Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 34 of 50
Found at i:15195554 original size:2 final size:2
Alignment explanation
Indices: 15195538--15195579 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
15195528 CATACAAATC
15195538 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15195578 TA
1 TA
15195580 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15195689 original size:2 final size:2
Alignment explanation
Indices: 15195673--15195715 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
15195663 NNNNNNNNNN
15195673 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TGA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
15195714 TA
1 TA
15195716 ATTGGAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15195704 original size:17 final size:16
Alignment explanation
Indices: 15195673--15195715 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
15195663 NNNNNNNNNN
15195673 TATAT-TATA-ATATA
1 TATATATATATATATA
15195687 TATATATATATATGATA
1 TATATATATATAT-ATA
15195704 TATATATATATA
1 TATATATATATA
15195716 ATTGGAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.19
15 4 0.15
16 2 0.08
17 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TATATATATATATATA
Found at i:15209680 original size:57 final size:57
Alignment explanation
Indices: 15209616--15209731 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
15209606 CGACAAAGCA
* *
15209616 AATGAGAGCCTGGAATACCAAGTTAGACAACTCATTTTTATTAGAAATTCAATTTAG
1 AATGAGAGCCTGGAATACCAAGTTAGACAACTCAATTTTATCAGAAATTCAATTTAG
15209673 AATGAGAGCCTGGAATACCAAGTTAGACAACTCAATTTTATCAGAAATTCAATTTAG
1 AATGAGAGCCTGGAATACCAAGTTAGACAACTCAATTTTATCAGAAATTCAATTTAG
15209730 AA
1 AA
15209732 AAAAAGTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (57 bp):
AATGAGAGCCTGGAATACCAAGTTAGACAACTCAATTTTATCAGAAATTCAATTTAG
Found at i:15215431 original size:14 final size:13
Alignment explanation
Indices: 15215399--15215427 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15215389 GTTGAGAGAC
15215399 TATA-TTGAAAAA
1 TATATTTGAAAAA
15215411 TATATTTGAAAAA
1 TATATTTGAAAAA
15215424 TATA
1 TATA
15215428 ATTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
TATATTTGAAAAA
Found at i:15215883 original size:108 final size:108
Alignment explanation
Indices: 15215688--15215891 Score: 345
Period size: 108 Copynumber: 1.9 Consensus size: 108
15215678 AAATGACTAA
* *
15215688 ATATGTTAATTTGGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTCAACTC
1 ATATGTTAATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTAAACTC
* *
15215753 TTACCCAATTTACTTTTTATTTAAATTTACTGAAATTAGCAAC
66 TTACCCAATTTACCTTTCATTTAAATTTACTGAAATTAGCAAC
* * *
15215796 ATATGTTGATTTAGTTATAACTTTCACAATTTACAAATACACATTCTTTTGAAATTATTAAACTC
1 ATATGTTAATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTAAACTC
15215861 TTACCCAATTTACCTTTCATTTAAATTTACT
66 TTACCCAATTTACCTTTCATTTAAATTTACT
15215892 CAATTTCTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (108 bp):
ATATGTTAATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTAAAATTATTAAACTC
TTACCCAATTTACCTTTCATTTAAATTTACTGAAATTAGCAAC
Found at i:15222875 original size:29 final size:29
Alignment explanation
Indices: 15222837--15222906 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
15222827 AGAAAAGAGG
15222837 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
* *
15222866 TGTACGAGAATAGGTACAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAAGAAGC
*
15222895 TGTACATGAATA
1 TGTACAAGAATA
15222907 AGTATATGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.26, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAGGTACAAGAGAAGAAGC
Found at i:15223215 original size:26 final size:26
Alignment explanation
Indices: 15223186--15223260 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
15223176 AAGTAATACT
15223186 TGAAGTAGCGCTTCACTTGTTCTGCG
1 TGAAGTAGCGCTTCACTTGTTCTGCG
15223212 TGAAGTAGCGCTTCACTTGTTCTGCG
1 TGAAGTAGCGCTTCACTTGTTCTGCG
*
15223238 TGAAGTAACGCTTCACTTGTTCT
1 TGAAGTAGCGCTTCACTTGTTCT
15223261 AGTTATTCTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
TGAAGTAGCGCTTCACTTGTTCTGCG
Found at i:15223277 original size:35 final size:35
Alignment explanation
Indices: 15223231--15223304 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
15223221 GCTTCACTTG
*
15223231 TTCTGCGTGAAGTAACGCTTCACTTGTTCTAGTTA
1 TTCTGCGTGAAGTAACACTTCACTTGTTCTAGTTA
* *
15223266 TTCTGCGTGAAGTAACACTTCACTTGTTCTGGTTG
1 TTCTGCGTGAAGTAACACTTCACTTGTTCTAGTTA
15223301 TTCT
1 TTCT
15223305 CTATATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (35 bp):
TTCTGCGTGAAGTAACACTTCACTTGTTCTAGTTA
Found at i:15223654 original size:41 final size:41
Alignment explanation
Indices: 15223597--15223732 Score: 146
Period size: 41 Copynumber: 3.2 Consensus size: 41
15223587 TTTTTTTATC
*
15223597 AATATCTTTTGTAATATATGATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
* * **** ** *
15223638 AATATCTTTCGTAATATTTGATTGTATTTTTTTTTTTTAATGTC
1 AATATCTTTTGTAATATTTGATTG-ATTATGCAATAAT-AT-TT
*
15223682 AATATCTTTTGTAATATTTTATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
15223723 AATATCTTTT
1 AATATCTTTT
15223733 TCATAAAAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
41 33 0.46
42 8 0.11
43 8 0.11
44 23 0.32
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (41 bp):
AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
Found at i:15224530 original size:35 final size:35
Alignment explanation
Indices: 15224484--15224574 Score: 173
Period size: 35 Copynumber: 2.6 Consensus size: 35
15224474 AGTAAAAACT
15224484 TTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCAA
1 TTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCAA
*
15224519 TTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCAT
1 TTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCAA
15224554 TTTTAAGTGAAGCTCGCGGCA
1 TTTTAAGTGAAGCTCGCGGCA
15224575 CATTTTTAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (35 bp):
TTTTAAGTGAAGCTCGCGGCATGTGCCGCGAGCAA
Found at i:15227627 original size:431 final size:430
Alignment explanation
Indices: 15226824--15227684 Score: 1562
Period size: 431 Copynumber: 2.0 Consensus size: 430
15226814 AGAAACAACT
15226824 GTGAGAGTAGAACTTAAACTCGATTGAAGAGGAAGAAACTTTTGAAGCTGAGACTGAGGAAGAAT
1 GTGAGAGTAGAACTTAAACTCGATTGAAGAGGAAGAAACTTTTGAAGCTGAGACTGAGGAAGAAT
* *
15226889 CATGTGACTCTGAACGTAGTGATGAATTTGATAATGAGTCTGTTGATGTTGATGAAGCTAAAAAT
66 CATGTGACTCTGAACGTAGTGATGAATTTGATAATAAGTCTGTTAATGTTGATGAAGCTAAAAAT
*
15226954 GAGAGTGAGCTAGCCCCTTTTGATGATTTAATTGATTTGAATGTTCTATTTCCAAATCATGTTCA
131 GAGAGTGAGCTAGCCCCTTTTGATGATGTAATTGATTTGAATGTTCTATTTCCAAATCATGTTCA
15227019 GAGCTTTATTCCCCAAGTTATTCAAGATGAGGCTATTCTTAATACCGAGGTTGTTCCTAACACTG
196 GAGCTTTATTCCCCAAGTTATTCAAGATGAGGCTATTCTTAATACCGAGGTTGTTCCTAACACTG
15227084 AGGTTATTTCTGCTATTGAGATTGTACCTGATGTTAGAGTTGATGCTGGAGCTATTCTTGATGTT
261 AGGTTATTTCTGCTATTGAGATTGTACCTGATGTTAGAGTTGATGCTGGAGCTATTCTTGATGTT
*
15227149 GTCATCAATAATGTCGGAGCAACTTCCAATATTGAGGTTGTTCATGATGTTGGAGTTGTTACTAA
326 GTCATCAATAATGTCGGAGCAACTTCCAACATTGAGGTTGTTCATGATGTTGGAGTTGTTACTAA
*
15227214 TGATGCTAGAGCTACTCCGATTAATTCTCGTGCTTCTTCC
391 TGATGCTAGAGCTACTCCGATTAATTATCGTGCTTCTTCC
15227254 NGTGAGAGTAGAACTTAAACTCGATTGAAGAGGAAGAAACTTTTGAAGCTGAGACTGAGGAAGAA
1 -GTGAGAGTAGAACTTAAACTCGATTGAAGAGGAAGAAACTTTTGAAGCTGAGACTGAGGAAGAA
* * *
15227319 TCATGTGACTCTGAACGTAGTGATGAATTTGATGATAAGTCTGTTAATGTTGATGAAGCTGAAAG
65 TCATGTGACTCTGAACGTAGTGATGAATTTGATAATAAGTCTGTTAATGTTGATGAAGCTAAAAA
** * *
15227384 TGA-AGGTGAGCTAGCCCCTTTTGATGATGTCCTTGATTTGGATGTTCTATTTTCAAATCATGTT
130 TGAGA-GTGAGCTAGCCCCTTTTGATGATGTAATTGATTTGAATGTTCTATTTCCAAATCATGTT
15227448 CAGAGCTTTATTCCCCAAGTTATTCAAGATGAGGCTATTCTTAATACCGAGGTTGTTCCTAACAC
194 CAGAGCTTTATTCCCCAAGTTATTCAAGATGAGGCTATTCTTAATACCGAGGTTGTTCCTAACAC
* *
15227513 TGAGGTTATTTCTGCTGTTGAGATTGTACCTGATGTTAGAGTTGATGTTGGAGCTATTCTTGATG
259 TGAGGTTATTTCTGCTATTGAGATTGTACCTGATGTTAGAGTTGATGCTGGAGCTATTCTTGATG
15227578 TTGTCATCAATAATGTCGGAGCAACTTCCAACATTGAGGTTGTTCATGATGTTGGAGTTGTTACT
324 TTGTCATCAATAATGTCGGAGCAACTTCCAACATTGAGGTTGTTCATGATGTTGGAGTTGTTACT
*
15227643 AATGATGCTAGAGCTACTCCGTTTAATTATCGTGCTTCTTCC
389 AATGATGCTAGAGCTACTCCGATTAATTATCGTGCTTCTTCC
15227685 TCCCCAGTAC
Statistics
Matches: 414, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
430 1 0.00
431 413 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (430 bp):
GTGAGAGTAGAACTTAAACTCGATTGAAGAGGAAGAAACTTTTGAAGCTGAGACTGAGGAAGAAT
CATGTGACTCTGAACGTAGTGATGAATTTGATAATAAGTCTGTTAATGTTGATGAAGCTAAAAAT
