313 0.66
48 3 0.01
49 133 0.28
50 1 0.00
51 6 0.01
52 2 0.00
53 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (46 bp):
AATGTGAAATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:50540259 original size:27 final size:27
Alignment explanation
Indices: 50540223--50540381 Score: 161
Period size: 27 Copynumber: 6.1 Consensus size: 27
50540213 AAAGGTCAAT
*
50540223 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
50540250 AAATGACCAAAAT-------TAAGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * *
50540270 AAATGATCGAGATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
** *
50540297 AGCTGACCAAGATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
50540324 AAATGACCGAAATATCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
50540351 AGATGACCGAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
50540378 AAAT
1 AAAT
50540382 AACTATTATA
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
20 16 0.15
27 92 0.85
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCCCATAGGGTA
Found at i:50540348 original size:54 final size:54
Alignment explanation
Indices: 50540266--50540381 Score: 180
Period size: 54 Copynumber: 2.1 Consensus size: 54
50540256 CCAAAATTAA
* * *
50540266 GGTAAAATGATCGAGATACCCCCATAGGGTAAGCTGACC-AAGATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAGATGACCGAA-ATACCCCCATAG
*
50540320 GGTAAAATGACCGAAATATCCCCATAGGGTAAGATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCCCATAG
50540374 GGTAAAAT
1 GGTAAAAT
50540382 AACTATTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAGATGACCGAAATACCCCCATAG
Found at i:50540711 original size:28 final size:28
Alignment explanation
Indices: 50540667--50540725 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
50540657 ATTACACTGT
*
50540667 ACTATTATTGTACTGGGCTAAGGCCCAC
1 ACTATTACTGTACTGGGCTAAGGCCCAC
*
50540695 ACTATTACTGTATTGGGCTAAGGCCCAC
1 ACTATTACTGTACTGGGCTAAGGCCCAC
50540723 ACT
1 ACT
50540726 GTATAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
ACTATTACTGTACTGGGCTAAGGCCCAC
Found at i:50540735 original size:33 final size:32
Alignment explanation
Indices: 50540660--50540754 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 32
50540650 TTGCATTATT
* *
50540660 ACACTGTACTATTATTGTACTGGGCTAAGGCCC
1 ACACTGTA-TATTACTGTATTGGGCTAAGGCCC
50540693 ACAC----TATTACTGTATTGGGCTAAGGCCC
1 ACACTGTATATTACTGTATTGGGCTAAGGCCC
* *
50540721 ACACTGTATAATTACTGAATAT-GGCTCAGGCCC
1 ACACTGTAT-ATTACTGTAT-TGGGCTAAGGCCC
50540754 A
1 A
50540755 GACCATTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 26 0.50
32 1 0.02
33 24 0.46
34 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (32 bp):
ACACTGTATATTACTGTATTGGGCTAAGGCCC
Found at i:50547723 original size:50 final size:50
Alignment explanation
Indices: 50547669--50547793 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
50547659 TATCCCAAAT
** * *
50547669 ATGGTCTTACATGGGAGTTCTCATATCGATGCCTATGCCATGTCCAAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCAAGAC
** * * *
50547719 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCAAGAC
50547769 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
50547794 ATCTCAATGA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCAAGAC
Found at i:50549607 original size:26 final size:26
Alignment explanation
Indices: 50549578--50549659 Score: 130
Period size: 26 Copynumber: 3.2 Consensus size: 26
50549568 TCATGCGAAT
* *
50549578 TGTGAAATGAG-TATGCTCACACGAGC
1 TGTGAAATGGGCT-TGCTCACATGAGC
50549604 TGTGAAATGGGCTTGCTCACATGAGC
1 TGTGAAATGGGCTTGCTCACATGAGC
50549630 TGTGAAATGGGCTTGCTCACATGAGC
1 TGTGAAATGGGCTTGCTCACATGAGC
50549656 TGTG
1 TGTG
50549660 GGTCAGAACG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 52 0.98
27 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (26 bp):
TGTGAAATGGGCTTGCTCACATGAGC
Found at i:50555275 original size:21 final size:22
Alignment explanation
Indices: 50555251--50555295 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
50555241 AAAAATATTT
*
50555251 AAAAATA-AATAAATT-TTTAA
1 AAAAATATAAAAAATTGTTTAA
*
50555271 AAAAATATAAAAAATTGTTTTA
1 AAAAATATAAAAAATTGTTTAA
50555293 AAA
1 AAA
50555296 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATATAAAAAATTGTTTAA
Found at i:50555280 original size:22 final size:21
Alignment explanation
Indices: 50555251--50555295 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
50555241 AAAAATATTT
50555251 AAAAATAAATAAATT-TTTAAA
1 AAAAATAAA-AAATTGTTTAAA
*
50555272 AAAATATAAAAAATTGTTTTAA
1 AAAA-ATAAAAAATTGTTTAAA
50555294 AA
1 AA
