Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 335 of 345
Found at i:111746613 original size:205 final size:205
Alignment explanation
Indices: 111746237--111746683 Score: 723
Period size: 205 Copynumber: 2.2 Consensus size: 205
111746227 TGGTAAAATT
* * * *
111746237 AATGAAAAATATGAAATCTTTTATGATCTAATTGATGTTAATAATATGAACTTTTATGATTTAAT
1 AATGAAATATAT-AAATTTTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAAT
** * * *
111746302 TGGTGAAATATATTAGTTTTTATGATATAATTGATATCAATTTTAAGTGTTTTTTCCCCTTCCAA
65 TAATGAAATATATGAGTTTTTATGATATAATTGACATCAATTGTAAGTGTTTTTTCCCCTTCCAA
111746367 TTCTAGGTGCATTTGTATGGATCATGCATACTTTTTAGCTCATCCCTTGTTATATGAGTTAGTAT
130 TTCTAGGTGCATTTGTATGGATCATGCATACTTTTTAGCTCATCCCTTGTTATATGAGTTAGTAT
111746432 TGAGTAGAATG
195 TGAGTAGAATG
* * *
111746443 AATGAAATATATAAATTTTTTAAGATCTAATTGATGTCAATAATATGAATTTTTATTATCTAATT
1 AATGAAATATATAAATTTTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATT
* *
111746508 AATGAAATATATGAGTTTTTATGATATAATTGGCATCAATTGTAAGTGTTTTTTCCCCTTCTAAT
66 AATGAAATATATGAGTTTTTATGATATAATTGACATCAATTGTAAGTGTTTTTTCCCCTTCCAAT
* *
111746573 TCTAGGTGCATTTGTATGGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTGTT
131 TCTAGGTGCATTTGTATGGATCATGCATACTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATT
*
111746638 TAGTAGAATG
196 GAGTAGAATG
*
111746648 AATGAAATATATGAATTTTTTATGATCTAATTGATG
1 AATGAAATATATAAATTTTTTATGATCTAATTGATG
111746684 AAATATACGA
Statistics
Matches: 222, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
205 211 0.95
206 11 0.05
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (205 bp):
AATGAAATATATAAATTTTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATT
AATGAAATATATGAGTTTTTATGATATAATTGACATCAATTGTAAGTGTTTTTTCCCCTTCCAAT
TCTAGGTGCATTTGTATGGATCATGCATACTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATT
GAGTAGAATG
Found at i:111746710 original size:31 final size:32
Alignment explanation
Indices: 111746649--111746714 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
111746639 AGTAGAATGA
* * *
111746649 ATGAAATATATGAATTTTTTATGATCTAATTG
1 ATGAAATATACGAAGTTTTTATGATATAATTG
*
111746681 ATGAAATATACG-AGTTTTTGTGATATAATTG
1 ATGAAATATACGAAGTTTTTATGATATAATTG
111746712 ATG
1 ATG
111746715 TCAATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (32 bp):
ATGAAATATACGAAGTTTTTATGATATAATTG
Found at i:111746801 original size:171 final size:172
Alignment explanation
Indices: 111746485--111746853 Score: 510
Period size: 172 Copynumber: 2.2 Consensus size: 172
111746475 GATGTCAATA
* * * *
111746485 ATATGAA-TTTTTATTATCTAATTAATGAAATATATGAGTTTTTATGATATAATTGGCATCAATT
1 ATATGAATTTTTTATGATCTAATTGATGAAATATACGAGTTTTTATGATATAATTGACATCAATT
* ** * * * *
111746549 GTAAGTGTTTTTTCCCCTTCTAATTCTAGGTGCATTTGTATGGATCATGCATGCTTTTTAGCTCA
66 ATAAGTACTTTTCCCCCTTCCAATTCTAGGTGCATCTGTAAGGATCATGCATGCTTTTTAGCTCA
***
111746614 TCCCTTGTTATATGAGTTAGTGTTTAGTAGAATGAATGAAAT
131 TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* **
111746656 ATATGAATTTTTTATGATCTAATTGATGAAATATACGAGTTTTTGTGATATAATTGATGTCAATT
1 ATATGAATTTTTTATGATCTAATTGATGAAATATACGAGTTTTTATGATATAATTGACATCAATT
* *
111746721 ATATAG-ACTTTTCCCCCTTCCCATTCTAGGTGCATCTGTAAGGATGATGCATGC-TTTTAGCTC
66 ATA-AGTACTTTTCCCCCTTCCAATTCTAGGTGCATCTGTAAGGATCATGCATGCTTTTTAGCTC
*
111746784 ATCCCTTGTTATATGAGTTAGTACCTAGTAGAATTAATGAAAT
130 ATCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* *
111746827 ATATGGATTTTTTATGATCTAAGTGAT
1 ATATGAATTTTTTATGATCTAATTGAT
111746854 ATCAATTATA
Statistics
Matches: 174, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
171 80 0.46
172 92 0.53
173 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (172 bp):
ATATGAATTTTTTATGATCTAATTGATGAAATATACGAGTTTTTATGATATAATTGACATCAATT
ATAAGTACTTTTCCCCCTTCCAATTCTAGGTGCATCTGTAAGGATCATGCATGCTTTTTAGCTCA
TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
Found at i:111754221 original size:122 final size:122
Alignment explanation
Indices: 111754072--111754316 Score: 420
Period size: 122 Copynumber: 2.0 Consensus size: 122
111754062 ATACCATTTA
*
111754072 AATTTTAATTTATAAAATTAAAAAATTAAAAATTAACC-CTCCTACTTTTCTTATTTAAAAACTC
1 AATTTTAATTTATAAAATTAAAAAATTAAAAATTAACCTCTCCTA-TTTTCTTATCTAAAAACTC
* *
111754136 GATCATATCGTTAATATTATGAGTATTTTTCATTAAAATCTGTGAACTTAGTGTATTG
65 GATCACATCGTTAATATTATGAGTATTTTTCATTAAAATCTGTCAACTTAGTGTATTG
*
111754194 AATTTTAATTTATAAAATTAAAAAATTAAAAATTAACCTCTCCTATTTTTTTATCTAAAAACTCG
1 AATTTTAATTTATAAAATTAAAAAATTAAAAATTAACCTCTCCTATTTTCTTATCTAAAAACTCG
* *
111754259 ATCACATCGTTATTATTATTAGTATTTTTCATTAAAATCTGTCAACTTAGTGTATTG
66 ATCACATCGTTAATATTATGAGTATTTTTCATTAAAATCTGTCAACTTAGTGTATTG
111754316 A
1 A
111754317 TTAGACTGTC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
122 110 0.95
123 6 0.05
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (122 bp):
AATTTTAATTTATAAAATTAAAAAATTAAAAATTAACCTCTCCTATTTTCTTATCTAAAAACTCG
ATCACATCGTTAATATTATGAGTATTTTTCATTAAAATCTGTCAACTTAGTGTATTG
Found at i:111758082 original size:46 final size:46
Alignment explanation
Indices: 111758015--111758107 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
111758005 CGAGTCTCTG
111758015 TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTCAGT
1 TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTCAGT
*
111758061 TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTTAGT
1 TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTCAGT
111758107 T
1 T
111758108 TAGTGCTTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.52
Consensus pattern (46 bp):
TGAGGGTTCTCTTTCAAATTTATTTTGGTTTAGTTAGTAATTCAGT
Found at i:111759938 original size:16 final size:16
Alignment explanation
Indices: 111759917--111759949 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
111759907 AAATATTGAG
111759917 ATAAATTATATGATTA
1 ATAAATTATATGATTA
111759933 ATAAATTATATGATTA
1 ATAAATTATATGATTA
111759949 A
1 A
111759950 AGTGTAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
ATAAATTATATGATTA
Found at i:111761440 original size:70 final size:70
Alignment explanation
Indices: 111761321--111761458 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 70
111761311 TCAAATTTGA
* * *
111761321 GGTTTAACTTAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
1 GGTTTAACTCAGTTGATCCTTATGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
111761386 AACTT
66 AACTT
* * * *
111761391 GGTTTAACTCGGTTGATTCTTATGAGTAGGAATGTTGAAATTTAGTGGACCAAAAAAGTAAATAA
1 GGTTTAACTCAGTTGATCCTTATGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
111761456 AAC
66 AAC
111761459 GAGTTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (70 bp):
GGTTTAACTCAGTTGATCCTTATGAGTAGGAATGTTGAAACTTAATGGACCAAAAAAGTAAATAA
AACTT
Found at i:111761552 original size:154 final size:153
Alignment explanation
Indices: 111761271--111761704 Score: 546
Period size: 154 Copynumber: 2.8 Consensus size: 153
111761261 TTGTGAGTAG
* ** * * * * * *
111761271 TGAAATTTAGTGGACCAAAAAGGTAAATAACCCAAGTCCTTCAAA-TTTGAGGTTTAACTTAGTT
1 TGAAATTTAGTGGACCAAAAAAGTAAATAAAACAAGT-TTTTAAACTTGGA-GTTTAATTTAATA
* * * * * * *
111761335 GATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAAAACTTGGTTTAACT
64 GGTTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAAAAAA-TAAATAAAACTTGGTTTAACT
111761400 CGGTTGATTCTTATGAGTAGGAATGT
128 CGGTTGATTCTTATGAGTAGGAATGT
*
111761426 TGAAATTTAGTGGACCAAAAAAGTAAATAAAACGAGTTTTTAAACTTGGAGTTTAATTTAATAGG
1 TGAAATTTAGTGGACCAAAAAAGTAAATAAAACAAGTTTTTAAACTTGGAGTTTAATTTAATAGG
* *
111761491 TTCTTGTGAATAAGAATGTTGAAATTTAGTGAACCAAAAAAAAAATAAAACTTGAGTTTAACTCG
66 TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAAAAAATAAATAAAACTTG-GTTTAACTCG
*
111761556 GTTGATTCTTGTGAGTAGGAATGT
130 GTTGATTCTTATGAGTAGGAATGT
* *
111761580 TGAAATTTAGTGGACCAGAAAAGTAAATAAAACAAATTTTTAAACTTGGAGTTTAATTTAATAGA
1 TGAAATTTAGTGGACCAAAAAAGTAAATAAAACAAGTTTTTAAACTTGGAG------TT--TA-A
111761645 TTTAATAGGTTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAAAAAATAAATAAAAC
57 TTTAATAGGTTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAAAAAATAAATAAAAC
111761705 AAATTTTTAA
Statistics
Matches: 243, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
153 12 0.05
154 131 0.54
155 37 0.15
160 2 0.01
162 2 0.01
163 59 0.24
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (153 bp):
TGAAATTTAGTGGACCAAAAAAGTAAATAAAACAAGTTTTTAAACTTGGAGTTTAATTTAATAGG
TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAAAAAATAAATAAAACTTGGTTTAACTCGG
TTGATTCTTATGAGTAGGAATGT
Found at i:111761733 original size:92 final size:93
Alignment explanation
Indices: 111761561--111761738 Score: 279
Period size: 92 Copynumber: 1.9 Consensus size: 93
111761551 ACTCGGTTGA
* * *
111761561 TTCTTGTGAGTAGGAATGTTGAAATTTAGTGGACCAGAAAAGTAAATAAAACAAATTTTTAAACT
1 TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAGAAAAATAAATAAAACAAATTTTTAAACT
*
111761626 TGGAGTTTAATTTAATAGATTTAATAGG
66 TGGAGTTTAACTTAATAGATTTAATAGG
*
111761654 TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCA-AAAAATAAATAAAACAAATTTTTAAATT
1 TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAGAAAAATAAATAAAACAAATTTTTAAACT
*
111761718 TGG-GATTTAACTTAATTGATT
66 TGGAG-TTTAACTTAATAGATT
111761739 CTGGTTGTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 1 0.01
92 43 0.55
93 34 0.44
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (93 bp):
TTCTTGTGAGTAAGAATGTTGAAATTTAGTGAACCAGAAAAATAAATAAAACAAATTTTTAAACT
TGGAGTTTAACTTAATAGATTTAATAGG
Found at i:111762154 original size:109 final size:109
Alignment explanation
Indices: 111761887--111762242 Score: 459
Period size: 109 Copynumber: 3.3 Consensus size: 109
111761877 AGACTTCCTT
* * * * *
111761887 CATTTGGTTTATTAATATGATTATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATTT
1 CATTTAGTTTATTAATATGATCATTTGAACACACTAGTATTTCAATTTATGATAATGCCTTATTT