GAGAGTGAGCTAGCCCCTTTTGATGATGTAATTGATTTGAATGTTCTATTTCCAAATCATGTTCA
GAGCTTTATTCCCCAAGTTATTCAAGATGAGGCTATTCTTAATACCGAGGTTGTTCCTAACACTG
AGGTTATTTCTGCTATTGAGATTGTACCTGATGTTAGAGTTGATGCTGGAGCTATTCTTGATGTT
GTCATCAATAATGTCGGAGCAACTTCCAACATTGAGGTTGTTCATGATGTTGGAGTTGTTACTAA
TGATGCTAGAGCTACTCCGATTAATTATCGTGCTTCTTCC
Found at i:15228631 original size:50 final size:50
Alignment explanation
Indices: 15228565--15228781 Score: 192
Period size: 50 Copynumber: 4.3 Consensus size: 50
15228555 TGGTCAAAGA
*
15228565 ATAAACGATAAAGCTTGCGACCAAAAGTATAATATCATTGCAGCCAAAAT
1 ATAAGCGATAAAGCTTGCGACCAAAAGTATAATATCATTGCAGCCAAAAT
* * ** *
15228615 ATGAGCGGTAAAGCTTGCGA-CTGAAGTAAGAATATCATTGCAGCCAAAAT
1 ATAAGCGATAAAGCTTGCGACCAAAAGT-ATAATATCATTGCAGCCAAAAT
* * * * * *
15228665 ATGAA-CGGTAAAGCTTGCGACTGAAGTAAGAATAATGAACAATG--GTCAAAGA-
1 AT-AAGCGATAAAGCTTGCGAC-CAA--AAGTATAAT-ATCATTGCAGCCAAA-AT
* * * *
15228717 ATAAGCAATAAAGCTTGCGACCAATAGTATAATATAATTACAGCCAAAAT
1 ATAAGCGATAAAGCTTGCGACCAAAAGTATAATATCATTGCAGCCAAAAT
15228767 ATAAGCGATAAAGCT
1 ATAAGCGATAAAGCT
15228782 AGCGGTTGAA
Statistics
Matches: 129, Mismatches: 26, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
48 3 0.02
49 13 0.10
50 74 0.57
51 5 0.04
52 21 0.16
53 5 0.04
54 8 0.06
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (50 bp):
ATAAGCGATAAAGCTTGCGACCAAAAGTATAATATCATTGCAGCCAAAAT
Found at i:15230021 original size:91 final size:90
Alignment explanation
Indices: 15229911--15230090 Score: 272
Period size: 91 Copynumber: 2.0 Consensus size: 90
15229901 TCCCTCTAAA
* * * *
15229911 TGAATTGTGAAGCTCTATATATAGTGCTAAAAGTGACTGTTAC-TCAAGAATAGGATTTAATGCG
1 TGAATTGTGAAGCTCTATATATAATGCTAAAAGTGACGGTTACAT-AAAAATAGGATTTAATACG
15229975 CCTAATAAATGACATTATTATGAAGNT
65 CCTAATAAATGACATTATTATGAAG-T
* *
15230002 TGAATTGTGAGGCTCTATATATAATGCTAAAAGTGACGGTTACATAAAAATAGGCTTTAATACGC
1 TGAATTGTGAAGCTCTATATATAATGCTAAAAGTGACGGTTACATAAAAATAGGATTTAATACGC
*
15230067 CTAATGAATGACATTATTATGAAG
66 CTAATAAATGACATTATTATGAAG
15230091 AATATTAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
91 80 0.99
92 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (90 bp):
TGAATTGTGAAGCTCTATATATAATGCTAAAAGTGACGGTTACATAAAAATAGGATTTAATACGC
CTAATAAATGACATTATTATGAAGT
Found at i:15230205 original size:29 final size:29
Alignment explanation
Indices: 15230167--15230236 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
15230157 AGAAAAGAGG
*
15230167 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGATACAAGAGAAGAAGC
* *
15230196 TGTACGAGAATAGATACAAGAGAATAAGC
1 TGTACAAGAATAGATACAAGAGAAGAAGC
*
15230225 TGTACATGAATA
1 TGTACAAGAATA
15230237 AGTATACGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAGATACAAGAGAAGAAGC
Found at i:15230247 original size:29 final size:28
Alignment explanation
Indices: 15230167--15230248 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 28
15230157 AGAAAAGAGG
* * *
15230167 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTAC-AGAATAAGTATACGAGAAGAAGC
*
15230196 TGTACGAGAAT-AG-ATACAAGAGAATAAGC
1 TGTAC-AGAATAAGTATAC--GAGAAGAAGC
15230225 TGTACATGAATAAGTATACGAGAA
1 TGTACA-GAATAAGTATACGAGAA
15230249 CAAGATAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
27 2 0.05
28 2 0.05
29 33 0.77
30 2 0.05
31 4 0.09
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (28 bp):
TGTACAGAATAAGTATACGAGAAGAAGC
Found at i:15230527 original size:26 final size:25
Alignment explanation
Indices: 15230497--15230578 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 25
15230487 TTTCTAATTG
* *
15230497 TTCTGCTTTAAGTAGTACTTCACTTA
1 TTCTGCGTGAAGTAGT-CTTCACTTA
*
15230523 TTCTGCGTGAAGTAACG-CTTCACTTG
1 TTCTGCGTGAAGT-A-GTCTTCACTTA
15230549 TTCTGCGTGAAGTAGCTCTTCACTTA
1 TTCTGCGTGAAGTAG-TCTTCACTTA
15230575 TTCT
1 TTCT
15230579 AATTATTCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 44 0.92
27 1 0.02
28 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (25 bp):
TTCTGCGTGAAGTAGTCTTCACTTA
Found at i:15232641 original size:29 final size:28
Alignment explanation
Indices: 15232594--15232674 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
15232584 ATACAAATTA
** *
15232594 AATAAAATATATATTAATTATTTTACCCAT
1 AATAAAA-ATATAAAAATTATTTTA-ACAT
* *
15232624 AATAAAAATATAAAAATTTAATTTAATAT
1 AATAAAAATATAAAAA-TTATTTTAACAT
15232653 AATAAAAA-ATAAAAATATATTT
1 AATAAAAATATAAAAAT-TATTT
15232675 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 11 0.26
29 17 0.40
30 14 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
AATAAAAATATAAAAATTATTTTAACAT
Found at i:15232668 original size:28 final size:28
Alignment explanation
Indices: 15232622--15232676 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
15232612 TATTTTACCC
*
15232622 ATAATAAAAATATAAAAATTTAATTTAAT
1 ATAATAAAAATATAAAAATAT-ATTTAAT
15232651 ATAATAAAAA-ATAAAAATATATTTAA
1 ATAATAAAAATATAAAAATATATTTAA
15232677 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 9 0.36
29 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAATAAAAATATAAAAATATATTTAAT
Found at i:15245739 original size:25 final size:26
Alignment explanation
Indices: 15245711--15245761 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
15245701 TTAGATCAAT
15245711 TAATGAGAAT-ATTATTCA-TTTTTTC
1 TAATGAG-ATCATTATTCAGTTTTTTC
*
15245736 TAATGAGATCATTATTGAGTTTTTTC
1 TAATGAGATCATTATTCAGTTTTTTC
15245762 CTTAGATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (26 bp):
TAATGAGATCATTATTCAGTTTTTTC
Found at i:15256256 original size:14 final size:14
Alignment explanation
Indices: 15256237--15256263 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15256227 TTTCTGAATA
15256237 TTACATAATAAGTG
1 TTACATAATAAGTG
15256251 TTACATAATAAGT
1 TTACATAATAAGT
15256264 CTAATGGAGC
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:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
TTACATAATAAGTG
Found at i:15259643 original size:20 final size:21
Alignment explanation
Indices: 15259618--15259659 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15259608 AAGTCAATTA
15259618 AATG-AAAAAAATATAATTTT
1 AATGAAAAAAAATATAATTTT
*
15259638 AATGAAAAAAAATTTAATTTT
1 AATGAAAAAAAATATAATTTT
15259659 A
1 A
15259660 TATTTTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AATGAAAAAAAATATAATTTT
Found at i:15259986 original size:251 final size:246
Alignment explanation
Indices: 15259151--15260362 Score: 905
Period size: 251 Copynumber: 4.9 Consensus size: 246
15259141 AATTTTAGTG
** * **
15259151 AAAAACAAACATTTAAATTTATATTATTGAGTTAAAAGTGTTTAATGATATA-CAAATTTTAATT
1 AAAAA-AAA-ATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACAATATATCAAATTTTAATT
* * * * * *
15259215 TTTAAATAAAGAATAATAAGAATAAAAATAATTATAG-CTAAACATTGCCATTA-AAAAAACTTA
64 TTTAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAA-ATTG-AAATAGAAAAATCTTA
* * * * *
15259278 ACGTAAAACTGTAAAAATTAATGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCCTAA
127 GCGTAAAACTGTAAAAATTGATGTAAAAACTTATAAAGGTG-AATAATTAAATTTTAAATCTTAA
* * * * * * *
15259343 CGTAAATATGTAAGAGT-TAACATAACAAGTTAATTAAGTAAAAAAAAAATCTAATTTTAGT
191 CGTAAATGTGTGAGA-TATAACGTAATAAGTCAATTAAG----AAAAAAAT-TAAATTTAAT
* * * *** **
15259404 GAAAAAACAAACATTTTAATTTTTATTCTTTGGCTAAAAGTGTTTAATGATATAT-AAATTTTAA
1 --AAAAA-AAA-ATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACAATATATCAAATTTTAA
* * * *
15259468 -TTTT---T----AAT-A-AA-GAT-AAAATAATTATAGTTCAAAA-T---AGAGAAAAGT-TTT
62 TTTTTAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGAAATAGAAAAATCTTA
* * * **
15259516 GACATAAAACTATAAGAATTAGCA--TAAAAACTTATAAAGGTGAAATAAACAAATTTTAAATCT
127 G-CGTAAAACTGTAAAAATT-G-ATGTAAAAACTTATAAAGGTG-AATAATTAAATTTTAAATCT
* * * *
15259579 TAACGTAAATATGTGAGAGT-TAACATAACAAGTCAATTAAATGAAAAAAATATAATTTTAAT
188 TAACGTAAATGTGTGAGA-TATAACGTAATAAGTCAATT-AA-GAAAAAAAT-TAAATTTAAT
* * * * **
15259641 GAAAAAAAATTTAATTTTATATTTTCAAGCTAATAGTGTTTAACGGTATATC-AATTTTAATTTT
1 AAAAAAAAATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACAATATATCAAATTTTAATTTT
* * * * *
15259705 TAAATAAAAAATAATGAGGATAAAAATAATTATTGTTTCAAATTGAAATAGAAAAACTTTTA-TG
66 TAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGAAATAGAAAAA-TCTTAGCG
* * **
15259769 TAAAACTGTAAGAATTGATGTAAAAACTTGTAAAGGTAGAATAATTAAATTTTAAATCTTATTGT
130 TAAAACTGTAAAAATTGATGTAAAAACTTATAAAGGT-GAATAATTAAATTTTAAATCTTAACGT
* *
15259834 AAATGTATGAGATATAACGTAATAAGTCAATTAAGAAAAAATTTTCTAAATTTAAT
194 AAATGTGTGAGATATAACGTAATAAGTCAATTAAGAAAAAA--AT-TAAATTTAAT
* *
15259890 AAAAAATAAATATTTAAATTTATA-TCTCGAGCTAAAAGTGTTTAACAATAT-TCAAATTTTAAT