50555296 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATAAAAAATTGTTTAAA
Found at i:50561412 original size:28 final size:26
Alignment explanation
Indices: 50561381--50561437 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
50561371 TTTAAAATTT
50561381 AATTA-ATAACTCTATTTTACATAAATAA
1 AATTACATAACTCT-TTTTA-A-AAATAA
50561409 AATTAGCATAACTCTTTTTAAAAATAA
1 AATTA-CATAACTCTTTTTAAAAATAA
50561436 AA
1 AA
50561438 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 8 0.30
28 6 0.22
29 5 0.19
30 8 0.30
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
AATTACATAACTCTTTTTAAAAATAA
Found at i:50562399 original size:11 final size:11
Alignment explanation
Indices: 50562383--50562407 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50562373 TACAAAGTTT
50562383 ATTATAATAAA
1 ATTATAATAAA
50562394 ATTATAATAAA
1 ATTATAATAAA
50562405 ATT
1 ATT
50562408 CATTGTGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:50562511 original size:15 final size:15
Alignment explanation
Indices: 50562491--50562520 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50562481 TTCACTGATA
*
50562491 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
50562506 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
50562521 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:50564185 original size:20 final size:19
Alignment explanation
Indices: 50564160--50564209 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
50564150 TACTAGTATT
50564160 TGATTAATTTAATATTAAA
1 TGATTAATTTAATATTAAA
50564179 GTGATT-ATCTTAATATTAAA
1 -TGATTAAT-TTAATATTAAA
50564199 T--TTAATTTAAT
1 TGATTAATTTAAT
50564210 GTTTATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 3 0.11
20 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (19 bp):
TGATTAATTTAATATTAAA
Found at i:50566794 original size:30 final size:29
Alignment explanation
Indices: 50566739--50566843 Score: 174
Period size: 30 Copynumber: 3.6 Consensus size: 29
50566729 GGCTATCGAT
50566739 TATGAAAAGGGATGGTGACGACCATCAAG
1 TATGAAAAGGGATGGTGACGACCATCAAG
50566768 TATGAAAAGGGATGGTGACGGACCATCAAG
1 TATGAAAAGGGATGGTGAC-GACCATCAAG
* *
50566798 TATGAAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAG
50566827 TAATGAAAAGGGATGGT
1 T-ATGAAAAGGGATGGT
50566844 TTCAACCATG
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
29 28 0.39
30 44 0.61
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.19
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAG
Found at i:50566852 original size:30 final size:29
Alignment explanation
Indices: 50566674--50566881 Score: 181
Period size: 29 Copynumber: 7.1 Consensus size: 29
50566664 TATAGGCGAT
* *
50566674 CATCGAATATGAAAAGGGATAGCTT-CAAC
1 CATCGAATATGAAAAGGGAT-GGTTACGAC
* * * *
50566703 TATCG-ATCATGAAAAGGGATAGTTTCGGC
1 CATCGAAT-ATGAAAAGGGATGGTTACGAC
* * *
50566732 TATCGATTATGAAAAGGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTTACGAC
*
50566761 CATC-AAGTATGAAAAGGGATGGTGACGGAC
1 CATCGAA-TATGAAAAGGGATGGTTAC-GAC
*
50566791 CATC-AAGTATGAAAAGGGATGGTGACGAC
1 CATCGAA-TATGAAAAGGGATGGTTACGAC
* * *
50566820 CATCGATTAATGAAAAGGGATGGTTTCAAC
1 CATCGAAT-ATGAAAAGGGATGGTTACGAC
* * *
50566850 CATGGAATATGAAAAGGGACGGTTACAAC
1 CATCGAATATGAAAAGGGATGGTTACGAC
50566879 CAT
1 CAT
50566882 TGTTTAGCAC
Statistics
Matches: 152, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.03
29 92 0.61
30 55 0.36
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTACGAC
Found at i:50566852 original size:59 final size:57
Alignment explanation
Indices: 50566711--50566868 Score: 181
Period size: 59 Copynumber: 2.7 Consensus size: 57
50566701 ACTATCGATC
* * * *
50566711 ATGAAAAGGGATAGTTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAGT
1 ATGAAAAGGGATGGTTTCGACCATC-AATATGAAAAGGGATGGTGACGACCATCAAGT
** * *
50566769 ATGAAAAGGGATGGTGACGGACCATCAAGTATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTTTC-GACCATCAA-TATGAAAAGGGATGGTGACGACCATCAAGT
* *
50566828 AATGAAAAGGGATGGTTTCAACCATGGAATATGAAAAGGGA
1 -ATGAAAAGGGATGGTTTCGACCAT-CAATATGAAAAGGGA
50566869 CGGTTACAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
58 16 0.19
59 50 0.60
60 18 0.21
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.21
Consensus pattern (57 bp):
ATGAAAAGGGATGGTTTCGACCATCAATATGAAAAGGGATGGTGACGACCATCAAGT
Found at i:50566881 original size:59 final size:56
Alignment explanation
Indices: 50566678--50566881 Score: 176
Period size: 59 Copynumber: 3.5 Consensus size: 56
50566668 GGCGATCATC
* * * * * *
50566678 GAATATGAAAAGGGATAGCT-TCAACTATCGATCATGAAAAGGGATAGTTTCGGCTAT