* * * *
111761952 GGGAAGGCAACAATGTATTGTAGCAATTGTGTCTAGGTTTAGTC
66 GGGAGGGCAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGCC
*
111761996 CATTT-GATTTATTAATATGATCATTTGAACACACTAGTATTTCAATTTATAATAATGCCTTATT
1 CATTTAG-TTTATTAATATGATCATTTGAACACACTAGTATTTCAATTTATGATAATGCCTTATT
* *
111762060 TGAGAGGGCAACAAAGTATTGTGGCAATTGTGTCTAGGCTTAGCC
65 TGGGAGGGCAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGCC
* * * * *
111762105 CATTTAGTTTATTAATATGATTATTTGAACACCCTTGTATTTCAATTTATGCTAATACC---TTT
1 CATTTAGTTTATTAATATGATCATTTGAACACACTAGTATTTCAATTTATGATAATGCCTTATTT
* ** * *
111762167 GGGAGGGGAACAAAGTACTCATGGTAGTTGTGTCTAGGTTTAGCC
66 GGGAGGGCAACAAAGTA-TTGTGGCAATTGTGTCTAGGTTTAGCC
*
111762212 CATTTAGTTTATTATTATGATCATTTGAACA
1 CATTTAGTTTATTAATATGATCATTTGAACA
111762243 TGTCTGTATT
Statistics
Matches: 218, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
106 18 0.08
107 51 0.23
108 1 0.00
109 147 0.67
110 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (109 bp):
CATTTAGTTTATTAATATGATCATTTGAACACACTAGTATTTCAATTTATGATAATGCCTTATTT
GGGAGGGCAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGCC
Found at i:111771373 original size:15 final size:15
Alignment explanation
Indices: 111771353--111771381 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111771343 TATAATAATG
111771353 AGGAGAAGGAGAAGA
1 AGGAGAAGGAGAAGA
111771368 AGGAGAAGGAGAAG
1 AGGAGAAGGAGAAG
111771382 TAGAAGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (15 bp):
AGGAGAAGGAGAAGA
Found at i:111771389 original size:15 final size:15
Alignment explanation
Indices: 111771356--111771390 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
111771346 AATAATGAGG
*
111771356 AGAAGGAGAAGAAGG
1 AGAAGGAGAAGAAGA
*
111771371 AGAAGGAGAAGTAGA
1 AGAAGGAGAAGAAGA
111771386 AGAAG
1 AGAAG
111771391 CAATCTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (15 bp):
AGAAGGAGAAGAAGA
Found at i:111779473 original size:81 final size:81
Alignment explanation
Indices: 111779364--111779519 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 81
111779354 TAGGAAGGAC
* *
111779364 TATGTTTATGAGTTACATCTCTAATGATCTATTCA-AAAAAAACTTGGCTATTTTTTAAAAAGAT
1 TATGTTTATGAGTTACATCTCTAATGATCTATT-AGAAAAAAACTTGGCTATTGTATAAAAAGAT
111779428 ATTTAGAATTCAAGAGT
65 ATTTAGAATTCAAGAGT
*
111779445 TATGTTTAT-ACGTTGCATCTCTAATGATCTATTAGAAAAAAACTTGGCTATTGTATAAAAAGAT
1 TATGTTTATGA-GTTACATCTCTAATGATCTATTAGAAAAAAACTTGGCTATTGTATAAAAAGAT
111779509 ATTTAGAATTC
65 ATTTAGAATTC
111779520 CGTAAATGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
80 2 0.03
81 68 0.97
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (81 bp):
TATGTTTATGAGTTACATCTCTAATGATCTATTAGAAAAAAACTTGGCTATTGTATAAAAAGATA
TTTAGAATTCAAGAGT
Found at i:111783630 original size:22 final size:19
Alignment explanation
Indices: 111783605--111783661 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 19
111783595 CTATTATATA
111783605 TATTTTAGATTTTTTTAATAAT
1 TATTTTA-ATTTTTTTAAT--T
111783627 TATTTATAATTTTTTTAATT
1 TATTT-TAATTTTTTTAATT
*
111783647 TTTTTTACATTTTTT
1 TATTTTA-ATTTTTT
111783662 CACTTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
22 16 0.50
23 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTTAATTTTTTTAATT
Found at i:111783645 original size:19 final size:20
Alignment explanation
Indices: 111783623--111783671 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
111783613 ATTTTTTTAA
111783623 TAATTATTTATA-ATTTTTT
1 TAATTATTTATACATTTTTT
* *
111783642 TAATTTTTTTTACATTTTTT
1 TAATTATTTATACATTTTTT
* *
111783662 CACTTATTTA
1 TAATTATTTA
111783672 AAATGAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATTATTTATACATTTTTT
Found at i:111783937 original size:21 final size:19
Alignment explanation
Indices: 111783900--111783939 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
111783890 AGCATAAATT
111783900 ATATAATATATATAACATA
1 ATATAATATATATAACATA
*
111783919 ATATAATCTATTATAAACATA
1 ATATAATATA-TAT-AACATA
111783940 GAAAGTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAATATATATAACATA
Found at i:111785649 original size:18 final size:19
Alignment explanation
Indices: 111785621--111785665 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
111785611 CTTTTAAGTT
* * *
111785621 TGTAATATTTTGTATTTTA
1 TGTAATTTTTTATATATTA
111785640 T-TAATTTTTTATATATTA
1 TGTAATTTTTTATATATTA
111785658 TGTAATTT
1 TGTAATTT
111785666 ATAACACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (19 bp):
TGTAATTTTTTATATATTA
Found at i:111786330 original size:31 final size:31
Alignment explanation
Indices: 111786279--111786337 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
111786269 TTTTTTTGCC
* *
111786279 TTTAACGGCGTTTTAAAGCACTGCTAATACT
1 TTTAACGGCATTTTAAAGCACCGCTAATACT
* *
111786310 TTTAGCGGCATTTTTAAGCACCGCTAAT
1 TTTAACGGCATTTTAAAGCACCGCTAAT
111786338 CCCAAGCGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTAACGGCATTTTAAAGCACCGCTAATACT
Found at i:111792012 original size:13 final size:13
Alignment explanation
Indices: 111791972--111792014 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
111791962 AATCTCTATT
111791972 TTATATTTTATTT-
1 TTAT-TTTTATTTG
* *
111791985 TTATTTTTGTATG
1 TTATTTTTATTTG
111791998 TTATTTTTATTTG
1 TTATTTTTATTTG
111792011 TTAT
1 TTAT
111792015 CAATGTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (13 bp):
TTATTTTTATTTG
Found at i:111792504 original size:14 final size:14
Alignment explanation
Indices: 111792460--111792498 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
111792450 TCATAAACGT
*
111792460 TAAACCCTTAATCA
1 TAAACCCTAAATCA
*
111792474 TATACCCTAAATCA
1 TAAACCCTAAATCA
111792488 TAAACCCTAAA
1 TAAACCCTAAA
111792499 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:111792953 original size:23 final size:22
Alignment explanation
Indices: 111792923--111792970 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
111792913 GTTTAAGATT
* *
111792923 TTTTAAGGTTTAGGAGTTTAGTG
1 TTTTAAGGATTA-GAGATTAGTG
*
111792946 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAGAGATTAGTG
111792968 TTT
1 TTT
111792971 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAGAGATTAGTG
Found at i:111793119 original size:41 final size:41
Alignment explanation
Indices: 111793010--111793122 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
111793000 GTTATATGAC
* *
111793010 TTTTAGCGGCGTTTTACTAAAAGCGCCACTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
* *
111793051 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
*
111793092 TTTTAGCGGCGTTTTTATTAAAA-CGCCGCTA
1 TTTTAGCGGCG-TTTTACTAAAAGCGCCGCTA
111793123 TTACTCTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 55 0.86
42 9 0.14
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
Found at i:111794114 original size:21 final size:22
Alignment explanation
Indices: 111794090--111794131 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
111794080 CCTAAAACAA
*
111794090 TAAAAATTTAA-TTTAATTTTT
1 TAAAAATTAAATTTTAATTTTT
111794111 TAAAAATTAAATTTTAATTTT
1 TAAAAATTAAATTTTAATTTT
111794132 AGTTCACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAAAATTAAATTTTAATTTTT
Found at i:111807078 original size:9 final size:8
Alignment explanation
Indices: 111807061--111807085 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
111807051 CAAAAACCGT
111807061 AATAAAAA
1 AATAAAAA
111807069 AATAAAAA
1 AATAAAAA
111807077 AATAAAAA
1 AATAAAAA
111807085 A
1 A
111807086 GCTGGAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:111812204 original size:28 final size:28
Alignment explanation
Indices: 111812154--111812213 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
111812144 AGTCTATATC
*
111812154 TTTATTATTTTTAAATAATTAAATTAAAA
1 TTTATTATTTTT-AATAATTAAAATAAAA
* *
111812183 TTTATTATTTTT-ATAGGTTAAAATATAA
1 TTTATTATTTTTAATA-ATTAAAATAAAA
111812211 TTT
1 TTT
111812214 TACTATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 12 0.44
29 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTATTATTTTTAATAATTAAAATAAAA
Found at i:111816171 original size:95 final size:94
Alignment explanation
Indices: 111816004--111816196 Score: 287
Period size: 95 Copynumber: 2.0 Consensus size: 94
111815994 ACTATTTGGC
* * * * * *
111816004 AGTTAAGTTTGGCTTCAATTTTCAAATTGGTACTTGAATTTTTTTTTTCCAATTTGGTACATGAG
1 AGTTAAGTTTGGCTTCAATCTTCAAATTGGCACCTAAATTTTTTTGTCCCAATTTGGTACATGAG
* *
111816069 TTTGGCTACAATGTTCATTTTGGTACCTG
66 TTTGGCTACAATGTTCATTTCGGTACCTA
* *
111816098 AGTTGAGTTTGGCTTCAATCTTCAATTTGGCACCTAAATTCTTTTTGTCCCAATTTGGTACATGA
1 AGTTAAGTTTGGCTTCAATCTTCAAATTGGCACCTAAATT-TTTTTGTCCCAATTTGGTACATGA
111816163 GTTTGGCTACAATGTTCATTTCGGTACCTA
65 GTTTGGCTACAATGTTCATTTCGGTACCTA
111816193 AGTT
1 AGTT
111816197 TTTTTGTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 34 0.39
95 54 0.61
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (94 bp):
AGTTAAGTTTGGCTTCAATCTTCAAATTGGCACCTAAATTTTTTTGTCCCAATTTGGTACATGAG
TTTGGCTACAATGTTCATTTCGGTACCTA
Found at i:111818428 original size:20 final size:20
Alignment explanation
Indices: 111818403--111818460 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
111818393 TTTCAATCGC
111818403 TTTTTTTAACGGTAATGGGT
1 TTTTTTTAACGGTAATGGGT
* * *
111818423 TTTTTTTAACAGCAATGAGT
1 TTTTTTTAACGGTAATGGGT
* *
111818443 TTTTTTAAATGGTAATGG
1 TTTTTTTAACGGTAATGG
111818461 AATGAACTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (20 bp):
TTTTTTTAACGGTAATGGGT
Found at i:111819178 original size:23 final size:23
Alignment explanation
Indices: 111819152--111819201 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
111819142 CAAACAAAGG
111819152 AGGGCTACCAAATAACATTTCAT
1 AGGGCTACCAAATAACATTTCAT
111819175 AGGGCTACCAAATAACATTTCAT
1 AGGGCTACCAAATAACATTTCAT
111819198 AGGG