1 -AAAAA-AAA-ATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACAATATATCAAATTTTAAT
* *
15259953 TTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAGAAAAATCTTAG
63 TTTTAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGAAATAGAAAAATCTTAG
*
15260018 CGTAAAACTGTAAAAATTGATGTAAAAACTTATAAAGGTGAAGTAATTAAATTTTAAATTTTAAC
128 CGTAAAACTGTAAAAATTGATGTAAAAACTTATAAAGGTGAA-TAATTAAATTTTAAATCTTAAC
* * * * *
15260083 GTAAATGTGTAAGA-ATTAATGTAATAAGTTAATTACGTAAAAAAATAAAATTTTAAT
192 GTAAATGTGTGAGATA-TAACGTAATAAGTCAATTAAG-AAAAAAATTAAA-TTTAAT
* * * *
15260140 GAAAAACAAACATTTATATTTATATTATCAAGCTAAAAGTATGTAA-AGATATAT-AAATTTTTA
1 -AAAAA-AAA-ATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACA-ATATATCAAATTTTAA
* * * * *
15260203 TTTTGAAATAAAAAATAATAAGGATACAGATGATTATAG-TTAAAAGTT-AATATTGAAAAGA-C
62 TTTTTAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAAA-TTGAA-ATAGAAAA-ATC
** * * * * ** * ** *
15260265 TT-GACGTAAAGTTATAAGAACTGATATAAAATTTTATAAAAGTGGAATAAGCAAATTTAAAATC
124 TTAG-CGTAAAACTGTAAAAATTGATGTAAAAACTTATAAAGGT-GAATAATTAAATTTTAAATC
** *
15260329 TTAACGTAAATACGTGAGAGT-TAACGTAACAAGT
187 TTAACGTAAATGTGTGAGA-TATAACGTAATAAGT
15260363 ACTAATAATA
Statistics
Matches: 785, Mismatches: 120, Indels: 108
0.77 0.12 0.11
Matches are distributed among these distances:
233 41 0.05
234 7 0.01
235 4 0.01
237 18 0.02
238 3 0.00
239 90 0.11
240 2 0.00
241 5 0.01
242 2 0.00
243 15 0.02
244 8 0.01
245 19 0.02
246 2 0.00
247 11 0.01
248 4 0.01
249 99 0.13
250 52 0.07
251 321 0.41
252 23 0.03
254 4 0.01
255 55 0.07
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (246 bp):
AAAAAAAAATTTAAATTTATATTATCAAGCTAAAAGTGTTTAACAATATATCAAATTTTAATTTT
TAAATAAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGAAATAGAAAAATCTTAGCGT
AAAACTGTAAAAATTGATGTAAAAACTTATAAAGGTGAATAATTAAATTTTAAATCTTAACGTAA
ATGTGTGAGATATAACGTAATAAGTCAATTAAGAAAAAAATTAAATTTAAT
Found at i:15260482 original size:34 final size:34
Alignment explanation
Indices: 15260444--15260524 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
15260434 TTTAACATAA
15260444 AAAATAAAATAAAATTAAAAGTTAAATAACTTTT
1 AAAATAAAATAAAATTAAAAGTTAAATAACTTTT
15260478 AAAATAAAATAAAATTAAAAGTTAAATAACTTTT
1 AAAATAAAATAAAATTAAAAGTTAAATAACTTTT
15260512 AAAATAAAATAAA
1 AAAATAAAATAAA
15260525 TAAGTTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (34 bp):
AAAATAAAATAAAATTAAAAGTTAAATAACTTTT
Found at i:15260521 original size:17 final size:16
Alignment explanation
Indices: 15260444--15260524 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 16
15260434 TTTAACATAA
15260444 AAAATAAAATAAAATT
1 AAAATAAAATAAAATT
* **
15260460 AAAAGTTAAATAACTTTT
1 AAAA-TAAAATAA-AATT
15260478 AAAATAAAATAAAATT
1 AAAATAAAATAAAATT
* **
15260494 AAAAGTTAAATAACTTTT
1 AAAA-TAAAATAA-AATT
15260512 AAAATAAAATAAA
1 AAAATAAAATAAA
15260525 TAAGTTTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
16 10 0.20
17 28 0.56
18 12 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:15260526 original size:21 final size:21
Alignment explanation
Indices: 15260500--15260539 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15260490 AATTAAAAGT
*
15260500 TAAATAACTTTTAAAATAAAA
1 TAAATAACTTTAAAAATAAAA
*
15260521 TAAATAAGTTTAAAAATAA
1 TAAATAACTTTAAAAATAA
15260540 TTTTTGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAATAACTTTAAAAATAAAA
Found at i:15260875 original size:19 final size:18
Alignment explanation
Indices: 15260848--15260886 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15260838 TATTAATATG
* *
15260848 AAATTTTATTATATTTCAT
1 AAATATTATGATATTT-AT
15260867 AAATATTATGATATTTAT
1 AAATATTATGATATTTAT
15260885 AA
1 AA
15260887 GTTTTGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATATTATGATATTTAT
Found at i:15272266 original size:2 final size:2
Alignment explanation
Indices: 15272259--15272284 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15272249 TTTTAGGTGT
15272259 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15272285 ATTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15283899 original size:33 final size:34
Alignment explanation
Indices: 15283818--15283889 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
15283808 TAGAAGAAAG
*
15283818 TGATCTAAAGATACAACAAAGAGTTTCAGTTTAT
1 TGATCTAAAGATACAACAAACAGTTTCAGTTTAT
15283852 TGATCTAAAGATACAACAAACAGTTTCAGTTTA-
1 TGATCTAAAGATACAACAAACAGTTTCAGTTTAT
15283885 TGATC
1 TGATC
15283890 CTACAATACA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (34 bp):
TGATCTAAAGATACAACAAACAGTTTCAGTTTAT
Found at i:15289556 original size:30 final size:30
Alignment explanation
Indices: 15289489--15289561 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
15289479 TTTAAATATT
*
15289489 TTAAATAAA-A-TTTTATTTGTTATTACAT
1 TTAAATAAATATTTTTATTTGTTATTACAA
*
15289517 TTAATTAAATATTTTTATTT-TTATTTTA-AA
1 TTAAATAAATATTTTTATTTGTTA--TTACAA
*
15289547 TTAAATAAATCTTTT
1 TTAAATAAATATTTT
15289562 ATAATTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 8 0.22
29 4 0.11
30 22 0.59
31 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TTAAATAAATATTTTTATTTGTTATTACAA
Found at i:15292318 original size:28 final size:27
Alignment explanation
Indices: 15292235--15292335 Score: 112
Period size: 28 Copynumber: 3.7 Consensus size: 27
15292225 TCATGACGTA
* * *
15292235 TAACAATTATATTTTTTAACATGATGTG
1 TAACAACTA-ATTTTTTAATATGATATG
* * *
15292263 TAACAACTAAATTTTCAATATAATATG
1 TAACAACTAATTTTTTAATATGATATG
*
15292290 TAACAACTACATTTTTTAATATGACATG
1 TAACAACTA-ATTTTTTAATATGATATG
*
15292318 TAACAACTAAATTTTTAA
1 TAACAACTAATTTTTTAA
15292336 AATTACATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 30 0.49
28 31 0.51
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (27 bp):
TAACAACTAATTTTTTAATATGATATG
Found at i:15292343 original size:27 final size:27
Alignment explanation
Indices: 15292261--15292362 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
15292251 TAACATGATG
* *
15292261 TGTAACAACTAAATTTTCAATATAATA
1 TGTAACAACTAAATTTTTAATATAACA
* *
15292288 TGTAACAACTACATTTTTTAATATGACA
1 TGTAACAACTA-AATTTTTAATATAACA
* *
15292316 TGTAACAACTAAATTTTTAAAATTACA
1 TGTAACAACTAAATTTTTAATATAACA
* * * *
15292343 TATAATAATTAAATCTTTAA
1 TGTAACAACTAAATTTTTAA
15292363 CATAGCGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 40 0.63
28 23 0.37
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (27 bp):
TGTAACAACTAAATTTTTAATATAACA
Found at i:15292375 original size:27 final size:27
Alignment explanation
Indices: 15292343--15292407 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
15292333 TAAAATTACA
*
15292343 TATAATAATTAAATCTTTAACAT-AGCG
1 TATAATAATTAAATCTTCAACATGA-CG
*
15292370 TGTAATAATTAAATCTTCAACATGACG
1 TATAATAATTAAATCTTCAACATGACG
15292397 TATAATAATTA
1 TATAATAATTA
15292408 CATTTTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (27 bp):
TATAATAATTAAATCTTCAACATGACG
Found at i:15293630 original size:30 final size:30
Alignment explanation
Indices: 15293555--15293649 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
15293545 AAAAAAATTT
* *
15293555 AAATAAACTCTTATACTTTTA--TTGTGTT
1 AAATAAACTCTTATACTTTTATTTTGAGTC
15293583 AAATCAAA-TCCTTATACTTTTATTTTGAGTC
1 AAAT-AAACT-CTTATACTTTTATTTTGAGTC
* * *
15293614 AAATAAACTTTTATACTTTCATTTTGATTC
1 AAATAAACTCTTATACTTTTATTTTGAGTC
15293644 AAATAA
1 AAATAA
15293650 GTCAAAATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
28 5 0.09
29 15 0.26
30 27 0.47
31 10 0.18
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (30 bp):
AAATAAACTCTTATACTTTTATTTTGAGTC
Found at i:15293766 original size:33 final size:33
Alignment explanation
Indices: 15293702--15293766 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
15293692 TAATATGCTA
* *
15293702 ACATATCATAATTGATGATGATGCAACATGTTG
1 ACATATCATAATTGATGATAACGCAACATGTTG
*
15293735 ACATATCATAATTGGTGATAACGCGAA-ATGTT
1 ACATATCATAATTGATGATAACGC-AACATGTT
15293767 AATTTGACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
ACATATCATAATTGATGATAACGCAACATGTTG
Found at i:15293916 original size:30 final size:28
Alignment explanation
Indices: 15293880--15293954 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
15293870 GTAATTAGTC
*
15293880 ATAAAAATTTATTTAATCCAAAATAAAAAT
1 ATAAAAATTTATTTAAACC--AATAAAAAT
* * *
15293910 ATAAAAATTTAATTAAACCTATAAAAGT
1 ATAAAAATTTATTTAAACCAATAAAAAT
*
15293938 ACAAAAATTTATTTAAA
1 ATAAAAATTTATTTAAA
15293955 TTTTCTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.56
30 17 0.44
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (28 bp):