1 GAATATGAAAAGGGAT-GGTGACAACCATCGAT-ATGAAAAGGGATGGTTTCGACCAT
* * * **
50566735 CGATTATGAAAAGGGATGGTGACGACCATCAAGTATGAAAAGGGATGGTGACGGACCAT
1 -GAATATGAAAAGGGATGGTGACAACCATCGA-TATGAAAAGGGATGGTTTC-GACCAT
* * *
50566794 CAAGTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCAACCAT
1 GAA-TATGAAAAGGGATGGTGACAACCATCGA-T-ATGAAAAGGGATGGTTTCGACCAT
* *
50566853 GGAATATGAAAAGGGACGGTTACAACCAT
1 -GAATATGAAAAGGGATGGTGACAACCAT
50566882 TGTTTAGCAC
Statistics
Matches: 118, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.02
58 38 0.32
59 60 0.51
60 18 0.15
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (56 bp):
GAATATGAAAAGGGATGGTGACAACCATCGATATGAAAAGGGATGGTTTCGACCAT
Found at i:50569745 original size:20 final size:19
Alignment explanation
Indices: 50569716--50569766 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
50569706 CAGAAAATGA
*
50569716 TTTCTGGAAAATTACTTAC
1 TTTCTGGAAAATGACTTAC
50569735 TTTCTTGGAAAATGACTTAC
1 TTTC-TGGAAAATGACTTAC
50569755 TTTCCTGGAAAA
1 TTT-CTGGAAAA
50569767 GTTAATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.83
21 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (19 bp):
TTTCTGGAAAATGACTTAC
Found at i:50570203 original size:14 final size:15
Alignment explanation
Indices: 50570180--50570229 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
50570170 GACTTATGAC
*
50570180 ATATTTTAATAT-TT
1 ATATTATAATATATT
50570194 ATATTATAATATATT
1 ATATTATAATATATT
50570209 -TATTATTAATATATTT
1 ATATTA-TAATATA-TT
50570225 ATATT
1 ATATT
50570230 TGTAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 16 0.52
15 9 0.29
16 2 0.06
17 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATTATAATATATT
Found at i:50570222 original size:17 final size:17
Alignment explanation
Indices: 50570188--50570256 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
50570178 ACATATTTTA
50570188 ATATTTA-TATT-ATAAT
1 ATATTTATTATTAAT-AT
50570204 ATATTTATTATTAATAT
1 ATATTTATTATTAATAT
*
50570221 AT-TTATATT-TGTAATAA
1 ATATT-TATTAT-TAATAT
*
50570238 ATATTTATTATTAAAAT
1 ATATTTATTATTAATAT
50570255 AT
1 AT
50570257 TAATATTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
16 10 0.23
17 29 0.66
18 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
ATATTTATTATTAATAT
Found at i:50570247 original size:34 final size:32
Alignment explanation
Indices: 50570187--50570263 Score: 102
Period size: 34 Copynumber: 2.4 Consensus size: 32
50570177 GACATATTTT
50570187 AATATTTATA-TTATAATATATTTATTATTAA
1 AATATTTATATTTATAATATATTTATTATTAA
* *
50570218 TATATTTATATTTGTAATAAATATTTATTATTAA
1 AATATTTATATTTATAAT--ATATTTATTATTAA
*
50570252 AATATTAATATT
1 AATATTTATATT
50570264 GAATATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 9 0.23
32 6 0.15
34 24 0.62
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
AATATTTATATTTATAATATATTTATTATTAA
Found at i:50570263 original size:14 final size:15
Alignment explanation
Indices: 50570187--50570277 Score: 51
Period size: 15 Copynumber: 5.7 Consensus size: 15
50570177 GACATATTTT
50570187 AATATTT-ATATTATA
1 AATATTTAATATTA-A
*
50570202 ATATATTTATTATTAA
1 A-ATATTTAATATTAA
* *
50570218 TATATTTATATTTGTAATA
1 AATATTTA-ATAT-T-A-A
*
50570237 AATATTTATTATTAA
1 AATATTTAATATTAA
50570252 AATA-TTAATATTGAA
1 AATATTTAATATT-AA
* *
50570267 TATTTTTAATA
1 AATATTTAATA
50570278 ATATGTGAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
14 7 0.12
15 17 0.29
16 16 0.28
17 7 0.12
18 3 0.05
19 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
AATATTTAATATTAA
Found at i:50570263 original size:17 final size:16
Alignment explanation
Indices: 50570187--50570263 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 16
50570177 GACATATTTT
50570187 AATATTTATATTA-TAA
1 AATA-TTATATTATTAA
*
50570203 TATATT-TATTATTAA
1 AATATTATATTATTAA
*
50570218 TATATTTATATT-TGTAATA
1 AATA-TTATATTAT-T-A-A
50570237 AATATT-TATTATTAA
1 AATATTATATTATTAA
50570252 AATATTAATATT
1 AATATT-ATATT
50570264 GAATATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
14 5 0.10
15 16 0.32
16 7 0.14
17 14 0.28
18 4 0.08
19 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
AATATTATATTATTAA
Found at i:50570395 original size:25 final size:23
Alignment explanation
Indices: 50570336--50570395 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
50570326 AAAATAAAAT
*
50570336 TAAAATATTAAATAATTTATTAA
1 TAAATTATTAAATAATTTATTAA
* *
50570359 AATAATAAATTAAATTAATTGTATTAA
1 TA-AAT-TATTAAA-TAATT-TATTAA
50570386 TAAATTATTA
1 TAAATTATTA
50570396 TGTGACTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.04