1 AGGG
111819202 TGTTTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (23 bp):
AGGGCTACCAAATAACATTTCAT
Found at i:111832992 original size:3 final size:3
Alignment explanation
Indices: 111832984--111833046 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
111832974 AATTAATTTC
* * * *
111832984 ATT ATT ATT ATC ATT ATT ATT ACT ATT AGT ATT ATT -TT -TT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111833030 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
111833047 CATCTTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:111833028 original size:22 final size:22
Alignment explanation
Indices: 111833000--111833041 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
111832990 ATTATCATTA
111833000 TTATTACTATTAGTATTATTTT
1 TTATTACTATTAGTATTATTTT
*
111833022 TTATTACTATTATTATTATT
1 TTATTACTATTAGTATTATT
111833042 ATTATCATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTACTATTAGTATTATTTT
Found at i:111833131 original size:25 final size:26
Alignment explanation
Indices: 111833050--111833134 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
111833040 TTATTATCAT
* * *
111833050 CTTTTTAATTTGTTTTATTTA-ATAC
1 CTTTTTTATTTGCTTTATTTATTTAC
* * *
111833075 CTTATTTATTTGCTTTTTTTATTTTAA
1 CTTTTTTATTTGCTTTATTTA-TTTAC
* *
111833102 ATTTTTTATTTG-TTCATTTATTTAC
1 CTTTTTTATTTGCTTTATTTATTTAC
111833127 CTTTTTTA
1 CTTTTTTA
111833135 GTTTTTTTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
25 28 0.61
26 6 0.13
27 12 0.26
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (26 bp):
CTTTTTTATTTGCTTTATTTATTTAC
Found at i:111834345 original size:22 final size:23
Alignment explanation
Indices: 111834298--111834345 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
111834288 CATTCAAGAT
** *
111834298 AAAATAATATATTAAACTTTTTA
1 AAAATAATATATTAAACAATTCA
111834321 AAAATAATATA-TAAACAATTCA
1 AAAATAATATATTAAACAATTCA
111834343 AAA
1 AAA
111834346 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATTAAACAATTCA
Found at i:111834388 original size:26 final size:25
Alignment explanation
Indices: 111834324--111834416 Score: 71
Period size: 26 Copynumber: 3.7 Consensus size: 25
111834314 CTTTTTAAAA
* *
111834324 ATAATATATAAACAATTCAAAATAT
1 ATAATATATAAAAAATTCAAAATAC
* * *
111834349 ATAATGTGTAAAAAAATTTAAAATAC
1 ATAATATAT-AAAAAATTCAAAATAC
* * * *
111834375 ATAATATATGAAAATATT-AGAGTAA
1 ATAATATAT-AAAAAATTCAAAATAC
*
111834400 ATAATGTATAAAAAATT
1 ATAATATATAAAAAATT
111834417 GAAATGAGCG
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
24 7 0.13
25 19 0.36
26 27 0.51
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (25 bp):
ATAATATATAAAAAATTCAAAATAC
Found at i:111834582 original size:23 final size:23
Alignment explanation
Indices: 111834556--111834624 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
111834546 AGTATATAAA
111834556 TAGAAATAGAAATATAATAATAG
1 TAGAAATAGAAATATAATAATAG
* *
111834579 TAGAAATATAAATA-GATAA-A-
1 TAGAAATAGAAATATAATAATAG
*
111834599 TAAAAATTAGATAA-ATAATAATAG
1 TAGAAA-TAGA-AATATAATAATAG
111834623 TA
1 TA
111834625 TTAGAATAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 10 0.28
23 14 0.39
24 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (23 bp):
TAGAAATAGAAATATAATAATAG
Found at i:111834609 original size:15 final size:14
Alignment explanation
Indices: 111834551--111834652 Score: 66
Period size: 14 Copynumber: 7.1 Consensus size: 14
111834541 AAATTAGTAT
*
111834551 ATAAATAGAAATAG
1 ATAAATAAAAATAG
*
111834565 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
111834579 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
111834594 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
111834609 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
111834623 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
111834638 ATAAATATAAATAG
1 ATAAATAAAAATAG
111834652 A
1 A
111834653 AACATAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
12 6 0.09
13 5 0.07
14 23 0.33
15 23 0.33
16 5 0.07
17 7 0.10
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:111834614 original size:29 final size:28
Alignment explanation
Indices: 111834551--111834652 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 28
111834541 AAATTAGTAT
* *
111834551 ATAAATAGAAATAGA-AATATAATAATAG
1 ATAAATATAAATAGATAA-ATAAAAATAG
*
111834579 TAGAAATATAAATAGATAAATAAAAATTAG
1 -ATAAATATAAATAGATAAATAAAAA-TAG
*
111834609 ATAAATA-ATAATAGTATTAGAATAACAA-A-
1 ATAAATATA-AATAG-A-TA-AATAAAAATAG
111834638 ATAAATATAAATAGA
1 ATAAATATAAATAGA
111834653 AACATAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
28 2 0.03
29 42 0.69
30 8 0.13
31 2 0.03
32 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (28 bp):
ATAAATATAAATAGATAAATAAAAATAG
Found at i:111839166 original size:3 final size:3
Alignment explanation
Indices: 111839158--111839322 Score: 131
Period size: 3 Copynumber: 55.3 Consensus size: 3
111839148 TTAATTAATT
* * * *
111839158 TTA TTA TTA TTA TTT TTA CTA TTA TTTA TTA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * *
111839204 TTA TTA TTA TT- TT- TTA CTA TTA CTA TCA TTA TCA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
111839250 CTA TTA TTA TTA TCA TTT TTA TT- TTA CTA TTA TT- TATA TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA
* * *
111839295 TTA TTA TTA TTA TCA TTT TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
111839323 AATTTTTTTA
Statistics
Matches: 124, Mismatches: 32, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
2 7 0.06
3 110 0.89
4 7 0.06
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:111839231 original size:40 final size:41
Alignment explanation
Indices: 111839159--111839259 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 41
111839149 TAATTAATTT
* * *
111839159 TATTATTATTATTTTTACTATTATTTATTATCATTATTATTA
1 TATTATTATTATTTTTA-TACTATTTACTATCATTATCATTA
111839201 CTATTATTATTATTTTT-TACTA-TTACTATCATTATCATTA
1 -TATTATTATTATTTTTATACTATTTACTATCATTATCATTA
* *
111839241 TCATTATTACTATTATTAT
1 T-ATTATTATTATTTTTAT
111839260 TATCATTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.02
40 29 0.57
41 5 0.10
43 16 0.31
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (41 bp):
TATTATTATTATTTTTATACTATTTACTATCATTATCATTA
Found at i:111840926 original size:46 final size:44
Alignment explanation
Indices: 111840854--111840970 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 44
111840844 AGCTTCGATT
* * * * * *
111840854 TGCTCCACTGGAACTTAAAGGGGATAAAATTTGGTAATCTTTAG-TC
1 TGCTCCACTGCAACTTCAAGGAGATAAAACTTGCT-A-C-TTAGACC
*
111840900 TGCTCCACTGCAACTTCAAGGAGATAAAACTTGCTACTTCGACC
1 TGCTCCACTGCAACTTCAAGGAGATAAAACTTGCTACTTAGACC
111840944 TGCTCCACTGCAACTTC-AGGATGATAA
1 TGCTCCACTGCAACTTCAAGGA-GATAA
111840971 GGTTTGTGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 7 0.11
44 24 0.39
45 1 0.02
46 30 0.48
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAAGGAGATAAAACTTGCTACTTAGACC
Found at i:111841099 original size:44 final size:44
Alignment explanation
Indices: 111841037--111841989 Score: 434
Period size: 44 Copynumber: 21.7 Consensus size: 44
111841027 TCCAGCCTGT
* * **
111841037 TCCACTACTACTTAGGGAGATAAGGCTCGCCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * * * * *
111841081 TCCATTACTGCTTAGGGAGATAAGATCTGA-AATTTTC-AGCCTGT
1 TCCACTACTGCTTAGGGAGATAAG-GCTCACAATCTTCGA-TCTGC
* * * ** * *
111841125 TCCCCTACTGCTTAGAGAGATAA-GATCTGTAATTTTC-AGTCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
* ** **
111841169 TCCCCTACTGCTTAGGGAGATAAAACTCACCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * ** * * **
111841213 TCCACTATTGCTTAGGGAGATAA-GATCTGTAATTTTC-AGCTTAT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGATC-TGC
* ** * *
111841257 TCCCCTACTGCTTAGGGAGATAAGGCTCACCGTCTTCAATTTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* ** ** * *
111841301 TCCACTACTGCTTAGGGAGATAA-GATCTGTAAT-TTTTAGCCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
** * * * ** * *
111841345 TCCTTTACTACTTAGGAAGATAAGGTTCACCGTCTTCAATCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * ** ** * * *
111841389 TCCATTACTGCTTAGGGAGATAA-GATCTGTAAT-TTTTAGCCGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGATCTGC
* * **
111841432 TCCCCTACTACTTAGGGAGATAAGGCTCACCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
** *** * * *
111841476 TCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTC-AGCCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGA-TCTGC
* * *
111841520 TCCTCTACTGCTTAGGGAGATAAGGCTCACCATTTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * * * * ** * *
111841564 TCCACTATTGCTTAGGGATATAA-GATCTATAATTTTTTAGCCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
*** * *
111841609 TCCACTACTGCTTAGGGAGATAAGGCTTGTAGTCTTCGATTTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* ** ** * *
111841653 TCCACTACTGCTTAGGGAGATAA-GATCTGGAAT-TTTTAGTTTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
* * ** *
111841697 TCCCCTATTGCTTAGGGAGATAAGGCTCACCGTCTTCGATTTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * * * *
111841741 TCCACTACTACTTAGGGAGATAA-GATCTACAATCTT-TAGCCTAC
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
* * * * * *
111841785 TCTACTACTTCTTAGGGAGGTAAGGCTCACCATCTTCGATTTTC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * ** ** * *
111841829 TCCACTACTGGTTAGGGAGATAA-GATCTGTAAT-TTTTACCCTGT
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
* **
111841873 TCCCCTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
* * * *
111841917 TCCACTACTGCTTAGGAAGATAA-GATCTACAATCTT-TAGTCTAC
1 TCCACTACTGCTTAGGGAGATAAGGCTC-ACAATCTTCGA-TCTGC
*
111841961 TCCACTACTGCTTAAGGAGATAAGGCTCA
1 TCCACTACTGCTTAGGGAGATAAGGCTCA
111841990 TCTAAATTTA
Statistics
Matches: 659, Mismatches: 213, Indels: 74