ATAAAAATTTATTTAAACCAATAAAAAT
Found at i:15303657 original size:11 final size:10
Alignment explanation
Indices: 15303628--15303677 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
15303618 TATATATTTA
15303628 TTTTTATTAT
1 TTTTTATTAT
*
15303638 CTTTTATTAT
1 TTTTTATTAT
15303648 TTTTTAATTAT
1 TTTTT-ATTAT
**
15303659 TCATTATT-T
1 TTTTTATTAT
15303668 TTTTTATTAT
1 TTTTTATTAT
15303678 ATACATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.22
10 17 0.53
11 8 0.25
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:15305255 original size:48 final size:48
Alignment explanation
Indices: 15305191--15305319 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
15305181 TTTTAAGAAT
* * *
15305191 TGAAATTCCTAAACTTGATATAGGCTCGACCTACAGGTTCGATTGAAG
1 TGAAATTCCTAGACTTGATCTAGGCTCGACCTACAGGTTCGATTAAAG
* * * * *
15305239 TGAAATCCCTAGACTTGATCTGGGCTAGATCTACAGGTTTGATTAAAG
1 TGAAATTCCTAGACTTGATCTAGGCTCGACCTACAGGTTCGATTAAAG
* *
15305287 TGAAATTCTTGGACTTGATCTAGGCTCGACCTA
1 TGAAATTCCTAGACTTGATCTAGGCTCGACCTA
15305320 TTTCAAAACA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (48 bp):
TGAAATTCCTAGACTTGATCTAGGCTCGACCTACAGGTTCGATTAAAG
Found at i:15305380 original size:60 final size:59
Alignment explanation
Indices: 15305287--15305398 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
15305277 TTGATTAAAG
* * **
15305287 TGAAATTCTTGGACTTGATCTAGGCTCGACCTAT-TTCAAAACAAGTTCGATTTTAAGAAT
1 TGAAATTCCTAGACTTGATCTAAACTCGACCTATCTT-AAAA-AAGTTCGATTTTAAGAAT
*
15305347 TGAAATTCCTAGACTTGATCTAAACTCGACCTATCTTAAAAAGGTTCGATTT
1 TGAAATTCCTAGACTTGATCTAAACTCGACCTATCTTAAAAAAGTTCGATTT
15305399 AATATCATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
59 10 0.22
60 34 0.74
61 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (59 bp):
TGAAATTCCTAGACTTGATCTAAACTCGACCTATCTTAAAAAAGTTCGATTTTAAGAAT
Found at i:15322466 original size:33 final size:34
Alignment explanation
Indices: 15322423--15322487 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
15322413 TACTCTCTAT
15322423 CTCTCATTTTT-CATTGTATTTTTTATTTTTTGTG
1 CTCTCATTTTTACATT-TATTTTTTATTTTTTGTG
* *
15322457 CTCTC-TTTTTAGATTTTTTTTTTATTTTTTG
1 CTCTCATTTTTACATTTATTTTTTATTTTTTG
15322488 ATTATGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.11, C:0.11, G:0.08, T:0.71
Consensus pattern (34 bp):
CTCTCATTTTTACATTTATTTTTTATTTTTTGTG
Found at i:15327448 original size:17 final size:18
Alignment explanation
Indices: 15327426--15327460 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
15327416 CATACTTAAA
15327426 TAAATTTAATA-ATATTT
1 TAAATTTAATATATATTT
15327443 TAAATTTAATATATATTT
1 TAAATTTAATATATATTT
15327461 ATTGAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAATTTAATATATATTT
Found at i:15327495 original size:16 final size:16
Alignment explanation
Indices: 15327470--15327502 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15327460 TATTGAATAA
15327470 TTTTAATAATTTAAAT
1 TTTTAATAATTTAAAT
*
15327486 TTTTATTAATTTAAAT
1 TTTTAATAATTTAAAT
15327502 T
1 T
15327503 CGATTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATAATTTAAAT
Found at i:15328189 original size:6 final size:6
Alignment explanation
Indices: 15328178--15328203 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15328168 TTACTAAGTA
15328178 GTGAAT GTGAAT GTGAAT GTGAAT GT
1 GTGAAT GTGAAT GTGAAT GTGAAT GT
15328204 TCCTCAAGTA
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:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (6 bp):
GTGAAT
Found at i:15328258 original size:56 final size:56
Alignment explanation
Indices: 15328187--15328297 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
15328177 AGTGAATGTG
* * * *
15328187 AATGTGAATGTGAATGTTCCTCAAGTAGCTTCCATGATTAGTTTATTACTTAGCCT
1 AATGTGAATGGGAATGTCCCTCAAGTAGCTTCCATGATTACTTTATCACTTAGCCT
*
15328243 AATGTGAATGGGAATGTCCCTTAAGTAGCTTCCATGATTACTTTATCACTTAGCC
1 AATGTGAATGGGAATGTCCCTCAAGTAGCTTCCATGATTACTTTATCACTTAGCC
15328298 CATATATTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (56 bp):
AATGTGAATGGGAATGTCCCTCAAGTAGCTTCCATGATTACTTTATCACTTAGCCT
Found at i:15345320 original size:10 final size:11
Alignment explanation
Indices: 15345297--15345331 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
15345287 GCCTTTTTTT
15345297 AAAATTAATAA
1 AAAATTAATAA
15345308 AAAATTAATAA
1 AAAATTAATAA
*
15345319 AAAATTGATAA
1 AAAATTAATAA
15345330 AA
1 AA
15345332 TTATAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAATTAATAA
Found at i:15347252 original size:17 final size:16
Alignment explanation
Indices: 15347228--15347264 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
15347218 ATTTTGTCAA
*
15347228 TTTTTTTATTTTTTCT
1 TTTTTTTATTTTTACT
15347244 TTTTATTTATTTTTACT
1 TTTT-TTTATTTTTACT
15347261 TTTT
1 TTTT
15347265 CTCAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTATTTTTACT
Found at i:15351265 original size:17 final size:17
Alignment explanation
Indices: 15351240--15351274 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15351230 TTATTATATT
15351240 ATTAAAATTAAATAATA
1 ATTAAAATTAAATAATA
* *
15351257 ATTATAATTAATTAATA
1 ATTAAAATTAAATAATA
15351274 A
1 A
15351275 AAAAATAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAAATTAAATAATA
Found at i:15351667 original size:17 final size:17
Alignment explanation
Indices: 15351645--15351677 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15351635 TATTTAGGAA
15351645 AAATTGAACAA-ATAACT
1 AAATTG-ACAAGATAACT
15351662 AAATTGACAAGATAAC
1 AAATTGACAAGATAAC
15351678 ATATATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (17 bp):
AAATTGACAAGATAACT
Found at i:15352195 original size:25 final size:27
Alignment explanation
Indices: 15352167--15352225 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
15352157 TTTTTTTATT
* *
15352167 TTATTT-TTTTAAA-ATTAATAATTGA
1 TTATTTATTTAAAATATTAATAATAGA
15352192 TTATTTATTTAAAATATTAATAATAGA
1 TTATTTATTTAAAATATTAATAATAGA
*
15352219 TAATTTA
1 TTATTTA
15352226 ATTATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 17 0.59
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TTATTTATTTAAAATATTAATAATAGA
Found at i:15352241 original size:72 final size:71
Alignment explanation
Indices: 15352163--15352329 Score: 189
Period size: 72 Copynumber: 2.3 Consensus size: 71
15352153 TATTTTTTTT
*
15352163 TATTTTATTT-TTTTAAA-ATTAATAATTGATT-ATTTATTTAAAATATTAATAATAGATAATTT
1 TATTTTATTTAATTTAAATATT-ATAA-TGATTAATTT-TTTAAAATATTAATAATAGATAATTT
*
15352225 AATTATTAA
63 AAATATTAA
* *** *
15352234 TATTTTTATTTAATTTAAATATTATTATGATTAATTTTTTATTTTATTAATAATTGATAATTTAA
1 TA-TTTTATTTAATTTAAATATTATAATGATTAATTTTTTAAAATATTAATAATAGATAATTTAA
15352299 ATATTAA
65 ATATTAA
15352306 TATTTTATTTATAATTT-AATATTA
1 TATTTTA-TT-TAATTTAAATATTA
15352330 ATATTTTATT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
71 7 0.08
72 54 0.65
73 19 0.23
74 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (71 bp):
TATTTTATTTAATTTAAATATTATAATGATTAATTTTTTAAAATATTAATAATAGATAATTTAAA
TATTAA
Found at i:15352254 original size:19 final size:20
Alignment explanation
Indices: 15352221--15352261 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15352211 ATAATAGATA
* *
15352221 ATTTAATTATTAATATTTTT
1 ATTTAATTATAAATATTATT
15352241 ATTTAATT-TAAATATTATT
1 ATTTAATTATAAATATTATT
15352260 AT
1 AT
15352262 GATTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTAATTATAAATATTATT
Found at i:15352331 original size:25 final size:26
Alignment explanation
Indices: 15352290--15352339 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
15352280 TTAATAATTG
15352290 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
15352316 ATAATTT-AATATTAATATTTTATT
1 ATAATTTAAATATTAATATTTTATT
15352340 AAAAGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:15353222 original size:12 final size:13
Alignment explanation
Indices: 15353200--15353238 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15353190 CCACGTGAAG
15353200 AGTATAGAAAAAA
1 AGTATAGAAAAAA
15353213 AGTA-AGAAAAAA
1 AGTATAGAAAAAA
* *
15353225 ATTATATAAAAAA
1 AGTATAGAAAAAA
15353238 A
1 A
15353239 CAAAATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (13 bp):
AGTATAGAAAAAA
Found at i:15355620 original size:6 final size:6
Alignment explanation
Indices: 15355609--15355633 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15355599 GAGTAGTAGT
15355609 GATGAC GATGAC GATGAC GATGAC G
1 GATGAC GATGAC GATGAC GATGAC G
15355634 TTATTGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGAC
Found at i:15357396 original size:428 final size:432