24 2 0.07
25 10 0.36
26 8 0.29
27 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATTATTAAATAATTTATTAA
Found at i:50576165 original size:43 final size:40
Alignment explanation
Indices: 50576099--50576210 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 40
50576089 AGCTCGTACA
* * *
50576099 ATGCCATATCCCGGATATGGTCTTACATGTTAACGCATAT-CG
1 ATGCCATGTCCCAGATATGGTCTTACACG--AA-GCATATACG
* * *
50576141 ATGCCACTGTCCCAGATAGGGTCTTATACGAATCATATACG
1 ATGCCA-TGTCCCAGATATGGTCTTACACGAAGCATATACG
*
50576182 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCC-ATGTCCCAGATATGGTCTTACAC
50576211 ATTTTCTGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
40 5 0.09
41 28 0.48
42 7 0.12
43 18 0.31
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
ATGCCATGTCCCAGATATGGTCTTACACGAAGCATATACG
Found at i:50577992 original size:24 final size:25
Alignment explanation
Indices: 50577947--50577997 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
50577937 ATTTTTGGGA
*
50577947 AAATTAATTTTGATTAAGTAAAATT
1 AAATTAATTTAGATTAAGTAAAATT
*
50577972 AAATTAA-TTAGATTAATTAAAATT
1 AAATTAATTTAGATTAAGTAAAATT
50577996 AA
1 AA
50577998 TATGATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (25 bp):
AAATTAATTTAGATTAAGTAAAATT
Found at i:50578506 original size:13 final size:13
Alignment explanation
Indices: 50578471--50578508 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
50578461 GAGATATTTG
50578471 TAATTTGAAAACT
1 TAATTTGAAAACT
50578484 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
50578498 TAATTTGAAAA
1 TAATTTGAAAA
50578509 TTTGGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:50578790 original size:35 final size:35
Alignment explanation
Indices: 50578746--50578921 Score: 185
Period size: 35 Copynumber: 5.1 Consensus size: 35
50578736 TTCACTTGTC
* * *
50578746 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
* * * *
50578781 TTTTGTTGCAAGGAATCTCTCCTGTTCACAAATCA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
* * * * *
50578816 -TTTCTTGCAGGGAATATTTCCTCTTTACGCATTA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
* *
50578850 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
* * *
50578885 -TTTCTTGCAGGGAATCTCTCCTATTCATACATCA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
50578919 TTT
1 TTT
50578922 CTGGTATTAT
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 56 0.50
35 57 0.50
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACACATCA
Found at i:50578830 original size:34 final size:34
Alignment explanation
Indices: 50578747--50578923 Score: 192
Period size: 34 Copynumber: 5.1 Consensus size: 34
50578737 TCACTTGTCT
* * * *
50578747 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
50578781 TTTTGTTGCAAGGAATCTCTCCTGTTCACAAATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * * * * *
50578816 TTTCTTGCAGGGAATATTTCCTCTTTACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
*
50578850 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* *
50578885 TTTCTTGCAGGGAATCTCTCCTATTCATACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
50578919 TTTCT
1 TTTCT
50578924 GGTATTATTT
Statistics
Matches: 115, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
34 61 0.53
35 54 0.47
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:50578847 original size:69 final size:69
Alignment explanation
Indices: 50578747--50578899 Score: 270
Period size: 69 Copynumber: 2.2 Consensus size: 69
50578737 TCACTTGTCT
*
50578747 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAA
1 TTTCTTGCAGGGAATATTTCCTCTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAA
50578812 ATCA
66 ATCA
* * *
50578816 TTTCTTGCAGGGAATATTTCCTCTTTACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATATTTCCTCTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAA
50578881 ATCA
66 ATCA
50578885 TTTCTTGCAGGGAAT
1 TTTCTTGCAGGGAAT
50578900 CTCTCCTATT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (69 bp):
TTTCTTGCAGGGAATATTTCCTCTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCACAA
ATCA
Found at i:50581776 original size:20 final size:20
Alignment explanation
Indices: 50581746--50581783 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50581736 GAACAAATTG
50581746 TTGATTCTATTTCTTTTTTAT
1 TTGATTCTA-TTCTTTTTTAT
50581767 TTGA-TCTATTCTTTTTT
1 TTGATTCTATTCTTTTTT
50581784 GTATTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.13, C:0.11, G:0.05, T:0.71
Consensus pattern (20 bp):
TTGATTCTATTCTTTTTTAT
Found at i:50581783 original size:21 final size:21