0.70 0.23 0.08
Matches are distributed among these distances:
42 1 0.00
43 64 0.10
44 527 0.80
45 65 0.10
46 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGGCTCACAATCTTCGATCTGC
Found at i:111841117 original size:89 final size:88
Alignment explanation
Indices: 111840985--111841148 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 88
111840975 TGTGTATTTT
* *
111840985 GATCCGCTCCACTACTGTTTAGGGATATAAGATCTATAATTTTCCAGCCTGTTCCACTACTACTT
1 GATCCGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTT-CAGCCTGTTCCACTACTACTT
*
111841050 AGGGAGATAAGGCTCGCCGTCTTC
65 AGAGAGATAAGGCTCGCCGTCTTC
* * * *
111841074 GATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGA-AATTTTCAGCCTGTTCCCCTACTGCTT
1 GATCCGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAGCCTGTTCCACTACTACTT
111841138 AGAGAGATAAG
65 AGAGAGATAAG
111841149 ATCTGTAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
88 29 0.43
89 37 0.55
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (88 bp):
GATCCGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTCCACTACTACTTA
GAGAGATAAGGCTCGCCGTCTTC
Found at i:111841178 original size:88 final size:88
Alignment explanation
Indices: 111841129--111841989 Score: 1107
Period size: 88 Copynumber: 9.8 Consensus size: 88
111841119 GCCTGTTCCC
* * **
111841129 CTACTGCTTAGAGAGATAAGATCTGTAATTTTCAGTCTGTTCCCCTACTGCTTAGGGAGATAAAA
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
111841194 CTCACCGTCTTCGATCTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* * *
111841217 CTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTATTCCCCTACTGCTTAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
* *
111841282 CTCACCGTCTTCAATTTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* ** * *
111841305 CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTCCTTTACTACTTAGGAAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
* * *
111841370 TTCACCGTCTTCAATCTGTTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* * *
111841393 TTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGCC-GTTCCCCTACTACTTAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
111841457 CTCACCGTCTTCGATCTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* *
111841480 CTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTCCTCTACTGCTTAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
* *
111841545 CTCACCATTTTCGATCTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* * * * *
111841568 CTATTGCTTAGGGATATAAGATCTATAATTTTTTAGCCTGTTCCACTACTGCTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAA-TTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAG
**** *
111841633 GCTTGTAGTCTTCGATTTGCTCCA
65 GCTCACCGTCTTCGATCTGCTCCA
* * ** *
111841657 CTACTGCTTAGGGAGATAAGATCTGGAATTTTTAGTTTGTTCCCCTATTGCTTAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
*
111841722 CTCACCGTCTTCGATTTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* ** ** ** * *
111841745 CTACTACTTAGGGAGATAAGATCTACAATCTTT-AGCCTACTCTACTACTTCTTAGGGAGGTAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAG
* * *
111841809 GCTCACCATCTTCGATTTTCTCCA
65 GCTCACCGTCTTCGATCTGCTCCA
* * *
111841833 CTACTGGTTAGGGAGATAAGATCTGTAATTTTTACCCTGTTCCCCTACTGCTTAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
111841898 CTCACCGTCTTCGATCTGCTCCA
66 CTCACCGTCTTCGATCTGCTCCA
* ** * ** * *
111841921 CTACTGCTTAGGAAGATAAGATCTACAATCTTT-AGTCTACTCCACTACTGCTTAAGGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAG
111841985 GCTCA
65 GCTCA
111841990 TCTAAATTTA
Statistics
Matches: 671, Mismatches: 97, Indels: 10
0.86 0.12 0.01
Matches are distributed among these distances:
87 81 0.12
88 509 0.76
89 81 0.12
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (88 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCCCTACTGCTTAGGGAGATAAGG
CTCACCGTCTTCGATCTGCTCCA
Found at i:111841202 original size:132 final size:132
Alignment explanation
Indices: 111840992--111841808 Score: 654
Period size: 132 Copynumber: 6.2 Consensus size: 132
111840982 TTTGATCCGC
* * * * *
111840992 TCCACTACTGTTTAGGGATATAAGATCTATAATTTTCCAGCCTGTTCCACTACTACTTAGGGAGA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT-CAGTCTGTTCCACTACTGCTTAGGGAGA
* * *
111841057 TAAGGCTCGCCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGCC
65 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCC
111841122 TGT
130 TGT
* * *
111841125 TCCCCTACTGCTTAGAGAGATAAGATCTGTAATTTTCAGTCTGTTCCCCTACTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTCCACTACTGCTTAGGGAGAT
** * *
111841190 AAAACTCACCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTT
66 AAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
*
111841255 AT
131 GT
* * * * * * * *
111841257 TCCCCTACTGCTTAGGGAGATAAG-GCT-CACCGTCTTCAATTTGCTCCACTACTGCTTAGGGAG
1 TCCACTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAGTCTGTTCCACTACTGCTTAGGGAG
* * ** * * * * ** * * * * * *
111841320 ATAAGATCTGTA-ATTTTTAG-CCTGTTCCTTTACTACTTAGGAAGATAAGGT-T-CACCGTCTT
64 ATAAG-GCT-CACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA--ATTTT
**
111841381 CAATCTGT
125 CAGCCTGT
* * * * *
111841389 TCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTTAG-CCGTTCCCCTACTACTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTCCACTACTGCTTAGGGAGAT
*
111841453 AAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCT
66 AAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
111841518 GT
131 GT
* * * * *
111841520 TCCTCTACTGCTTAGGGAGATAAG-GCT-CACCATTTTC-GATCTGCTCCACTATTGCTTAGGGA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAG-TCTGTTCCACTACTGCTTAGGGA
* * *** * ** * * * * *
111841582 TATAA-GATCTATAATTTTTTAGCCTGTTCCACTACTGCTTAGGGAGATAAG-GCTTGTAGTCTT
63 GATAAGGCTC-ACCGTCTTCGA-TCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATTTT
** *
111841645 C-GATTTGC
125 CAG-CCTGT
* * * * *
111841653 TCCACTACTGCTTAGGGAGATAAGATCTGGAATTTTTAGTTTGTTCCCCTATTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTCCACTACTGCTTAGGGAGAT
* * **
111841718 AAGGCTCACCGTCTTCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTT-AGCC
66 AAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAGCC
**
111841782 TAC
130 TGT
* * *
111841785 TCTACTACTTCTTAGGGAGGTAAG
1 TCCACTACTGCTTAGGGAGATAAG
111841809 GCTCACCATC
Statistics
Matches: 522, Mismatches: 135, Indels: 55
0.73 0.19 0.08
Matches are distributed among these distances:
129 2 0.00
130 11 0.02
131 89 0.17
132 273 0.52
133 138 0.26
134 8 0.02
135 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGTTCCACTACTGCTTAGGGAGAT
AAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
GT
Found at i:111843107 original size:38 final size:39
Alignment explanation
Indices: 111843023--111843157 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
111843013 ACCAATATGG
*
111843023 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
111843062 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
111843100 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
111843141 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
111843158 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:111843951 original size:5 final size:5
Alignment explanation
Indices: 111843941--111843968 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
111843931 TTTATATATA
111843941 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
111843969 CTTAGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:111850094 original size:38 final size:39
Alignment explanation
Indices: 111850010--111850144 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
111850000 ACCAATATGG
*
111850010 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
111850049 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
111850087 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
111850128 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
111850145 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:111850941 original size:5 final size:5
Alignment explanation
Indices: 111850931--111850958 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
111850921 TTTATATATA
111850931 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
111850959 CTTAGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:111854605 original size:14 final size:14
Alignment explanation
Indices: 111854586--111854616 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
111854576 TGCTACTATT
111854586 TTACTATTATGTTG
1 TTACTATTATGTTG
*
111854600 TTACTATTTTGTTG
1 TTACTATTATGTTG
111854614 TTA
1 TTA
111854617 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:111860314 original size:14 final size:13
Alignment explanation
Indices: 111860295--111860324 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
111860285 GAAAAGTGAG
111860295 AAAAAAAGAAAAGA
1 AAAAAAAG-AAAGA
111860309 AAAAAAAGAAAGA
1 AAAAAAAGAAAGA
111860322 AAA
1 AAA
111860325 TTGGAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAGA
Found at i:111864864 original size:21 final size:21
Alignment explanation
Indices: 111864831--111864879 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
111864821 AAAAAGATAC
111864831 CAAG-TTA-ACTTACCATTTT
1 CAAGTTTAGACTTACCATTTT
*
111864850 CAAGTTTAGACTTACGATTTT
1 CAAGTTTAGACTTACCATTTT
111864871 CAAGTTTAG
1 CAAGTTTAG
111864880 GTACTAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 3 0.11
21 20 0.74
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (21 bp):
CAAGTTTAGACTTACCATTTT
Found at i:111865029 original size:28 final size:27
Alignment explanation
Indices: 111864964--111865032 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
111864954 TTAAGCCAAA
* * *
111864964 AATAATTTAATCAACTTTATAAATTTT
1 AATAATTTATTTAATTTTATAAATTTT
*
111864991 --TAATTTTTTTAATTTATATAAATTTT