Alignment explanation
Indices: 15356539--15357749 Score: 1740
Period size: 428 Copynumber: 2.8 Consensus size: 432
15356529 AATCATGTTT
* * * *
15356539 GACTCTAAGTGTCCCTTTGGTTCTTTTAGTTTTAGTTTCTTTTGTCAGCTATTCTTTTAATAATA
1 GACTTTAAGTCTCCCTTTGGTTCTTTTAGTTTTAATTTCTTTTGTTAGCTATTCTTTTAATAATA
*
15356604 AAAAGGGACAATTTCAACTCTGTTTACAAGAATAAAAGAGTAAGTAACATATTTGCACAACTTTT
66 AAAAGGGACAATTTCAGCTCTGTTTACAAGAAT--AA-AGTAA-T-A-ATATTTG-ACAACTTTT
* *
15356669 ATTGAAGATGGAAGTGAAGAAACTTGGACCTTTGTTTATTATATTAGTTATGATAATGCTTGATC
124 ATTGAAGATGGAAGTGAAGAAACTTGGACCTTTGTTTATGATATTAGTTATGATAATGTTTGATC
* * * *
15356734 TTTGGAACGTATTAGGCAATATACTGGAGTAAACTCTTGAATCTTTATTAACAAAATCCTTATGT
189 TTTGGAACATATTAGGCAATATAGTGGAGTAAACTCTTGAATGTTTATTAACAAAATCCTTATAT
* * ** *
15356799 TTTAAGCTTCTTAGATAGAATACATAAGGATTTTCTTTGT-TACCTATGTACTCCTTTAATTATC
254 TTTAAGCTTCTTAGATATAATACATAAGGATTTTTTTTGTCT-TGTATGTACTCCATTAATTATC
* ** *
15356863 TTTTAGAAATAAGATGCAAAACTTCTTGGTTATTTCTAAGATCTTCTAGGCACAGTTAATGTTGT
318 TTTTAGAAATAAGATGCAAAACATCTTGGTTATTAATAAGATCTTCTAGGCACAATTAATGTTGT
*
15356928 CAGTAGAAAAATAACTATATGTTTATATATCTGCACAAAAAAGCATGCTC
383 CAGTAGAAAAATAACTATATGTTTATACATCTGCACAAAAAAGCATGCTC
15356978 GACTTTAAGTCTCCCTTTGGTTCTTTTAGTTCTTAATTTCTTTTGTTAGCTATTCTTTTAATAAT
1 GACTTTAAGTCTCCCTTTGGTTCTTTTAGTT-TTAATTTCTTTTGTTAGCTATTCTTTTAATAAT
*
15357043 AAAAAAGGACAATTTCAGCTCTGTTTACAAGAAT-AA-T-AT-AT-TTGTG-CAACTTTTATTGA
65 AAAAAGGGACAATTTCAGCTCTGTTTACAAGAATAAAGTAATAATATT-TGACAACTTTTATTGA
* * *
15357102 AGATGGAAGAGAAGAAACTTGGACCGTTGTTTATGATGTTAGTTATGATAATGTTTGATCTTTGG
129 AGATGGAAGTGAAGAAACTTGGACCTTTGTTTATGATATTAGTTATGATAATGTTTGATCTTTGG
*
15357167 AACATATTAGGCCATATAGTGGAGTAAACTCTTGAATGTTTATTAACAAAATCCTTATATTTTAA
194 AACATATTAGGCAATATAGTGGAGTAAACTCTTGAATGTTTATTAACAAAATCCTTATATTTTAA
*
15357232 GCTTCATAGATATAATACATAAGGATTTTTTTTGTCTTGTATGTACTCCATTAATTCA-CTTTTA
259 GCTTCTTAGATATAATACATAAGGATTTTTTTTGTCTTGTATGTACTCCATTAATT-ATCTTTTA
*
15357296 GAAATAAGATGCAAAACATCTTTGTTATTAATAAGATCTTCTAGGCACAATTAATGTTGTCAGTA
323 GAAATAAGATGCAAAACATCTTGGTTATTAATAAGATCTTCTAGGCACAATTAATGTTGTCAGTA
* *
15357361 GAAAAATATA-TATATGTTTGTACATCTAG-ACAAAAAAGCATGCTT
388 GAAAAATA-ACTATATGTTTATACATCT-GCACAAAAAAGCATGCTC
*
15357406 GACTTTAAGTCTCCCTTTGGTTCTTTTAGTTTTTAATTTCTTTTGTTAACTATTCTTTTAATAAT
1 GACTTTAAGTCTCCCTTTGGTTCTTTTAG-TTTTAATTTCTTTTGTTAGCTATTCTTTTAATAAT
15357471 AAAAAGGGACAATTTCAGCTCTGTTTACAAGAATTAAAAAAAGTAAATAATATATTGGCACTAAA
65 AAAAAGGGACAATTTCAGCTCTGTTTACAAGAA-T----AAAGT-AATAATAT-TT-G-AC--AA
* *
15357536 CTTTTATTGAAGATGAAAGTGAAGAAACTTGGACTTTTGTTTATGATATTAGTTATGATAATGTT
119 CTTTTATTGAAGATGGAAGTGAAGAAACTTGGACCTTTGTTTATGATATTAGTTATGATAATGTT
* *
15357601 TGATCTTTGGAACATATTAGGCGATATAGTGGAGTAAACTCTTGTATGTTTATTAACAAAATCCT
184 TGATCTTTGGAACATATTAGGCAATATAGTGGAGTAAACTCTTGAATGTTTATTAACAAAATCCT
* * * *
15357666 TATAGTTTTAAGCTTCTTTGATTTAATGCATAAGGATTTTTTTTTGTCTTGTATGTACTCCAATA
249 TATA-TTTTAAGCTTCTTAGATATAATACATAAGGA-TTTTTTTTGTCTTGTATGTACTCCATTA
* *
15357731 ATTATCTCTCAGAAATAAG
312 ATTATCTTTTAGAAATAAG
15357750 TTCTTCGCTT
Statistics
Matches: 699, Mismatches: 46, Indels: 47
0.88 0.06 0.06
Matches are distributed among these distances:
428 378 0.54
429 9 0.01
430 4 0.01
433 1 0.00
434 3 0.00
435 2 0.00
436 1 0.00
437 3 0.00
438 2 0.00
439 31 0.04
440 65 0.09
442 1 0.00
444 129 0.18
445 28 0.04
446 42 0.06
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (432 bp):
GACTTTAAGTCTCCCTTTGGTTCTTTTAGTTTTAATTTCTTTTGTTAGCTATTCTTTTAATAATA
AAAAGGGACAATTTCAGCTCTGTTTACAAGAATAAAGTAATAATATTTGACAACTTTTATTGAAG
ATGGAAGTGAAGAAACTTGGACCTTTGTTTATGATATTAGTTATGATAATGTTTGATCTTTGGAA
CATATTAGGCAATATAGTGGAGTAAACTCTTGAATGTTTATTAACAAAATCCTTATATTTTAAGC
TTCTTAGATATAATACATAAGGATTTTTTTTGTCTTGTATGTACTCCATTAATTATCTTTTAGAA
ATAAGATGCAAAACATCTTGGTTATTAATAAGATCTTCTAGGCACAATTAATGTTGTCAGTAGAA
AAATAACTATATGTTTATACATCTGCACAAAAAAGCATGCTC
Found at i:15358397 original size:244 final size:243
Alignment explanation
Indices: 15357963--15358435 Score: 666
Period size: 244 Copynumber: 1.9 Consensus size: 243
15357953 AAAGAAAAAA
15357963 AAGAGGATGTGAGCCTTTTTCTAGGAATTGAACCTAAGGGATTCAAACTTTCTTCTTATTTAAAA
1 AAGAGGATGTGAGCCTTTTTCTAGGAATTGAACCTAAGGGATTCAAACTTTCTTCTTATTTAAAA
* * * *
15358028 TTTAGAGTATGAATCCTTCTGTGTTGCTTTGAAGCATACAGGTTAGAAACTCATAACGCAATGTG
66 TTTAGACTATGAATCCCTCTGTGTTGCTTTGAAGCAGACAGGTTAGAAACTCATAACACAATGTG
** * *
15358093 CATATACTTATTCTTTGGTGGTTTATATCTTATGGTGTTTTCCACTCTTAAAGCTGTTCAATGCT
131 CATATACTTATTCTTTGGTGGTTTATATCTTATGGTGCCTTCCACTCTTAAAGATGTTCAACGCT
* *
15358158 TTAGTTTTTTATATGCGTACCAAATGGCACCATCTTATATGTGTACCT
196 TTAGTTTCTTATATGCGTACCAAATAGCACCATCTTATATGTGTACCT
* * * * *
15358206 AAGAGGATGTGAGCTTTTTTCTAGGACTTGAACCTAAGGGATTTAAGCTTTCTTTTTATTTAAAA
1 AAGAGGATGTGAGCCTTTTTCTAGGAATTGAACCTAAGGGATTCAAACTTTCTTCTTATTT-AAA
* *
15358271 ATTTGGACTGA-GAA-CCACTCTGTGTTGCTTTGAAGCAGACAGGTTAGAAACAT-ATAATACAA
65 ATTTAGACT-ATGAATCC-CTCTGTGTTGCTTTGAAGCAGACAGGTTAGAAAC-TCATAACACAA
* * * *
15358333 TGTGCGTATAGTTGTTGTTTGGTGGTTTATATCTTATGGTGCCTTCCACTCTTATAA-ATGTTCA
127 TGTGCATATACTTATTCTTTGGTGGTTTATATCTTATGGTGCCTTCCACTCTTA-AAGATGTTCA
* *
15358397 ACGCTTTAGTTTCTTATATGTGTACCTAATAGCACCATC
191 ACGCTTTAGTTTCTTATATGCGTACCAAATAGCACCATC
15358436 AAAGTATCAG
Statistics
Matches: 202, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
243 58 0.29
244 140 0.69
245 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (243 bp):
AAGAGGATGTGAGCCTTTTTCTAGGAATTGAACCTAAGGGATTCAAACTTTCTTCTTATTTAAAA
TTTAGACTATGAATCCCTCTGTGTTGCTTTGAAGCAGACAGGTTAGAAACTCATAACACAATGTG
CATATACTTATTCTTTGGTGGTTTATATCTTATGGTGCCTTCCACTCTTAAAGATGTTCAACGCT
TTAGTTTCTTATATGCGTACCAAATAGCACCATCTTATATGTGTACCT
Found at i:15369898 original size:16 final size:15
Alignment explanation
Indices: 15369871--15369907 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15369861 GTAAAGATAT
15369871 TATATA-TATATACA
1 TATATATTATATACA
15369885 TATATATTATTATACA
1 TATATATTA-TATACA
15369901 TAT-TATT
1 TATATATT
15369908 GGACTGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATTATATACA
Found at i:15374444 original size:2 final size:2
Alignment explanation
Indices: 15374437--15374500 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
15374427 TAATTGTAGA
15374437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15374479 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
15374501 GTTGTTTCTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15387824 original size:13 final size:13
Alignment explanation
Indices: 15387806--15387831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15387796 TGATCAACTA
15387806 TTTTTTTTTTCTC
1 TTTTTTTTTTCTC
15387819 TTTTTTTTTTCTC
1 TTTTTTTTTTCTC
15387832 ACTAATATAT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:15388310 original size:16 final size:16
Alignment explanation
Indices: 15388285--15388318 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15388275 TAAGTGCATT
*
15388285 TATATTTATATTGATA
1 TATATATATATTGATA
*
15388301 TATATATATATTGTTA
1 TATATATATATTGATA
15388317 TA
1 TA
15388319 AGAAAAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATATATATATTGATA
Found at i:15393424 original size:2 final size:2
Alignment explanation
Indices: 15393417--15393465 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
15393407 TCCAAAAATA
15393417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15393459 AT AT AT A
1 AT AT AT A
15393466 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15395816 original size:2 final size:2
Alignment explanation
Indices: 15395809--15395844 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15395799 TCCAAAAATA
15395809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15395845 GAAAAGAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15395887 original size:14 final size:14
Alignment explanation
Indices: 15395870--15395904 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
15395860 GAGTATAAAG
15395870 AAAAATGTATACATA
1 AAAAATGTATACA-A
15395885 AAATAATGTATACAA
1 AAA-AATGTATACAA
15395900 AAAAA
1 AAAAA
15395905 AAAAAACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.11
15 7 0.37
16 10 0.53
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (14 bp):
AAAAATGTATACAA
Found at i:15395903 original size:16 final size:16
Alignment explanation
Indices: 15395873--15395903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15395863 TATAAAGAAA
*
15395873 AATGTATACATAAAAT
1 AATGTATACAAAAAAT
15395889 AATGTATACAAAAAA
1 AATGTATACAAAAAA
15395904 AAAAAAACCT