Alignment explanation
Indices: 50581746--50581789 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50581736 GAACAAATTG
*
50581746 TTGATTCTATTTCTTTTTTAT
1 TTGATTCTATTTCTTTTGTAT
*
50581767 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATT-TCTTTTGTAT
50581788 TT
1 TT
50581790 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (21 bp):
TTGATTCTATTTCTTTTGTAT
Found at i:50582780 original size:15 final size:15
Alignment explanation
Indices: 50582760--50582790 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50582750 AGATGTTGTA
50582760 TGTAATTCATCTATT
1 TGTAATTCATCTATT
50582775 TGTAATTCATCTATT
1 TGTAATTCATCTATT
50582790 T
1 T
50582791 CAGTAGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TGTAATTCATCTATT
Found at i:50587147 original size:12 final size:12
Alignment explanation
Indices: 50587102--50587214 Score: 53
Period size: 12 Copynumber: 9.8 Consensus size: 12
50587092 ATTCTAAAAA
*
50587102 TAATA-TTATTT
1 TAATATTTAATT
50587113 TAATAATTTAATAT
1 TAAT-ATTTAAT-T
50587127 TAA-ATTTAATT
1 TAATATTTAATT
* *
50587138 TAATACTTAACT
1 TAATATTTAATT
*
50587150 TAATA-GT-ATT
1 TAATATTTAATT
50587160 T--TA-TTAATT
1 TAATATTTAATT
* *
50587169 TAATATTAAAGT
1 TAATATTTAATT
* *
50587181 GATTATCTTAATAT
1 TAATAT-TTAAT-T
50587195 TAA-ATTTAATT
1 TAATATTTAATT
*
50587206 TAATGTTTA
1 TAATATTTA
50587215 TCTTGTATAT
Statistics
Matches: 76, Mismatches: 15, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 3 0.04
11 15 0.20
12 36 0.47
13 9 0.12
14 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:50597130 original size:19 final size:19
Alignment explanation
Indices: 50597094--50597130 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50597084 TAATTGGGAC
* *
50597094 ATTAATTTAATTTTTTTAA
1 ATTAATTTAATATGTTTAA
50597113 ATTAATTTAATATGTTTA
1 ATTAATTTAATATGTTTA
50597131 TTTTTGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATATGTTTAA
Found at i:50599939 original size:16 final size:14
Alignment explanation
Indices: 50599918--50599957 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
50599908 TGTGAGTGAA
50599918 TATAAATATTATATAT
1 TATAAA-ATTATA-AT
50599934 TATAAAA-TATAAT
1 TATAAAATTATAAT
50599947 TATAAAATTAT
1 TATAAAATTAT
50599958 TTCAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 7 0.30
15 1 0.04
16 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATAAAATTATAAT
Found at i:50600038 original size:16 final size:13
Alignment explanation
Indices: 50600005--50600030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50599995 TTTGTGTTCA
50600005 ATTTTTAAATAAT
1 ATTTTTAAATAAT
50600018 ATTTTTAAATAAT
1 ATTTTTAAATAAT
50600031 TTTATTTTAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTTAAATAAT
Found at i:50605741 original size:100 final size:101
Alignment explanation
Indices: 50605596--50605796 Score: 386
Period size: 100 Copynumber: 2.0 Consensus size: 101
50605586 CTTTTTTTTT
*
50605596 TCTCAGCAGCACAAAATGATTTTTTTTCGCAAAAAGGGGGTATTTATACCCCCCTGAAACGGTGC
1 TCTCAGCAGCACAAAATGATTTTTTTTCGCAAAAAGGGGGTATTTATACCCCCCTGAAACGGCGC
50605661 CGTTTCGGCAAAGGGGGTCCGCGCGTCGACCCGCGA
66 CGTTTCGGCAAAGGGGGTCCGCGCGTCGACCCGCGA
50605697 TCTCAGCAGCACAAAATGA-TTTTTTTCGCAAAAAGGGGGTATTTATACCCCCCTGAAACGGCGC
1 TCTCAGCAGCACAAAATGATTTTTTTTCGCAAAAAGGGGGTATTTATACCCCCCTGAAACGGCGC
50605761 CGTTTCGGCAAAGGGGGTCCGCGCGTCGACCCGCGA
66 CGTTTCGGCAAAGGGGGTCCGCGCGTCGACCCGCGA
50605797 CCCGACCCGC
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 80 0.81
101 19 0.19
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (101 bp):
TCTCAGCAGCACAAAATGATTTTTTTTCGCAAAAAGGGGGTATTTATACCCCCCTGAAACGGCGC
CGTTTCGGCAAAGGGGGTCCGCGCGTCGACCCGCGA
Found at i:50611685 original size:7 final size:6
Alignment explanation
Indices: 50611673--50611749 Score: 61
Period size: 6 Copynumber: 12.7 Consensus size: 6
50611663 CAAAAAAAAA
* * **
50611673 AAAATG AAGAATG AAAATGG AAAATG AAAATT AAGAT- AAAA-- AAAAAA
1 AAAATG AA-AATG AAAAT-G AAAATG AAAATG AAAATG AAAATG AAAATG
50611720 AAAATG AAGAATG AAAATGG AAAATG AAAA
1 AAAATG AA-AATG AAAAT-G AAAATG AAAA
50611750 GAGTAAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
4 4 0.07
5 3 0.05
6 29 0.48
7 24 0.40
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:50611691 original size:13 final size:12
Alignment explanation
Indices: 50611673--50611749 Score: 61
Period size: 13 Copynumber: 6.3 Consensus size: 12
50611663 CAAAAAAAAA
50611673 AAAATGAAGAATG
1 AAAATGAA-AATG
50611686 AAAATGGAAAATG
1 AAAAT-GAAAATG
* *
50611699 AAAATTAAGAT-
1 AAAATGAAAATG
**
50611710 AAAA--AAAAAA