1 AATAATTTATTTAATTT-TATAAATTTT
111865017 AATAATTTATTTAATT
1 AATAATTTATTTAATT
111865033 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 11 0.32
26 10 0.29
28 13 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
AATAATTTATTTAATTTTATAAATTTT
Found at i:111865039 original size:28 final size:26
Alignment explanation
Indices: 111864982--111865040 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
111864972 AATCAACTTT
* * *
111864982 ATAAATTTTTAATTTTTTTAATTTAT
1 ATAAATTTTTAATTTATTTAATTAAA
111865008 ATAAATTTTAATAATTTATTTAATTAAA
1 ATAAATTTT--TAATTTATTTAATTAAA
111865036 ATAAA
1 ATAAA
111865041 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.32
28 19 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAAATTTTTAATTTATTTAATTAAA
Found at i:111865252 original size:11 final size:11
Alignment explanation
Indices: 111865236--111865271 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
111865226 GCTAAAGCGA
111865236 TTTTCTTTTTC
1 TTTTCTTTTTC
*
111865247 TTTTCTTTTTT
1 TTTTCTTTTTC
111865258 TTTTC-TTTTC
1 TTTTCTTTTTC
111865268 TTTT
1 TTTT
111865272 GATGGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:111865260 original size:16 final size:16
Alignment explanation
Indices: 111865236--111865271 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
111865226 GCTAAAGCGA
111865236 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTC
*
111865252 TTTTTTTTTTCTTTTC
1 TTTTCTTTTTCTTTTC
111865268 TTTT
1 TTTT
111865272 GATGGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:111867901 original size:47 final size:47
Alignment explanation
Indices: 111867832--111867925 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
111867822 CTGATATATT
111867832 ACACTTAAACCCGAGTTTGAGTAACATAACTATATTAAATCTCTTCA
1 ACACTTAAACCCGAGTTTGAGTAACATAACTATATTAAATCTCTTCA
* *
111867879 ACACTTAAACCCGAGTTTGAGTAACATAACTGTATTAAATCTGTTCA
1 ACACTTAAACCCGAGTTTGAGTAACATAACTATATTAAATCTCTTCA
111867926 TGACTTTCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (47 bp):
ACACTTAAACCCGAGTTTGAGTAACATAACTATATTAAATCTCTTCA
Found at i:111875981 original size:245 final size:245
Alignment explanation
Indices: 111875537--111876518 Score: 1779
Period size: 245 Copynumber: 4.0 Consensus size: 245
111875527 CTAAATATAC
* *
111875537 TTGAAATTTCTCCA-TTCAAATTTGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
1 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
*
111875601 ATACATAGTGCGATACAGTCAAAACAAGGTATTTTAGTAAGAAAAGAATAGATACCTCAGAGACA
66 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAGAGACA
111875666 GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
131 GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
111875731 GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
196 GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
111875781 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
1 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
111875846 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAGAGACA
66 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAGAGACA
111875911 GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
131 GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
111875976 GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
196 GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
111876026 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
1 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
* * *
111876091 ATACATAGTGTGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACGTC-GAAGGC
66 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAG-AGAC
111876155 AGGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATA
130 AGGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATA
111876220 GGATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
195 GGATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
* * * *
111876271 TTCAAATTCCTCCATTTCAAATTCGATTTGAACCAAATATAGGGGATTTATTTGGTTATTAAATG
1 TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
* * *
111876336 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAAAAGATACCTCGGAGACG
66 ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAGAGACA
* * *
111876401 GGCGGATTCATCAACGGATTCTCTATCCCATCATTTGCCATCTAATTGATTTATGTTCGTTACAG
131 GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
**
111876466 GATAAGAAGATGGTTAGATTGCTGCTATTATTTTTAAGGGTGATAAATGG
196 GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
111876516 TTG
1 TTG
111876519 TCTGCCTTGT
Statistics
Matches: 714, Mismatches: 21, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
244 14 0.02
245 699 0.98
246 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (245 bp):
TTGAAATTCCTCCATTTCAAATTCGATTTGAACCAAAGATAGGGGATCTATTCGGTTATTAAATG
ATACATAGTGCGATACAGTCAAAACAAGGTATTATAGTAAGAAAAGAATAGATACCTCAGAGACA
GGCGGATTCATCAATGGATTCTCTATCCCATCTTTTGCCATCTAATTGATTTATGTTCGTTATAG
GATAAGAAGATGGTTAGATTGCCACTATTATTTTTAAGGGTGATAAATGG
Found at i:111885761 original size:94 final size:94
Alignment explanation
Indices: 111885584--111885779 Score: 277
Period size: 94 Copynumber: 2.1 Consensus size: 94
111885574 GATCCAATTT
111885584 AATTCTTGGGAGGTGAGTAGAGGTATTCATGGGACAGGCCGGGCTCAACTAAAAAATCATGCCCA
1 AATT-TTGGGAGGTGAGTAGAGGTATTCATGGGACAGGCCGGGCTCAACTAAAAAATCATGCCCA
** ***
111885649 TTTATTAGACCCGGGCCTAGTTGGGCCTAA
65 TTTATTAGACCCAAGCCTAACCGGGCCTAA
* * *
111885679 AATTTTGGGAGGTGAGTAGAGGTGTTCATGGG-CTGGGCCGGGCTCAACTAAAAAATCATGTCCA
1 AATTTTGGGAGGTGAGTAGAGGTATTCATGGGAC-AGGCCGGGCTCAACTAAAAAATCATGCCCA
* *
111885743 TTTATTGGATCCAAGCCTAACCGGGCCTAA
65 TTTATTAGACCCAAGCCTAACCGGGCCTAA
111885773 AATTTTG
1 AATTTTG
111885780 CCTAAACTCG
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 85 0.94
95 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (94 bp):
AATTTTGGGAGGTGAGTAGAGGTATTCATGGGACAGGCCGGGCTCAACTAAAAAATCATGCCCAT
TTATTAGACCCAAGCCTAACCGGGCCTAA
Found at i:111885862 original size:48 final size:48
Alignment explanation
Indices: 111885807--111885904 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
111885797 TAAAAATACT
111885807 TAAACTCGGGCCCAGCCCGGCTTGCATTAATTTCTTATATTATTTTTA
1 TAAACTCGGGCCCAGCCCGGCTTGCATTAATTTCTTATATTATTTTTA
111885855 TAAACTCGGGCCCAGCCCGGCTTGCATTAATTTCTTATATTATTTTTA
1 TAAACTCGGGCCCAGCCCGGCTTGCATTAATTTCTTATATTATTTTTA
111885903 TA
1 TA
111885905 TTATTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (48 bp):
TAAACTCGGGCCCAGCCCGGCTTGCATTAATTTCTTATATTATTTTTA
Found at i:111885905 original size:11 final size:11
Alignment explanation
Indices: 111885884--111885913 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
111885874 GCTTGCATTA
111885884 ATTTCTTATATT
1 ATTT-TTATATT
111885896 ATTTTTATATT
1 ATTTTTATATT
111885907 ATTTTTA
1 ATTTTTA
111885914 AATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTTTATATT
Found at i:111886159 original size:22 final size:22
Alignment explanation
Indices: 111886134--111886176 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
111886124 TATCTAAACA
111886134 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* * *
111886156 ATAATAATAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
111886177 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:111894420 original size:6 final size:6
Alignment explanation
Indices: 111894409--111894434 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
111894399 GGCGGAAATG
111894409 GTGGTT GTGGTT GTGGTT GTGGTT GT
1 GTGGTT GTGGTT GTGGTT GTGGTT GT
111894435 TGAGAGAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
GTGGTT
Found at i:111897781 original size:5 final size:5
Alignment explanation
Indices: 111897767--111897798 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
111897757 TTGTGTGTTC
111897767 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
111897799 TCACAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:111902217 original size:5 final size:5
Alignment explanation
Indices: 111902207--111902244 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
111902197 TTTGTGTGTT
111902207 TTTTA TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
111902245 TCACAATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:111902224 original size:15 final size:14
Alignment explanation
Indices: 111902205--111902244 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
111902195 AATTTGTGTG
111902205 TTTTTTATTTTATT
1 TTTTTTATTTTATT
*
111902219 TATTTTATTTTATT
1 TTTTTTATTTTATT
111902233 TTATTTTATTTT
1 TT-TTTTATTTT
111902245 TCACAATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTATTTTATT
Found at i:111902600 original size:21 final size:21
Alignment explanation
Indices: 111902557--111902600 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
111902547 TACACTATAT
* ** *
111902557 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
111902578 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
111902599 TT
1 TT
111902601 AACATGTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:111903015 original size:13 final size:13
Alignment explanation
Indices: 111902997--111903021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111902987 GTATAGTAAA
111902997 ATATTTTAAAAAT
1 ATATTTTAAAAAT
111903010 ATATTTTAAAAA
1 ATATTTTAAAAA
111903022 ATAGATATCA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTTAAAAAT
Found at i:111903190 original size:20 final size:20
Alignment explanation
Indices: 111903165--111903205 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
111903155 ATTGAAATAA
111903165 TGGAAAATTATTTTAAAAAT
1 TGGAAAATTATTTTAAAAAT
*
111903185 TGGAAAGTTATTTTAAAAAT
1 TGGAAAATTATTTTAAAAAT
111903205 T
1 T
111903206 AGAATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (20 bp):
TGGAAAATTATTTTAAAAAT