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:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
AATGTATACAAAAAAT
Found at i:15403891 original size:16 final size:16
Alignment explanation
Indices: 15403866--15403899 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15403856 TAAGTGCATT
*
15403866 TATATTTATATTGATA
1 TATATATATATTGATA
*
15403882 TATATATATATTGTTA
1 TATATATATATTGATA
15403898 TA
1 TA
15403900 AGAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATATATATATTGATA
Found at i:15404104 original size:23 final size:23
Alignment explanation
Indices: 15404077--15404129 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
15404067 TATATATATT
15404077 TATTTAAAATTAATTTGATAAAA
1 TATTTAAAATTAATTTGATAAAA
* * *
15404100 TATTT-AAATTATTTTGTTTAAA
1 TATTTAAAATTAATTTGATAAAA
15404122 -ATTTAAAA
1 TATTTAAAA
15404130 AAATTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTTAAAATTAATTTGATAAAA
Found at i:15404269 original size:13 final size:14
Alignment explanation
Indices: 15404247--15404275 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15404237 TTTTTTTATT
15404247 AATAATTTTTCACA
1 AATAATTTTTCACA
15404261 AATAA-TTTTCACA
1 AATAATTTTTCACA
15404274 AA
1 AA
15404276 AAAATTAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAATTTTTCACA
Found at i:15406755 original size:6 final size:7
Alignment explanation
Indices: 15406740--15406764 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15406730 CATTTTATGC
15406740 TTTTATT
1 TTTTATT
15406747 TTTTATT
1 TTTTATT
15406754 TTTTATT
1 TTTTATT
15406761 TTTT
1 TTTT
15406765 TGAAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:15409927 original size:35 final size:35
Alignment explanation
Indices: 15409884--15410014 Score: 109
Period size: 35 Copynumber: 3.7 Consensus size: 35
15409874 GCCTTCATCC
* * *
15409884 TTCCTCCTTCAACCGACAGCAACTCAGCCTCCTTT
1 TTCCTCCTTAAACCGACAGCAACTCAGCCCCCATT
* * * *
15409919 TTTCTCCTTAAACTGGCAGTAACTCAGCCCCCATT
1 TTCCTCCTTAAACCGACAGCAACTCAGCCCCCATT
* * * * *
15409954 TTCCTCCTTAAACCGGCAACAAATCGGCCCCCTTT
1 TTCCTCCTTAAACCGACAGCAACTCAGCCCCCATT
* * * **
15409989 TTCTTTCTTAATCCGGTAGCAACTCA
1 TTCCTCCTTAAACCGACAGCAACTCA
15410015 ACTCTTTCCT
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.31
Consensus pattern (35 bp):
TTCCTCCTTAAACCGACAGCAACTCAGCCCCCATT
Found at i:15412061 original size:2 final size:2
Alignment explanation
Indices: 15412054--15412089 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15412044 NNNNNNNNNT
* *
15412054 TA TA TA TA TA TA TA TA AA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15412090 AGAAAAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15412078 original size:20 final size:20
Alignment explanation
Indices: 15412053--15412090 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15412043 NNNNNNNNNN
15412053 TTATATATATATATATAAAT
1 TTATATATATATATATAAAT
15412073 TTATATATATATATATAA
1 TTATATATATATATATAA
15412091 GAAAAGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATATATATATATATAAAT
Found at i:15418929 original size:16 final size:18
Alignment explanation
Indices: 15418896--15418932 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15418886 AAATTTTTAT
*
15418896 ATTTTTTTAAGTTAAATA
1 ATTTTTATAAGTTAAATA
15418914 ATTTTTATAA-TT-AATA
1 ATTTTTATAAGTTAAATA
15418930 ATT
1 ATT
15418933 AATTTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTTATAAGTTAAATA
Found at i:15419013 original size:33 final size:33
Alignment explanation
Indices: 15418976--15419061 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
15418966 TATTTAGTAT
*
15418976 TAATATGATATTTTAATATATCATAATTGATAA
1 TAATATGATATTTTAATATATCATAATTAATAA
* * *
15419009 TAATATGATATATTGATATATCATAATTAATGA
1 TAATATGATATTTTAATATATCATAATTAATAA
15419042 TAA-AGTGAT-TTGTTAATATA
1 TAATA-TGATATT-TTAATATA
15419062 ATATGATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.04
33 43 0.96
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (33 bp):
TAATATGATATTTTAATATATCATAATTAATAA
Found at i:15419014 original size:20 final size:19
Alignment explanation
Indices: 15418976--15419026 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 19
15418966 TATTTAGTAT
15418976 TAATATGATAT-TT--TAA
1 TAATATGATATATTGATAA
*
15418992 T-ATATCATA-ATTGATAA
1 TAATATGATATATTGATAA
15419009 TAATATGATATATTGATA
1 TAATATGATATATTGATA
15419027 TATCATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 9 0.32
16 1 0.04
17 4 0.14
18 7 0.25
19 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (19 bp):
TAATATGATATATTGATAA
Found at i:15421372 original size:2 final size:2
Alignment explanation
Indices: 15421365--15421434 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
15421355 CTTGATTTAT
15421365 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15421407 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15421435 ACACACACAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15421439 original size:2 final size:2
Alignment explanation
Indices: 15421434--15421463 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15421424 CTCTCTCTCT
15421434 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15421464 TTATGCACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15422339 original size:22 final size:22
Alignment explanation
Indices: 15422296--15422342 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15422286 GAGTATGCTT
* * *
15422296 AAATAAGAAGCATTGAATGGAA
1 AAATAAGAAGCAGTAAAAGGAA
*
15422318 AAATAATAAGCAGTAAAAGGAA
1 AAATAAGAAGCAGTAAAAGGAA
15422340 AAA
1 AAA
15422343 GGGCACTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.04, G:0.19, T:0.15
Consensus pattern (22 bp):
AAATAAGAAGCAGTAAAAGGAA
Found at i:15426020 original size:13 final size:13
Alignment explanation
Indices: 15426002--15426026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15425992 CAATTGTCTA
15426002 AAAAAAATTATTC
1 AAAAAAATTATTC
15426015 AAAAAAATTATT
1 AAAAAAATTATT
15426027 TATTTTATTT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAAATTATTC
Found at i:15426654 original size:20 final size:19
Alignment explanation
Indices: 15426629--15426694 Score: 55
Period size: 23 Copynumber: 3.3 Consensus size: 19
15426619 ATCACATGAT
15426629 TATATTATTATTAATTATAA
1 TATATTA-TATTAATTATAA
15426649 TATATTAGTATGTCATATTATAA
1 TATATTA-TAT-T-A-ATTATAA
*
15426672 TCA-ATTATATT-ATTTTAA
1 T-ATATTATATTAATTATAA
15426690 TATAT
1 TATAT
15426695 CACATTAGCG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
17 1 0.03
18 9 0.23
20 10 0.26
21 2 0.05
22 4 0.10
23 12 0.31
24 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TATATTATATTAATTATAA
Found at i:15429380 original size:33 final size:33
Alignment explanation
Indices: 15429340--15429402 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
15429330 TTTTTTTCTA
* *
15429340 TTGTTTGGATAACATTGTAGAACATATTTTTTG
1 TTGTTTGGATAACATTATAGAAAATATTTTTTG
* *
15429373 TTGTTTGGATGACATTATTGAAAATATTTT
1 TTGTTTGGATAACATTATAGAAAATATTTT
15429403 CTGATTTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (33 bp):
TTGTTTGGATAACATTATAGAAAATATTTTTTG
Found at i:15440370 original size:30 final size:31
Alignment explanation
Indices: 15440325--15440387 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
15440315 CTCTTCCAAT
15440325 TAGGACTTCAACTATACTCCAAATAGAAAAC
1 TAGGACTTCAACTATACTCCAAATAGAAAAC
15440356 TAGGACTT-AACTATACTCCAAATAGAAAAC
1 TAGGACTTCAACTATACTCCAAATAGAAAAC
15440386 TA
1 TA
15440388 ACAAACTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.24
Consensus pattern (31 bp):
TAGGACTTCAACTATACTCCAAATAGAAAAC
Found at i:15447154 original size:12 final size:12
Alignment explanation
Indices: 15447137--15447161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15447127 CTAATGAAAC
15447137 TAAATAAAATAT
1 TAAATAAAATAT
15447149 TAAATAAAATAT
1 TAAATAAAATAT
15447161 T
1 T
15447162 TCATTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:15448105 original size:2 final size:2
Alignment explanation
Indices: 15448059--15448088 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15448049 ATTCAAACCG
15448059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15448089 GATAACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15454381 original size:31 final size:31
Alignment explanation
Indices: 15454312--15454398 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
15454302 TATTTTTAAA
15454312 ATATTTTT-TTCAATTTAATCTCTCA-ACATC
1 ATATTTTTGTTCAATTTAATCTCT-ATACATC
* * *
15454342 TTAATTTTGTACAATTTAATCTCTATACTAT-