1 AAAATGAAAATG
50611720 AAAATGAAGAATG
1 AAAATGAA-AATG
50611733 AAAATGGAAAATG
1 AAAAT-GAAAATG
50611746 AAAA
1 AAAA
50611750 GAGTAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.06
10 4 0.08
11 4 0.08
12 6 0.12
13 29 0.56
14 6 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:50613101 original size:43 final size:42
Alignment explanation
Indices: 50612969--50613104 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 42
50612959 GACAAAAGAT
50612969 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGC
1 CTTGCCTTCCT-CATTAACAGCGAAGCAGATC-AAAGACAAAGC
* * * * * *
50613012 CTTG-CATCCATCGATT-GCAGTGGAGCTAG-TTAAAGA-AGCAGAC
1 CTTGCCTTCC-TC-ATTAACAGCGAAGC-AGATCAAAGACA-AAG-C
50613055 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGC
1 CTTGCCTTCCT-CATTAACAGCGAAGCAGATCAAAGACAAAGC
50613098 CTTGCCT
1 CTTGCCT
50613105 CCATCGGTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
41 4 0.06
42 16 0.23
43 29 0.41
44 20 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (42 bp):
CTTGCCTTCCTCATTAACAGCGAAGCAGATCAAAGACAAAGC
Found at i:50613169 original size:86 final size:86
Alignment explanation
Indices: 50612981--50613177 Score: 213
Period size: 86 Copynumber: 2.3 Consensus size: 86
50612971 TGCCTTCCTA
*
50612981 CATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGTTAA
1 CATTAACAACGAAGCAGATC-AAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGTTAA
* *
50613045 AGAAGCAGACCTTGCCTTCCTG
65 AGAAGCAGACCTTACCTCCCTG
* * * * *
50613067 CATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCATTGGAGC-AGATTGA
1 CATTAACAACGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAG-TTAA
* * *
50613131 AGCCAG-AGATCTTATCTCCCTG
65 AG-AAGCAGACCTTACCTCCCTG
* *
50613153 AGATT-ACAACGGAGCAGATCAAAGA
1 -CATTAACAACGAAGCAGATCAAAGA
50613178 TAGTAATCCT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
85 5 0.05
86 85 0.89
87 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (86 bp):
CATTAACAACGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGTTAAA
GAAGCAGACCTTACCTCCCTG
Found at i:50616599 original size:3 final size:3
Alignment explanation
Indices: 50616593--50616630 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
50616583 CTCCTCCTCC
*
50616593 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
50616631 CCTAGTTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:50620305 original size:66 final size:66
Alignment explanation
Indices: 50620197--50620326 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
50620187 TGAAGCACTA
*
50620197 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTTAATCGCAGGATCT
1 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTCAATCGCAGGATCT
50620262 C
66 C
* * * * *
50620263 TTGGCTACTTTCTATGATGTTTTTATTAAACTGCAT-AGGATTCCGTCGCCTCAATCGTAGGATC
1 TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGA-GATTCCGTCACCTCAATCGCAGGATC
50620327 ATGCCATTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (66 bp):
TTGGCTACTTTCTATAATGTTTTCACTAAACTGCATGAGATTCCGTCACCTCAATCGCAGGATCT
C
Found at i:50630006 original size:30 final size:30
Alignment explanation
Indices: 50629970--50630090 Score: 95
Period size: 30 Copynumber: 4.1 Consensus size: 30
50629960 ACTAGGTGCA
*
50629970 GGTGATTTTAGTTTCCAGGTACTATGTACC
1 GGTGATTATAGTTTCCAGGTACTATGTACC
* * ** *
50630000 GGTGATTAAAGTTTCCAAGTTTTATGTACT
1 GGTGATTATAGTTTCCAGGTACTATGTACC
* * ** * * * *
50630030 GGTG-TAATAGTTTTCAGGCCCTCTATGCT
1 GGTGATTATAGTTTCCAGGTACTATGTACC
50630059 GGTGA-TATAGTTT-CAGGTACTATGTACC
1 GGTGATTATAGTTTCCAGGTACTATGTACC
50630087 GGTG
1 GGTG
50630091 GTGGATACCA
Statistics
Matches: 67, Mismatches: 23, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
28 13 0.19
29 26 0.39
30 28 0.42
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (30 bp):
GGTGATTATAGTTTCCAGGTACTATGTACC
Found at i:50635855 original size:75 final size:75
Alignment explanation
Indices: 50635719--50635870 Score: 223
Period size: 75 Copynumber: 2.0 Consensus size: 75
50635709 GGGCGACCCA
* * * *
50635719 TGCAACCTTAGCTATCAAATAGTGGAAATGGGCCCACAAGCCCAAGACATTTGCCCGTGTGGGCC
1 TGCAACCTTAGCCATCAAATAGTGAAAATGGGCCCACAAGCCCAAGAAATTTGCCCATGTGGGCC
50635784 TACACGCCCG
66 TACACGCCCG
* * * *
50635794 TGCAACCTTAGCCATCAAATAGTGAAAATGGGCCCATAAGCCCATGAAATTTTCCCATGTGGGCT
1 TGCAACCTTAGCCATCAAATAGTGAAAATGGGCCCACAAGCCCAAGAAATTTGCCCATGTGGGCC
*
50635859 TCCACGCCCG
66 TACACGCCCG
50635869 TG
1 TG
50635871 TAGCCCACAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (75 bp):
TGCAACCTTAGCCATCAAATAGTGAAAATGGGCCCACAAGCCCAAGAAATTTGCCCATGTGGGCC