Found at i:111903467 original size:26 final size:23
Alignment explanation
Indices: 111903438--111903496 Score: 55
Period size: 26 Copynumber: 2.4 Consensus size: 23
111903428 TTTCACATAT
*
111903438 ATATATATATGCCCATAGCATTAGAA
1 ATATATATAT-CACATAGCA-TA-AA
* *
111903464 ATATCATTTATCAGATAGCATAAA
1 ATAT-ATATATCACATAGCATAAA
111903488 ATATATATA
1 ATATATATA
111903497 AGGGAATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 4 0.14
24 6 0.21
25 2 0.07
26 11 0.39
27 5 0.18
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (23 bp):
ATATATATATCACATAGCATAAA
Found at i:111906181 original size:15 final size:15
Alignment explanation
Indices: 111906161--111906191 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
111906151 TCAAGAGGGA
111906161 CCAAACTTTTCAGGC
1 CCAAACTTTTCAGGC
111906176 CCAAACTTTTCAGGC
1 CCAAACTTTTCAGGC
111906191 C
1 C
111906192 TAACCAAATC
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:0.35, G:0.13, T:0.26
Consensus pattern (15 bp):
CCAAACTTTTCAGGC
Found at i:111923331 original size:13 final size:13
Alignment explanation
Indices: 111923313--111923340 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
111923303 TCTTTCCCCT
111923313 CTTTATTTTCACA
1 CTTTATTTTCACA
111923326 CTTTATTTTCACA
1 CTTTATTTTCACA
111923339 CT
1 CT
111923341 GTTTTCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTTATTTTCACA
Found at i:111924394 original size:9 final size:9
Alignment explanation
Indices: 111924380--111924404 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
111924370 ACGTTATTGA
111924380 TGATTTATT
1 TGATTTATT
111924389 TGATTTATT
1 TGATTTATT
111924398 TGATTTA
1 TGATTTA
111924405 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (9 bp):
TGATTTATT
Found at i:111926887 original size:22 final size:23
Alignment explanation
Indices: 111926844--111926890 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
111926834 CATTCAAGAT
**
111926844 AAATAATATATAAAACTCTTTAA
1 AAATAATATATAAAACAATTTAA
111926867 AAATAATATAT-AAACAATTTAA
1 AAATAATATATAAAACAATTTAA
111926889 AA
1 AA
111926891 TATATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAATATATAAAACAATTTAA
Found at i:111926897 original size:25 final size:24
Alignment explanation
Indices: 111926846--111926998 Score: 89
Period size: 25 Copynumber: 6.2 Consensus size: 24
111926836 TTCAAGATAA
* *
111926846 ATAATATATAAAACTCTTTAAA-A-
1 ATAATATATAAAAAT-TTAAAATAT
111926869 ATAATATATAAACAATTTAAAATAT
1 ATAATATATAAA-AATTTAAAATAT
* * *
111926894 ATAATGTGTTAAAAAAAGTTTGAAATAT
1 ATAA--T-ATATAAAAA-TTTAAAATAT
* * *
111926922 ATAATATATGAAAATATTAAAGTAA
1 ATAATATATAAAAAT-TTAAAATAT
* **
111926947 ATAATGTATAAAAATTTAAAATGC
1 ATAATATATAAAAATTTAAAATAT
* * *
111926971 GT--TATATAAAAAGTTAAAATAG
1 ATAATATATAAAAATTTAAAATAT
111926993 ATAATA
1 ATAATA
111926999 ACAAAAAAAG
Statistics
Matches: 98, Mismatches: 22, Indels: 19
0.71 0.16 0.14
Matches are distributed among these distances:
22 17 0.17
23 17 0.17
24 13 0.13
25 29 0.30
26 1 0.01
27 3 0.03
28 18 0.18
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (24 bp):
ATAATATATAAAAATTTAAAATAT
Found at i:111927143 original size:17 final size:15
Alignment explanation
Indices: 111927103--111927148 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
111927093 ATATAAATAG
* *
111927103 AAATAAAAATATATT
1 AAATAGAAATATAAT
111927118 AAATAGAAATATAAT
1 AAATAGAAATATAAT
111927133 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
111927149 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:111927168 original size:15 final size:14
Alignment explanation
Indices: 111927118--111927175 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
111927108 AAAATATATT
111927118 AAATAGA-AATATAA
1 AAATAGATAA-ATAA
* * *
111927132 TAATAGTAGAAATAT
1 AAATAG-ATAAATAA
111927147 AAATAGATAAATAA
1 AAATAGATAAATAA
111927161 AAATTAGATAAATAA
1 AAA-TAGATAAATAA
111927176 TAGTATTAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 14 0.39
15 20 0.56
16 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AAATAGATAAATAA
Found at i:111927572 original size:32 final size:32
Alignment explanation
Indices: 111927531--111927615 Score: 147
Period size: 32 Copynumber: 2.7 Consensus size: 32
111927521 CGAATTTAAA
111927531 AAAAAAAATAAAGAAATTGAAATGAAATAGAC
1 AAAAAAAATAAAGAAATTGAAATGAAATAGAC
111927563 AAAAAAAATAAAGAAATTGAAATGAAATAGAC
1 AAAAAAAATAAAGAAATTGAAATGAAATAGAC
*
111927595 --AAAAAATAAAGAAATTCAAAT
1 AAAAAAAATAAAGAAATTGAAAT
111927616 AAAGAATACC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
30 20 0.38
32 32 0.62
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (32 bp):
AAAAAAAATAAAGAAATTGAAATGAAATAGAC
Found at i:111929470 original size:8 final size:9
Alignment explanation
Indices: 111929418--111929468 Score: 50
Period size: 9 Copynumber: 5.2 Consensus size: 9
111929408 CTTTTTACTC
111929418 TTTATATATT
1 TTTA-ATATT
111929428 TTT-ATAGTT
1 TTTAATA-TT
111929437 TTTAAATAAATT
1 TTT-AAT--ATT
111929449 TTTAATATT
1 TTTAATATT
111929458 TTTAATATT
1 TTTAATATT
111929467 TT
1 TT
111929469 AAAAGAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 19 0.53
10 3 0.08
11 5 0.14
12 5 0.14
13 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTAATATT
Found at i:111952555 original size:20 final size:20
Alignment explanation
Indices: 111952521--111952558 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
111952511 TCCCACATGG
111952521 TATAATGTAAAATAAAAGAA
1 TATAATGTAAAATAAAAGAA
111952541 TATAA-GTAAAGATAAAAG
1 TATAATGTAAA-ATAAAAG
111952559 CATCTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
TATAATGTAAAATAAAAGAA
Found at i:111955248 original size:25 final size:25
Alignment explanation
Indices: 111955220--111955267 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
111955210 ATTTTCGATT
*
111955220 TAAATTTTGATTTT-TTTATTTTTAC
1 TAAATTTT-ATTTTAGTTATTTTTAC
111955245 TAAATTTTATTTTAGTTATTTTT
1 TAAATTTTATTTTAGTTATTTTT
111955268 TAAATTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (25 bp):
TAAATTTTATTTTAGTTATTTTTAC
Found at i:111956101 original size:43 final size:43
Alignment explanation
Indices: 111956036--111956118 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
111956026 TGAATGTAAG
*
111956036 TTTTTCTACTTATTAATGGATATTGATCCACTGTATAAATAAA
1 TTTTTCTACTTATTAATAGATATTGATCCACTGTATAAATAAA
*
111956079 TTTTTCTACTTATTAATAGATATTGATCGACTGTATAAAT
1 TTTTTCTACTTATTAATAGATATTGATCCACTGTATAAAT
111956119 TATCAAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (43 bp):
TTTTTCTACTTATTAATAGATATTGATCCACTGTATAAATAAA
Found at i:111959535 original size:20 final size:22
Alignment explanation
Indices: 111959495--111959535 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
111959485 ATTATCAGGT
111959495 TTAATACTTTTTATTACCAATG
1 TTAATACTTTTTATTACCAATG
*
111959517 TTAATA-TTTTT-TTATCAAT
1 TTAATACTTTTTATTACCAAT
111959536 TATATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATACTTTTTATTACCAATG
Found at i:111961115 original size:25 final size:25
Alignment explanation
Indices: 111961056--111961117 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
111961046 AATAAATATT
* * * *
111961056 TTAAATACATTTTTATTTTTTTGAA
1 TTAAATAAATTTTAATTTTTATAAA
111961081 TTAATTATAAATTTTAATTTTTATAAA
1 TTAA--ATAAATTTTAATTTTTATAAA
111961108 TTAAATAAAT
1 TTAAATAAAT
111961118 ATTATCGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.32
27 21 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAAATAAATTTTAATTTTTATAAA
Found at i:111961640 original size:20 final size:20
Alignment explanation
Indices: 111961615--111961662 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
111961605 AAAATATTAG
111961615 TTAAAATTAATAAT-AGTATT
1 TTAAAATT-ATAATAAGTATT
* **
111961635 TTAAAAATATTTTAAGTATT
1 TTAAAATTATAATAAGTATT
111961655 TTAAAATT
1 TTAAAATT
111961663 TGTTAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TTAAAATTATAATAAGTATT
Found at i:111961668 original size:19 final size:19
Alignment explanation
Indices: 111961629--111961678 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
111961619 AATTAATAAT
111961629 AGTATTTTAAAAATATTTTA
1 AGTATTTT-AAAATATTTTA
111961649 AGTATTTTAAAAT-TTGTTA
1 AGTATTTTAAAATATT-TTA
*
111961668 A-TATATTAAAA
1 AGTATTTTAAAA
111961679 AGTTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 11 0.39
19 9 0.32
20 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (19 bp):
AGTATTTTAAAATATTTTA
Found at i:111961674 original size:20 final size:21
Alignment explanation
Indices: 111961625--111961674 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
111961615 TTAAAATTAA
111961625 TAATAGTATTTTAAAAATATTT
1 TAATA-TATTTTAAAAATATTT
*
111961647 TAA-GTATTTT-AAAAT-TTGT
1 TAATATATTTTAAAAATATT-T
111961666 TAATATATT
1 TAATATATT
111961675 AAAAAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 10 0.42
22 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TAATATATTTTAAAAATATTT
Found at i:111961687 original size:19 final size:18
Alignment explanation
Indices: 111961629--111961687 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
111961619 AATTAATAAT
111961629 AGTATTTTAAAAATATTTTA
1 AGTA-TTTAAAAAT-TTTTA
*
111961649 AGTATTTTAAAATTTGTTA
1 AGTATTTAAAAATTT-TTA
111961668 A-TATATTAAAAAGTTTTTA
1 AGTAT-TTAAAAA-TTTTTA
111961687 A
1 A
111961688 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.15
19 22 0.65
20 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
AGTATTTAAAAATTTTTA
Found at i:111961699 original size:28 final size:28
Alignment explanation
Indices: 111961667--111961744 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
111961657 AAAATTTGTT
111961667 AATATATTAAAAAGTTTTTAAAA-AATAA
1 AATAT-TTAAAAAGTTTTTAAAATAATAA
111961695 AATATTTAAATAA-TTTTGTAAAATTAATAA
1 AATATTTAAA-AAGTTTT-TAAAA-TAATAA