1 ATATTTTTGTTCAATTTAATCTCTATAC-ATC
* *
15454373 ATATTTTTGTTTAATTTAATATCTAT
1 ATATTTTTGTTCAATTTAATCTCTAT
15454399 GATATGGCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 7 0.15
31 37 0.80
32 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (31 bp):
ATATTTTTGTTCAATTTAATCTCTATACATC
Found at i:15461223 original size:25 final size:25
Alignment explanation
Indices: 15461169--15461224 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
15461159 ATTTAATAAT
*
15461169 AATTAAATTTATAAAATAAAACAAA
1 AATTAAAATTATAAAATAAAACAAA
* * *
15461194 CATTAAAATTA-AAATTTAAACAAGA
1 AATTAAAATTATAAAATAAAACAA-A
15461219 AATTAA
1 AATTAA
15461225 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (25 bp):
AATTAAAATTATAAAATAAAACAAA
Found at i:15461682 original size:36 final size:35
Alignment explanation
Indices: 15461612--15461679 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
15461602 ACCGTTTGCA
* *
15461612 TATATATATAAAATTTAAGTTTATTATTTATTTAT
1 TATATAAATAAAATTTAAGTTAATTATTTATTTAT
* *
15461647 TATATAAATAAATTATTATGTTAATTA-TTATTT
1 TATATAAATAAAAT-TTAAGTTAATTATTTATTT
15461680 TATGTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 18 0.64
36 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (35 bp):
TATATAAATAAAATTTAAGTTAATTATTTATTTAT
Found at i:15464726 original size:81 final size:81
Alignment explanation
Indices: 15464590--15464749 Score: 311
Period size: 81 Copynumber: 2.0 Consensus size: 81
15464580 TTTTCCTTTA
15464590 AAATTGTAAAATTCATTAATTTCATGATTACTAGGGGTGAAAACTGAAGACAGACAAGTGAGCCG
1 AAATTGTAAAATTCATTAATTTCATGATTACTAGGGGTGAAAACTGAAGACAGACAAGTGAGCCG
15464655 ATAATCAGGAAAATAT
66 ATAATCAGGAAAATAT
*
15464671 AAATTGTAAAATTCATTAATTTCATGATTACTAGGGGTGAAAACTGAAGATAGACAAGTGAGCCG
1 AAATTGTAAAATTCATTAATTTCATGATTACTAGGGGTGAAAACTGAAGACAGACAAGTGAGCCG
15464736 ATAATCAGGAAAAT
66 ATAATCAGGAAAAT
15464750 TGGAAAAAGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATTGTAAAATTCATTAATTTCATGATTACTAGGGGTGAAAACTGAAGACAGACAAGTGAGCCG
ATAATCAGGAAAATAT
Found at i:15467878 original size:32 final size:32
Alignment explanation
Indices: 15467829--15467906 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
15467819 AGATGGTGTG
*
15467829 AATACTTAAATATCTAATTATACTTAATAAAA
1 AATACTTAAATACCTAATTATACTTAATAAAA
* * *
15467861 AATACTTAACTACCTAATTGTACTTAATTAAA
1 AATACTTAAATACCTAATTATACTTAATAAAA
15467893 AATACTTAAATACC
1 AATACTTAAATACC
15467907 CAGTCGTACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (32 bp):
AATACTTAAATACCTAATTATACTTAATAAAA
Found at i:15467916 original size:32 final size:32
Alignment explanation
Indices: 15467829--15467925 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 32
15467819 AGATGGTGTG
* * **
15467829 AATACTTAAATATCTAATTATACTTAATAAAA
1 AATACTTAAATACCCAATCGTACTTAATAAAA
* * * *
15467861 AATACTTAACTACCTAATTGTACTTAATTAAA
1 AATACTTAAATACCCAATCGTACTTAATAAAA
* * *
15467893 AATACTTAAATACCCAGTCGTACTCAATGAAA
1 AATACTTAAATACCCAATCGTACTTAATAAAA
15467925 A
1 A
15467926 TCTTTATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.33
Consensus pattern (32 bp):
AATACTTAAATACCCAATCGTACTTAATAAAA
Found at i:15469143 original size:69 final size:70
Alignment explanation
Indices: 15469070--15469234 Score: 217
Period size: 70 Copynumber: 2.4 Consensus size: 70
15469060 CATTGCAGCA
* *
15469070 AGAATCCATTTTGGCTACAGCAAGAAACATGAA-GAAAACAACTCTAAG-TCAGGCTTTCTCGCT
1 AGAATCCATTTTGGCTGCAGCAAGAAACAT-AATGAAAACAACTCTAAGTTCAGACTTTCTCGCT
*
15469133 GCAATG
65 GCAACG
* * * * * *
15469139 AGAATCCATTTTGGCTGCAGCGAGAAATATAATGAAAATAGCTCTATGTTGAGACTTTCTCGCTG
1 AGAATCCATTTTGGCTGCAGCAAGAAACATAATGAAAACAACTCTAAGTTCAGACTTTCTCGCTG
*
15469204 CAGCG
66 CAACG
15469209 AGAATCCATTTTGGCTGCAGCAAGAA
1 AGAATCCATTTTGGCTGCAGCAAGAA
15469235 CACGTCATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.02
69 39 0.47
70 42 0.51
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (70 bp):
AGAATCCATTTTGGCTGCAGCAAGAAACATAATGAAAACAACTCTAAGTTCAGACTTTCTCGCTG
CAACG
Found at i:15469223 original size:70 final size:69
Alignment explanation
Indices: 15469063--15469234 Score: 220
Period size: 69 Copynumber: 2.5 Consensus size: 69
15469053 AGTTTCTCAT
* * *
15469063 TGCAGCAAGAATCCATTTTGGCTACAGCAAGAAACATGAAGAAAACAACTCTAAGTCAGGCTTTC
1 TGCAGCGAGAATCCATTTTGGCTGCAGCAAGAAACATGAAGAAAACAACTCTAAGTCAGACTTTC
15469128 TCGC
66 TCGC
** * * * * * *
15469132 TGCAATGAGAATCCATTTTGGCTGCAGCGAGAAATAT-AATGAAAATAGCTCTATGTTGAGACTT
1 TGCAGCGAGAATCCATTTTGGCTGCAGCAAGAAACATGAA-GAAAACAACTCTAAG-TCAGACTT
15469196 TCTCGC
64 TCTCGC
15469202 TGCAGCGAGAATCCATTTTGGCTGCAGCAAGAA
1 TGCAGCGAGAATCCATTTTGGCTGCAGCAAGAA
15469235 CACGTCATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
68 2 0.02
69 43 0.49
70 42 0.48
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (69 bp):
TGCAGCGAGAATCCATTTTGGCTGCAGCAAGAAACATGAAGAAAACAACTCTAAGTCAGACTTTC
TCGC
Found at i:15473162 original size:32 final size:32
Alignment explanation
Indices: 15473121--15473201 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
15473111 TGGATTGGGA
* *
15473121 ATGTTGATGTGGTAGTGTCATATCATTTTGAG
1 ATGTTGATGTGGTAGTGTCATATCACTTTGAC
*
15473153 ATGTTGATGTGGCAGTGTCATATCACTTTGAC
1 ATGTTGATGTGGTAGTGTCATATCACTTTGAC
* * *
15473185 ACGCTGATTTGGTAGTG
1 ATGTTGATGTGGTAGTG
15473202 CCATGTGGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (32 bp):
ATGTTGATGTGGTAGTGTCATATCACTTTGAC
Found at i:15473787 original size:17 final size:17
Alignment explanation
Indices: 15473762--15473796 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15473752 TATATATTGT
*
15473762 TTTTGTTTCATTTTTTC
1 TTTTCTTTCATTTTTTC
*
15473779 TTTTCTTTCCTTTTTTC
1 TTTTCTTTCATTTTTTC
15473796 T
1 T
15473797 CTTTTTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTCTTTCATTTTTTC
Found at i:15473809 original size:21 final size:21
Alignment explanation
Indices: 15473779--15473820 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15473769 TCATTTTTTC
15473779 TTTTCTTTCCTTTTTTCTCTTT
1 TTTTCTTTCCTTTTTT-TCTTT
15473801 TTTTC-TTCCTTTTTTTCTTT
1 TTTTCTTTCCTTTTTTTCTTT
15473821 CTCTCTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCCTTTTTTTCTTT
Found at i:15473816 original size:12 final size:12
Alignment explanation
Indices: 15473779--15473819 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
15473769 TCATTTTTTC
15473779 TTTTCTTTCC-TT
1 TTTTC-TTCCTTT
15473791 TTTTC-T-CTTT
1 TTTTCTTCCTTT
15473801 TTTTCTTCCTTT
1 TTTTCTTCCTTT
15473813 TTTTCTT
1 TTTTCTT
15473820 TCTCTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 1 0.04
12 16 0.62
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTCCTTT
Found at i:15474037 original size:33 final size:28
Alignment explanation
Indices: 15473999--15474068 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 28
15473989 ATCGATCTTT
15473999 AAAAGAAAAAGTGAAAAGAGAGAGAAAGGAAA
1 AAAAGAAAAAG-GAAAA-AGAG-GAAA-GAAA
15474031 ATAAAGAAAAAGGAAAAAGAGGAAAGAAA
1 A-AAAGAAAAAGGAAAAAGAGGAAAGAAA
*
15474060 AGAAGAAAA
1 AAAAGAAAA
15474069 GATATATAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 7 0.19
29 5 0.14
30 4 0.11
31 4 0.11
32 6 0.17
33 10 0.28
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (28 bp):
AAAAGAAAAAGGAAAAAGAGGAAAGAAA
Found at i:15474042 original size:16 final size:16
Alignment explanation
Indices: 15474000--15474047 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15473990 TCGATCTTTA
15474000 AAAGAAAAAGTGAAAAG
1 AAAGAAAAAG-GAAAAG
* * *
15474017 AGAGAGAAAGGAAAAT
1 AAAGAAAAAGGAAAAG
15474033 AAAGAAAAAGGAAAA
1 AAAGAAAAAGGAAAA
15474048 AGAGGAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAGGAAAAG
Found at i:15474199 original size:23 final size:23
Alignment explanation
Indices: 15474169--15474237 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
15474159 AAGAAAGAGA
15474169 CATGTGTCACTCTTTTGTCATAC
1 CATGTGTCACTCTTTTGTCATAC
* * *
15474192 CATGTGTCACCCTCTAG---TA-
1 CATGTGTCACTCTTTTGTCATAC
15474211 CA--TGTCACTCTTTTGTCATAC
1 CATGTGTCACTCTTTTGTCATAC
15474232 CATGTG
1 CATGTG
15474238 ACACCCTCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 10 0.29
19 2 0.06
20 4 0.12
21 2 0.06
23 16 0.47
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.39
Consensus pattern (23 bp):
CATGTGTCACTCTTTTGTCATAC
Found at i:15474225 original size:40 final size:40
Alignment explanation
Indices: 15474173--15474248 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
15474163 AAGAGACATG
*
15474173 TGTCACTCTTTTGTCATACCATGTGTCACCCTCTAGTACA
1 TGTCACTCTTTTGTCATACCATGTGACACCCTCTAGTACA
15474213 TGTCACTCTTTTGTCATACCATGTGACACCCTCTAG