TACACGCCCG
Found at i:50637822 original size:24 final size:24
Alignment explanation
Indices: 50637795--50637851 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
50637785 CTATTTAAAA
*
50637795 ACTGAAAATGCTATAGATAGTAA-T
1 ACTGAAAATACTATAGATAG-AAGT
* *
50637819 ACTGAGACTACTATAGATAGAATGT
1 ACTGAAAATACTATAGATAGAA-GT
50637844 ACTGAAAA
1 ACTGAAAA
50637852 CACTCAGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 17 0.65
25 7 0.27
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (24 bp):
ACTGAAAATACTATAGATAGAAGT
Found at i:50637901 original size:10 final size:10
Alignment explanation
Indices: 50637881--50637909 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
50637871 TTATATTGTA
50637881 GTAAA-ACTG
1 GTAAACACTG
50637890 GTAAACACTG
1 GTAAACACTG
50637900 GTAAACACTG
1 GTAAACACTG
50637910 TGTTATACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (10 bp):
GTAAACACTG
Found at i:50640535 original size:19 final size:20
Alignment explanation
Indices: 50640496--50640537 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
50640486 CCCTCCCTTG
*
50640496 TAAATAATATACATTATTATA
1 TAAATAATATA-ATTACTATA
50640517 TAAATAATAT-ATTACTATA
1 TAAATAATATAATTACTATA
50640536 TA
1 TA
50640538 TAAATTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAATTACTATA
Found at i:50640537 original size:21 final size:20
Alignment explanation
Indices: 50640496--50640542 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
50640486 CCCTCCCTTG
50640496 TAAATAATATACATTATTATA
1 TAAATAATATA-ATTATTATA
50640517 TAAATAATAT-ATTACTATATA
1 TAAATAATATAATTA-T-TATA
50640538 TAAAT
1 TAAAT
50640543 TGTAACGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 19 0.79
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAATTATTATA
Found at i:50647269 original size:37 final size:37
Alignment explanation
Indices: 50647219--50647297 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50647209 TTATTACGAA
* * *
50647219 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
50647256 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
50647293 GTCTT
1 GTCTT
50647298 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:50647494 original size:47 final size:47
Alignment explanation
Indices: 50647416--50648390 Score: 1835
Period size: 47 Copynumber: 20.7 Consensus size: 47
50647406 CCCTTCGGGA
* * * * * *
50647416 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50647463 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647510 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647557 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647604 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647651 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647745 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647792 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647886 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50647980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648027 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648168 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50648309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50648356 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
50648391 AGAATCCTAA
Statistics
Matches: 914, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
46 1 0.00
47 913 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50650221 original size:13 final size:13
Alignment explanation
Indices: 50650203--50650227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50650193 TACTAAATTT
50650203 TCATGGATTCAAA
1 TCATGGATTCAAA
50650216 TCATGGATTCAA
1 TCATGGATTCAA
50650228 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:50654995 original size:7 final size:7
Alignment explanation
Indices: 50654983--50655049 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 7
50654973 AAGAACCTAG
50654983 TAATATA
1 TAATATA
50654990 TAATATA
1 TAATATA
50654997 T-ATGATA
1 TAAT-ATA
50655004 -AATAGTA
1 TAATA-TA
50655011 TAATATA
1 TAATATA
50655018 TAA-ATAA
1 TAATAT-A
50655025 TAA-ATA
1 TAATATA
50655031 TATATATTA
1 TA-ATA-TA
*
50655040 TTATATA
1 TAATATA
50655047 TAA
1 TAA
50655050 ATAACTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
6 8 0.16
7 31 0.62
8 8 0.16
9 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:50655020 original size:16 final size:15
Alignment explanation
Indices: 50654983--50655052 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 15
50654973 AAGAACCTAG
50654983 TAATATAT-AATATA
1 TAATATATAAATATA
*