* *
111961725 AA-ATGTAAAAAGTATTTAAA
1 AATATTTAAAAAGTTTTTAAA
111961745 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
27 9 0.21
28 18 0.42
29 9 0.21
30 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (28 bp):
AATATTTAAAAAGTTTTTAAAATAATAA
Found at i:111961850 original size:21 final size:22
Alignment explanation
Indices: 111961826--111961874 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
111961816 TCTTATATTA
*
111961826 TTTAAATTTTTTTAAATAA-AT
1 TTTAAATATTTTTAAATAATAT
*
111961847 TTTAACTATTTTTAAATAATAT
1 TTTAAATATTTTTAAATAATAT
111961869 TATTAA
1 T-TTAA
111961875 TTTCAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 3 0.12
23 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATATTTTTAAATAATAT
Found at i:111961946 original size:14 final size:14
Alignment explanation
Indices: 111961904--111961949 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
111961894 TTATCATATT
*
111961904 TTTTTTGTAATTT-
1 TTTTTTATAATTTA
*
111961917 TATTTTTATAA-CTA
1 T-TTTTTATAATTTA
111961931 TTTTTTATAATTTA
1 TTTTTTATAATTTA
111961945 TTTTT
1 TTTTT
111961950 CTTGTCTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTTTATAATTTA
Found at i:111962229 original size:21 final size:21
Alignment explanation
Indices: 111962176--111962229 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
111962166 AAAAATGAAT
* * *
111962176 TATTCATTTTTAAGGGTTTAA
1 TATTTATTTTTTAGGATTTAA
*
111962197 TATTTATATTTTAGGATTTAA
1 TATTTATTTTTTAGGATTTAA
111962218 TGATTT-TTTTTT
1 T-ATTTATTTTTT
111962230 GTTTTAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (21 bp):
TATTTATTTTTTAGGATTTAA
Found at i:111963069 original size:9 final size:9
Alignment explanation
Indices: 111963057--111963082 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
111963047 AATAAAAACG
111963057 AACAATACT
1 AACAATACT
111963066 AACAATACT
1 AACAATACT
111963075 AACAATAC
1 AACAATAC
111963083 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (9 bp):
AACAATACT
Found at i:111966088 original size:18 final size:18
Alignment explanation
Indices: 111966065--111966101 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
111966055 AAGTTAGATG
111966065 TTTTTC-TTTTCTTCTCTT
1 TTTTTCGTTTTCTT-TCTT
111966083 TTTTTCGTTTTCTTTCTT
1 TTTTTCGTTTTCTTTCTT
111966101 T
1 T
111966102 CTTGTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCGTTTTCTTTCTT
Found at i:111972576 original size:129 final size:129
Alignment explanation
Indices: 111972270--111972577 Score: 384
Period size: 129 Copynumber: 2.4 Consensus size: 129
111972260 TTAAAAATCC
* * * * * *
111972270 ATGTCAGAATGAGGTACACTTGGCATGCCATGTGCAACTGTTTGGTTATTTTATACATTTTATCA
1 ATGTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTATGGTTATTCTATACATTTTATCA
* * * * * * *
111972335 AAAAGCAACTTGGTAATTTTATTAAAAATCTCATTCATTTCTACTATTAAGAATTGGTCCTTGA
66 AAAAGAAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAAAATTGGTCATTGA
* * * * * *
111972399 ACGTCAGAATGAGGTACACATGGCACGTCATGTGTAATTGTCTAGTTATTCTGTACATTTTATCA
1 ATGTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTATGGTTATTCTATACATTTTATCA
* * * *
111972464 AAAAGTAAAC-TGGCCACTCTATTAAAAGTTTCATTAATTTCTACTATTAAAAATTGGTCATTGT
66 AAAAG-AAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAAAATTGGTCATTGA
*
111972528 ATGTCAGAATGAGGTACACATGGCACGACATGTGTAACTATATGGTTATT
1 ATGTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTATGGTTATT
111972578 TTGTTAGCGT
Statistics
Matches: 151, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 148 0.98
130 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (129 bp):
ATGTCAGAATGAGGTACACATGGCACGACATGTGTAACTGTATGGTTATTCTATACATTTTATCA
AAAAGAAACTTGGCAACTCTATTAAAAATCTCATTAATTTCTACTATTAAAAATTGGTCATTGA
Found at i:111974352 original size:17 final size:17
Alignment explanation
Indices: 111974330--111974364 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
111974320 AGTTTAATAG
111974330 TGTGTTTAATTAGATTT
1 TGTGTTTAATTAGATTT
111974347 TGTGTTTAATTAGATTT
1 TGTGTTTAATTAGATTT
111974364 T
1 T
111974365 TATTTAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TGTGTTTAATTAGATTT
Found at i:111974566 original size:16 final size:14
Alignment explanation
Indices: 111974534--111974572 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
111974524 GATTTTTGTT
111974534 TTAA-TTATATATA
1 TTAATTTATATATA
111974547 TTAATTTATAGTATTA
1 TTAATTTATA-TA-TA
111974563 TTAATTTATA
1 TTAATTTATA
111974573 ACTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 5 0.22
15 2 0.09
16 12 0.52
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTAATTTATATATA
Found at i:111975190 original size:26 final size:27
Alignment explanation
Indices: 111975160--111975210 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
111975150 ATTTAATTTA
* *
111975160 ACTTAAATATAAATATA-AAATAAAGC
1 ACTTAAACATAAATAAATAAATAAAGC
*
111975186 ACTTAAGCATAAATAAATAAATAAA
1 ACTTAAACATAAATAAATAAATAAA
111975211 TAAAGAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (27 bp):
ACTTAAACATAAATAAATAAATAAAGC
Found at i:111976363 original size:12 final size:13
Alignment explanation
Indices: 111976346--111976386 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
111976336 GTGTGTTGAA
111976346 TACTGTTACTG-T
1 TACTGTTACTGAT
*
111976358 TACTGTTACTGCT
1 TACTGTTACTGAT
*
111976371 T-CCGTTACTGAT
1 TACTGTTACTGAT
111976383 TACT
1 TACT
111976387 ATTTAGGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (13 bp):
TACTGTTACTGAT
Found at i:111978816 original size:19 final size:20
Alignment explanation
Indices: 111978778--111978816 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
111978768 GGAAATTAAA
*
111978778 AATAGAAATGTCTAAAGTCTC
1 AATAGAAATATC-AAAGTCTC
111978799 AATAGAAATATC-AAGTCT
1 AATAGAAATATCAAAGTCT
111978817 ATTGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (20 bp):
AATAGAAATATCAAAGTCTC
Found at i:111986636 original size:4 final size:4
Alignment explanation
Indices: 111986623--111986656 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
111986613 GACTCAAATA
111986623 AATT AA-T AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AATT AAT
111986657 AAGAACCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:111988883 original size:14 final size:14
Alignment explanation
Indices: 111988864--111988896 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
111988854 ATTTTGTTTT
111988864 ATATAAAAATAA-TA
1 ATATAAAAA-AATTA
111988878 ATATAAAAAAATTA
1 ATATAAAAAAATTA
111988892 ATATA
1 ATATA
111988897 GGCGAGCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATAAAAAAATTA
Found at i:111990807 original size:49 final size:49
Alignment explanation
Indices: 111990735--111990833 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
111990725 GATTATAAAT
111990735 TTGTTTTATTTAGCTTTTCAGGTGAAAGAGTCACAAAGAAAAGTAAAGC
1 TTGTTTTATTTAGCTTTTCAGGTGAAAGAGTCACAAAGAAAAGTAAAGC
111990784 TTGTTTTATTTAGCTTTTCAGGTGAAAGAGTCACAAAGAAAAGTAAAGC
1 TTGTTTTATTTAGCTTTTCAGGTGAAAGAGTCACAAAGAAAAGTAAAGC
111990833 T
1 T
111990834 ACAAAAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (49 bp):
TTGTTTTATTTAGCTTTTCAGGTGAAAGAGTCACAAAGAAAAGTAAAGC
Found at i:111991555 original size:60 final size:60
Alignment explanation
Indices: 111991433--111991555 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 60
111991423 AATAATTATG
** * * * * * **
111991433 TAACTTTTCATAATTAGGTGATCGAAAAATAAATTTACTAATAGTTGAGTGGCTATTTTA
1 TAACTTTTCATAATTAAATGAACGAAAAAAAAATTTACTAATAATTAAGTGACTATAGTA
*
111991493 TAACTTTTCATAATTAAAT-AACTAAAAAAAAATTTACTAATAATTAAGTGACTATAAGTA
1 TAACTTTTCATAATTAAATGAACGAAAAAAAAATTTACTAATAATTAAGTGACTAT-AGTA
111991553 TAA
1 TAA
111991556 TTTACCTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 30 0.58
60 22 0.42
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (60 bp):
TAACTTTTCATAATTAAATGAACGAAAAAAAAATTTACTAATAATTAAGTGACTATAGTA
Found at i:111992633 original size:41 final size:41
Alignment explanation
Indices: 111992576--111992658 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
111992566 GTTCTACCAA
111992576 TTGCTTGGTAGACGATACTTCAAAGACTTTTTTCAAAATAG
1 TTGCTTGGTAGACGATACTTCAAAGACTTTTTTCAAAATAG
*
111992617 TTGCTTGGTAGACGATACTTCAAAGACTTTTTTCAAAGTAG
1 TTGCTTGGTAGACGATACTTCAAAGACTTTTTTCAAAATAG
111992658 T
1 T
111992659 CGGCTCTCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (41 bp):
TTGCTTGGTAGACGATACTTCAAAGACTTTTTTCAAAATAG
Found at i:111995174 original size:25 final size:25
Alignment explanation
Indices: 111995146--111995219 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 25
111995136 TCCTTCTCTG
111995146 TTTCGTTTTGCTCTCTGTTTCTTTC
1 TTTCGTTTTGCTCTCTGTTTCTTTC
** *
111995171 TTTC---TCCCTTCTCTGTTT-TGT-
1 TTTCGTTTTGC-TCTCTGTTTCTTTC
111995192 TTT-GTTTTGCTCTCTGTTTCTTTTC
1 TTTCGTTTTGCTCTCTGTTTC-TTTC
111995217 TTT
1 TTT
111995220 GTCATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
21 3 0.08
22 13 0.36
23 11 0.31
24 2 0.06
25 7 0.19
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (25 bp):
TTTCGTTTTGCTCTCTGTTTCTTTC
Found at i:111995193 original size:45 final size:45
Alignment explanation
Indices: 111995118--111995219 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 45
111995108 TTTTCTTTTC
*
111995118 TTTCTTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTTCTTTCCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
* *
111995163 TTTCTTTCTTT-CTCCCTTCTCTGT-TTTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCCTCCCTTC-CT-TCTCTGTTTCGTTTTGCTCTCTG
111995208 TTTCTTTTCTTT
1 TTTC-TTTCTTT
111995220 GTCATATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
44 7 0.14
45 36 0.71
46 8 0.16
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (45 bp):
TTTCTTTCTTTCCTCCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:111996481 original size:13 final size:13