50654997 T-AT-GATAAATAGTA
1 TAATATATAAATA-TA
50655011 TAATATATAAATA-A
1 TAATATATAAATATA
*
50655025 TAA-ATATATATATTA
1 TAATATATAAATA-TA
*
50655040 TTATATATAAATA
1 TAATATATAAATA
50655053 ACTTTAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 2 0.05
13 14 0.32
14 8 0.18
15 5 0.11
16 15 0.34
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATATATAAATATA
Found at i:50655037 original size:19 final size:18
Alignment explanation
Indices: 50654984--50655036 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
50654974 AGAACCTAGT
50654984 AATATATAATATATATGATA
1 AATA-ATAATATATAT-ATA
*
50655004 AATAGT-ATA-ATATATA
1 AATAATAATATATATATA
50655020 AATAATAA-ATATATATA
1 AATAATAATATATATATA
50655037 TTATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 3 0.10
19 1 0.03
20 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AATAATAATATATATATA
Found at i:50655296 original size:2 final size:2
Alignment explanation
Indices: 50655284--50655344 Score: 53
Period size: 2 Copynumber: 32.5 Consensus size: 2
50655274 AAACCTTGTA
*
50655284 AT AT AT A- AT AT AT AT GAT AT AT AT -T AT A- AT AT AT AT A- AA
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
50655323 AT GAT A- AT AT -T AT AT AT AT AT A
1 AT -AT AT AT AT AT AT AT AT AT AT A
50655345 ACTTTAACTA
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
1 6 0.12
2 40 0.80
3 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:50655298 original size:9 final size:9
Alignment explanation
Indices: 50655284--50655345 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
50655274 AAACCTTGTA
50655284 ATATATAAT
1 ATATATAAT
50655293 ATATATGATAT
1 ATATAT-A-AT
50655304 ATATTATAAT
1 ATA-TATAAT
50655314 ATATATAA-
1 ATATATAAT
50655322 A-ATGATAAT
1 ATAT-ATAAT
50655331 AT-TAT-AT
1 ATATATAAT
50655338 ATATATAA
1 ATATATAA
50655346 CTTTAACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
7 6 0.13
8 10 0.22
9 14 0.31
10 6 0.13
11 6 0.13
12 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:50655492 original size:13 final size:13
Alignment explanation
Indices: 50655474--50655514 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
50655464 TATATATTAT
50655474 TATATATAAATAC
1 TATATATAAATAC
50655487 TATATAT---TAC
1 TATATATAAATAC
50655497 TATATATAAATAC
1 TATATATAAATAC
50655510 TATAT
1 TATAT
50655515 GTTACTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.40
13 15 0.60
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATATAAATAC
Found at i:50655494 original size:23 final size:23
Alignment explanation
Indices: 50655464--50655531 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
50655454 TCATATATTA
*
50655464 TATATATTATTATATATAAATAC
1 TATATATTACTATATATAAATAC
50655487 TATATATTACTATATATAAATAC
1 TATATATTACTATATATAAATAC
* *
50655510 TATATGTTACTGTATATAAATA
1 TATATATTACTATATATAAATA
50655532 ATAAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (23 bp):
TATATATTACTATATATAAATAC
Found at i:50655520 original size:10 final size:10
Alignment explanation
Indices: 50655456--50655526 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
50655446 TTTCTCTTTC
50655456 ATATATTA-T
1 ATATATTACT
*
50655465 ATATATTATT
1 ATATATTACT
50655475 ATATATAAATACT
1 ATATAT---TACT
50655488 ATATATTACT
1 ATATATTACT
50655498 ATATATAAATACT
1 ATATAT---TACT
*
50655511 ATATGTTACT
1 ATATATTACT
*
50655521 GTATAT
1 ATATAT
50655527 AAATAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.16
10 25 0.49
13 18 0.35
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (10 bp):
ATATATTACT
Found at i:50655525 original size:21 final size:22
Alignment explanation
Indices: 50655464--50655549 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 22
50655454 TCATATATTA
*
50655464 TATATATTATTATATATAAATAC
1 TATATATTA-CATATATAAATAC
50655487 TATATATTACTATATATAAATAC
1 TATATATTAC-ATATATAAATAC
* * *
50655510 TATATGTTACTGTATATAAATAA
1 TATATATTAC-ATATATAAATAC
* *
50655533 TAAATAATACATA-ATAA
1 TATATATTACATATATAA
50655550 TATATTATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.07
22 2 0.04
23 48 0.89
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATATTACATATATAAATAC
Found at i:50661319 original size:19 final size:18
Alignment explanation
Indices: 50661295--50661333 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
50661285 CTTTGATGGG
50661295 AATCATTGTAGGGAAAGA
1 AATCATTGTAGGGAAAGA
50661313 NAATCATTGTAGGGAAAGA
1 -AATCATTGTAGGGAAAGA
50661332 AA
1 AA
50661334 CCTAACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.21
Consensus pattern (18 bp):
AATCATTGTAGGGAAAGA
Done.