Alignment explanation
Indices: 111996463--111996496 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
111996453 AACATAATTG
111996463 GAATTTGACAGAA
1 GAATTTGACAGAA
111996476 GAATTTGACAGAA
1 GAATTTGACAGAA
111996489 GAATTTGA
1 GAATTTGA
111996497 TTAGTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (13 bp):
GAATTTGACAGAA
Found at i:111996928 original size:26 final size:25
Alignment explanation
Indices: 111996882--111996934 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
111996872 AATATCTATA
111996882 TTATATCATTTTAATGTTTAATAATT
1 TTATATCATTTTAATGTTTAA-AATT
* *
111996908 TTATA-CATTTTTATTTATTAAAATT
1 TTATATCATTTTAATGT-TTAAAATT
111996933 TT
1 TT
111996935 TTATATAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATATCATTTTAATGTTTAAAATT
Found at i:111998060 original size:191 final size:192
Alignment explanation
Indices: 111997735--111998118 Score: 689
Period size: 191 Copynumber: 2.0 Consensus size: 192
111997725 ATGTTTAAGT
* *
111997735 TTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTCTTCAAGCCTAAT
1 TTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTATTCAAGCCTAAC
111997800 ATTTTTACCTAAATTCTCCTAAATTTTGGGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCAT
66 ATTTTTACCTAAATTCTCCTAAATTTTGGGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCAT
*
111997865 TAACAAGTCTACGTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTCC
131 TAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTCC
* *
111997927 TTAAGCTTGACTCATATTTTAAAAGGGTCT-AAATTTTTGTCCAATTTCATTATTCGAGCCTAAC
1 TTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTATTCAAGCCTAAC
* *
111997991 ATTTTTACCTAAATTCTCCTAAATTTTGGGTGGGTCTTCGGGTCTGGGTGGATAATCTAACCCAT
66 ATTTTTACCTAAATTCTCCTAAATTTTGGGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCAT
*
111998056 TAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATTCTCC
131 TAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTCC
111998118 T
1 T
111998119 ACACTAACAA
Statistics
Matches: 184, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
191 155 0.84
192 29 0.16
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (192 bp):
TTAAGCTCGACTCATATTTTAAAAGGGTCTAAAATTTTTGTCCAATTTCATTATTCAAGCCTAAC
ATTTTTACCTAAATTCTCCTAAATTTTGGGTGAGTCTTCGAGTCTGGGTGGATAATCTAACCCAT
TAACAAGTCTACCTATAAATAGAAAGATAATGTGCTTCAGTGCACTCAAACCTACATCCTCC
Found at i:112004441 original size:27 final size:28
Alignment explanation
Indices: 112004400--112004456 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
112004390 TTTGGTAATT
*
112004400 AACCTGAACTTTGAA-CCCCTGAACCCTG
1 AACCTGAACCTTGAATCCCC-GAACCCTG
*
112004428 AACCT-AACCTTGAATCCCCGAACCTTG
1 AACCTGAACCTTGAATCCCCGAACCCTG
112004455 AA
1 AA
112004457 TCATGAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (28 bp):
AACCTGAACCTTGAATCCCCGAACCCTG
Found at i:112005506 original size:40 final size:41
Alignment explanation
Indices: 112005454--112005545 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 41
112005444 TGAAAAATAT
112005454 TTATATTAAAAAACACTAC-TATAAATATAATAAATA-TTTTA
1 TTATATTAAAAAA-A-TACATATAAATATAATAAATATTTTTA
112005495 TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
1 TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
*
112005536 TTTTATTAAA
1 TTATATTAAA
112005546 TATAATTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
39 3 0.06
40 18 0.38
41 27 0.56
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (41 bp):
TTATATTAAAAAAATACATATAAATATAATAAATATTTTTA
Found at i:112008828 original size:63 final size:64
Alignment explanation
Indices: 112008709--112008831 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 64
112008699 CAGCTACAAG
* * * * **
112008709 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTGTTGGAGACACCTTGACTAATGCCAAA
1 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCAACTAATGCCAAA
* * * *
112008773 TTATTCCA-CTATAGTTGATTTTGAAGATTTTATTTTATTATACATACATCAACTAATGC
1 TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCAACTAATGC
112008832 AAACCTATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
63 41 0.84
64 8 0.16
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (64 bp):
TTATTCCATCTATAGTTGAATTTGAAGATTTAATTTTATTAGACACACATCAACTAATGCCAAA
Found at i:112014222 original size:18 final size:18
Alignment explanation
Indices: 112014195--112014319 Score: 151
Period size: 18 Copynumber: 6.9 Consensus size: 18
112014185 CCCAACTACT
*
112014195 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
112014213 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
112014231 ATATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
112014249 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* **
112014267 GTATACGTAAATAGTATT
1 GTATACGTGAATAGTACC
* *
112014285 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
112014303 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
112014320 TGTAAACGGT
Statistics
Matches: 86, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 86 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:112014247 original size:36 final size:36
Alignment explanation
Indices: 112014195--112014319 Score: 178
Period size: 36 Copynumber: 3.5 Consensus size: 36
112014185 CCCAACTACT
* * *
112014195 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
*
112014231 ATATACGTAAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
***
112014267 GTATACGTAAATAGTATTATATACGTGAATAGTGCC
1 GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
*
112014303 GTATACGTGAATAGTAC
1 GTATACGTAAATAGTAC
112014320 TGTAAACGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 79 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (36 bp):
GTATACGTAAATAGTACCGTATACGTGAATAGTGCC
Found at i:112014280 original size:54 final size:54
Alignment explanation
Indices: 112014195--112014319 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
112014185 CCCAACTACT
* * * *
112014195 GTATACGTGAACAGTACCGTATATGTGAATAGTGCCATATACGTAAATAGTACC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTACCATATACGTAAATAGTACC
* ** * *
112014249 GTATACGTGAATAGTGCCGTATACGTAAATAGTATTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTACCATATACGTAAATAGTACC
112014303 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
112014320 TGTAAACGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (54 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTACCATATACGTAAATAGTACC
Found at i:112016608 original size:15 final size:16
Alignment explanation
Indices: 112016577--112016610 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
112016567 TATTCTTTCA
*
112016577 TAATTTTTTATATGAT
1 TAATATTTTATATGAT
112016593 TAATATTTTA-ATGAT
1 TAATATTTTATATGAT
112016608 TAA
1 TAA
112016611 ACTGTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATATTTTATATGAT
Found at i:112017921 original size:29 final size:29
Alignment explanation
Indices: 112017888--112017960 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
112017878 TTGAGTTTTC
112017888 TTTGTTAAATTTTGCTA-TTAGCTTTGTAT-
1 TTTGTTAAATTTTG-TATTTAG-TTTGTATA
* *
112017917 TTTGTGAAAGTTTTGTATTTAGTTTTTATA
1 TTTGTTAAA-TTTTGTATTTAGTTTGTATA
*
112017947 TTTTTTAAATTTTG
1 TTTGTTAAATTTTG
112017961 AAAATTTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.62
Consensus pattern (29 bp):
TTTGTTAAATTTTGTATTTAGTTTGTATA
Found at i:112020292 original size:22 final size:24
Alignment explanation
Indices: 112020210--112020292 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 24
112020200 TAGTATTAGA
112020210 AATAATATAGTATAAAGATATATA-ATT
1 AATAATATA-TAT-AA-ATATATACA-T
*
112020237 GATAATAT-TA-AAATATATACAT
1 AATAATATATATAAATATATACAT
* *
112020259 AATATTATATATAAAT-TATTCAT
1 AATAATATATATAAATATATACAT
112020282 -ATAATATATAT
1 AATAATATATAT
112020293 TAAAAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 24 0.50
23 11 0.23
24 4 0.08
25 2 0.04
27 7 0.15
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AATAATATATATAAATATATACAT
Found at i:112020529 original size:120 final size:120
Alignment explanation
Indices: 112020399--112020619 Score: 283
Period size: 120 Copynumber: 1.9 Consensus size: 120
112020389 AAAAAGTAAA
* * *
112020399 TATAATAAAATGATATTAAAATAAAGTCATTAAAA-A-CAGTA-ATATATATATACAT-CTAAT-
1 TATAATAAAA--ATATTAAAATAAAGTAATAAAAATATCACTACATATATATATACATAC--ATG
* * * *
112020459 AAGAATATATAGTAATGT-TAATGATAATAATAATAATAATATTGAAATACAAAAGCTAT
62 AAG-ATATACACTAATGTACAATAATAATAATAATAATAATATTGAAATACAAAAGCTAT
*
112020518 TATAATAAAAATATTAAAATAAAGTAATAAAAATATTACTACATATATATATACATACATGAAGA
1 TATAATAAAAATATTAAAATAAAGTAATAAAAATATCACTACATATATATATACATACATGAAGA
112020583 TATACACTAATGTACAATAATAATAATAATAATAATA
66 TATACACTAATGTACAATAATAATAATAATAATAATA
112020620 ATAATAATAA
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
117 21 0.24
118 1 0.01
119 27 0.31
120 38 0.43
121 1 0.01
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (120 bp):
TATAATAAAAATATTAAAATAAAGTAATAAAAATATCACTACATATATATATACATACATGAAGA
TATACACTAATGTACAATAATAATAATAATAATAATATTGAAATACAAAAGCTAT
Found at i:112020606 original size:3 final size:3
Alignment explanation
Indices: 112020598--112020631 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
112020588 ACTAATGTAC
112020598 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
112020632 TTGAAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:112021123 original size:11 final size:12
Alignment explanation
Indices: 112021109--112021144 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
112021099 AAGAAAAAAA
112021109 GAAGAGAG-AGG
1 GAAGAGAGAAGG
112021120 GAAGAGAGAAGG
1 GAAGAGAGAAGG
112021132 G-AGAGAGAAGG
1 GAAGAGAGAAGG
112021143 GA
1 GA
112021145 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Done.