1 TGTCACTCTTTTGTCATACCATGTGACACCCTCTAG
15474249 ATATGCCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (40 bp):
TGTCACTCTTTTGTCATACCATGTGACACCCTCTAGTACA
Found at i:15479919 original size:23 final size:23
Alignment explanation
Indices: 15479884--15479983 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
15479874 GGGTTTAACT
* * *
15479884 TTGCATGACTGATTGATCGGTCA
1 TTGCGTGATTGATTGATAGGTCA
* *
15479907 TTGCGTGATTGATTGATTGATCA
1 TTGCGTGATTGATTGATAGGTCA
* **
15479930 TTGCGTGATTGGTTTCTAGGTCA
1 TTGCGTGATTGATTGATAGGTCA
* * ** *
15479953 TTACGTGATTGGTTTCTAGGTTA
1 TTGCGTGATTGATTGATAGGTCA
15479976 TTGCGTGA
1 TTGCGTGA
15479984 ATATTGTTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.18, C:0.12, G:0.28, T:0.42
Consensus pattern (23 bp):
TTGCGTGATTGATTGATAGGTCA
Found at i:15482055 original size:24 final size:24
Alignment explanation
Indices: 15482023--15482072 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
15482013 CGATGCAGAT
15482023 GCAGTCAATGCAGTTGGAA-ATCCA
1 GCAGTCAATGCAGTT-GAAGATCCA
15482047 GCAGTCAATGCAGTTGAAGATCCA
1 GCAGTCAATGCAGTTGAAGATCCA
15482071 GC
1 GC
15482073 GGACGATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (24 bp):
GCAGTCAATGCAGTTGAAGATCCA
Found at i:15482058 original size:39 final size:39
Alignment explanation
Indices: 15481975--15482059 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
15481965 CGAAAATGCA
* * * *
15481975 AATGCAGATGCAGTCAATGTAGTTGGAGATTCAGCGGGC
1 AATGCAGATGCAGTCAATGCAGTTGGAAATCCAGCAGGC
* *
15482014 GATGCAGATGCAGTCAATGCAGTTGGAAATCCAGCAGTC
1 AATGCAGATGCAGTCAATGCAGTTGGAAATCCAGCAGGC
15482053 AATGCAG
1 AATGCAG
15482060 TTGAAGATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (39 bp):
AATGCAGATGCAGTCAATGCAGTTGGAAATCCAGCAGGC
Found at i:15482081 original size:24 final size:24
Alignment explanation
Indices: 15482023--15482083 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
15482013 CGATGCAGAT
*
15482023 GCAGTCAATGCAGTTGGAAATCCA
1 GCAGACAATGCAGTTGGAAATCCA
*
15482047 GCAGTCAATGCAGTT-GAAGATCCA
1 GCAGACAATGCAGTTGGAA-ATCCA
* *
15482071 GCGGACGATGCAG
1 GCAGACAATGCAG
15482084 ATGCAGACGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.18
Consensus pattern (24 bp):
GCAGACAATGCAGTTGGAAATCCA
Found at i:15484077 original size:92 final size:92
Alignment explanation
Indices: 15483921--15484585 Score: 859
Period size: 92 Copynumber: 7.2 Consensus size: 92
15483911 AATGGTGGGA
* *
15483921 ATGGAATCGCGTCACCAGTT-ATATTGATTTGAGGGAGTATTTGTTATGGAGTCACGCAAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
* * * * *
15483985 AAATATTAAATTATATCGATAGTTAAT
66 AAATTTTGAATCACATCGGTAGTTAAT
* *
15484012 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGATATGGAGTCACGTGAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
**
15484077 AAATTTTGAATCACGCCGGTAGTTAAT
66 AAATTTTGAATCACATCGGTAGTTAAT
** *
15484104 ATGGAATCATGTCACCAATTGATATTGATTTG-GGAGAGTATTTGTTATGGAGT-ACGCGAGTAC
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGG-GAGTATTTGTTATGGAGTCACGCGAGTAC
*
15484167 TAAATTTTGAATCACGTCGGTAGTTAAT
65 TAAATTTTGAATCACATCGGTAGTTAAT
* **
15484195 ATGGAATCGCGTCACCAGTTGATATTGATTCGCGATAGTATTTGTTATGGAGTCACGCGAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
* *
15484260 AAATTTTGAATAACGTCGGTAGTTAAT
66 AAATTTTGAATCACATCGGTAGTTAAT
* ** *** *
15484287 ATGGAATCACGTCACCAGTTGATATTGATTCACAAAAGTATTTGTTATGGAGTCACGCAAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
* *
15484352 AAATTCTGAANTTTTGAATAACGTCGGTAGTTAAT
66 --A-----AA-TTTTGAATCACATCGGTAGTTAAT
***
15484387 ATGGAATCGCGTCACCAGTTGATATTGATTCATGGGAGTATTTGTTATGGAGTCACGCGAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
*
15484452 AAATTGTGAATCACATCGGTAGTTAAT
66 AAATTTTGAATCACATCGGTAGTTAAT
* * * *
15484479 ATGGAATCGCGTCACTAGTTGATATTGATTTACGGGAGTATTTGTTATGAAGTCATGCGAGTACT
1 ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
* * *
15484544 AATTTTTGTATCACGTCGGTAGTTAAT
66 AAATTTTGAATCACATCGGTAGTTAAT
*
15484571 ATGGAATCGTGTCAC
1 ATGGAATCGCGTCAC
15484586 TAATCCACAT
Statistics
Matches: 514, Mismatches: 48, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
91 103 0.20
92 322 0.63
93 2 0.00
94 1 0.00
98 1 0.00
99 2 0.00
100 83 0.16
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (92 bp):
ATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
AAATTTTGAATCACATCGGTAGTTAAT
Found at i:15484237 original size:183 final size:183
Alignment explanation
Indices: 15483921--15484585 Score: 884
Period size: 183 Copynumber: 3.6 Consensus size: 183
15483911 AATGGTGGGA
*
15483921 ATGGAATCGCGTCACCAGTT-ATATTGATTTGAGGGAGTATTTGTTATGGAGTCACGCAAGTACT
1 ATGGAATCACGTCACCAGTTGATATTGATTTG-GGGAGTATTTGTTATGGAGTCACGCAAGTACT
* * * ** * *
15483985 AAATATTAAATTATATCGATAGTTAATATGGAATCGCGTCACCAGTTGATATTGATTTGCGGGAG
65 AAATTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATTCGCGGGAG
* * *
15484050 TATTTGATATGGAGTCACGTGAGTACTAAATTTTGAATCACGCCGGTAGTTAAT
130 TATTTGTTATGGAGTCACGCGAGTACTAAATTTTGAATCACGTCGGTAGTTAAT
* * *
15484104 ATGGAATCATGTCACCAATTGATATTGATTTGGGAGAGTATTTGTTATGGAGT-ACGCGAGTACT
1 ATGGAATCACGTCACCAGTTGATATTGATTTGGG-GAGTATTTGTTATGGAGTCACGCAAGTACT
**
15484168 AAATTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATTCGCGATAG
65 AAATTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATTCGCGGGAG
*
15484233 TATTTGTTATGGAGTCACGCGAGTACTAAATTTTGAATAACGTCGGTAGTTAAT
130 TATTTGTTATGGAGTCACGCGAGTACTAAATTTTGAATCACGTCGGTAGTTAAT
*****
15484287 ATGGAATCACGTCACCAGTTGATATTGATTCACAAAAGTATTTGTTATGGAGTCACGCAAGTACT
1 ATGGAATCACGTCACCAGTTGATATTGATT-TGGGGAGTATTTGTTATGGAGTCACGCAAGTACT
*
15484352 AAATTCTGAANTTTTGAATAACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATT
65 --A-----AA-TTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATT
** * *
15484417 CATGGGAGTATTTGTTATGGAGTCACGCGAGTACTAAATTGTGAATCACATCGGTAGTTAAT
122 CGCGGGAGTATTTGTTATGGAGTCACGCGAGTACTAAATTTTGAATCACGTCGGTAGTTAAT
* * * * * *
15484479 ATGGAATCGCGTCACTAGTTGATATTGATTTACGGGAGTATTTGTTATGAAGTCATGCGAGTACT
1 ATGGAATCACGTCACCAGTTGATATTGATTT-GGGGAGTATTTGTTATGGAGTCACGCAAGTACT
* * *
15484544 AATTTTTGTATCACGTCGGTAGTTAATATGGAATCGTGTCAC
65 AAATTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCAC
15484586 TAATCCACAT
Statistics
Matches: 423, Mismatches: 46, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
183 180 0.43
184 75 0.18
185 1 0.00
186 1 0.00
190 1 0.00
191 2 0.00
192 163 0.39
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (183 bp):
ATGGAATCACGTCACCAGTTGATATTGATTTGGGGAGTATTTGTTATGGAGTCACGCAAGTACTA
AATTTTGAATCACGTCGGTAGTTAATATGGAATCGCGTCACCAGTTGATATTGATTCGCGGGAGT
ATTTGTTATGGAGTCACGCGAGTACTAAATTTTGAATCACGTCGGTAGTTAAT
Found at i:15487394 original size:78 final size:78
Alignment explanation
Indices: 15487265--15487504 Score: 338
Period size: 78 Copynumber: 3.1 Consensus size: 78
15487255 AGAGACATTT
* ** * * * * * *
15487265 TGTGTTTTAGATTTGCTTGTCCCTTAGTCACCA-CACTCAATTTGCTTCGTTGTACTAGTCACAA
1 TGTGTTTTAGATATGCTTGTCCCCCAATCA-CAGCAATCATTTTGCTTCGTTGTTCTGGTCACAG
* *
15487329 CTGCTGCAACATCG
65 TTGCTGCAACATCA
15487343 TGTGTTTTAGATATGCTTGTCCCCCAATCACAGCAATCATTTTGCTTCGTTGTTCTGGTCACAGT
1 TGTGTTTTAGATATGCTTGTCCCCCAATCACAGCAATCATTTTGCTTCGTTGTTCTGGTCACAGT
*
15487408 TGCTGCAACATCT
66 TGCTGCAACATCA
*
15487421 TGTGTTTTAGATATGCTTGTCCCCCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGTCACAGT
1 TGTGTTTTAGATATGCTTGTCCCCCAATCACAGCAATCATTTTGCTTCGTTGTTCTGGTCACAGT
*
15487486 TGTTGCAACATCA
66 TGCTGCAACATCA
15487499 TGTGTT
1 TGTGTT
15487505 GTAAATATCA
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 2 0.01
78 145 0.99
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (78 bp):
TGTGTTTTAGATATGCTTGTCCCCCAATCACAGCAATCATTTTGCTTCGTTGTTCTGGTCACAGT
TGCTGCAACATCA
Found at i:15493255 original size:118 final size:113
Alignment explanation
Indices: 15493119--15493552 Score: 592
Period size: 111 Copynumber: 3.8 Consensus size: 113
15493109 GCAATATATA
* *
15493119 ACAACAGGTCACGTAATATATAAAAACCAATCACACAAGCCTAAAAAACTACTGAACAAAAGCCT
1 ACAACAGGTAACGCAATATATAAAAACCAATCACACAAGCCTAAAAAACTACTGAACAAAAGCCT
*
15493184 CAAAATAACACATGAATTGCACAAGTCACGCGCCACCACTCTTGCAATACAT
66 CAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTTGC---AC-T
* * * * * * *
15493236 AACAACAGGTCACGTAATATATAAAAACTAGTCACGCAAACTTAAAAAACTACTGAACAAAAGCC
1 -ACAACAGGTAACGCAATATATAAAAACCAATCACACAAGCCTAAAAAACTACTGAACAAAAGCC
* *
15493301 TCAAAACAACACATGAATGGCACAAGTCACACGCCACCACTC-T-CACT
65 TCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTTGCACT
*
15493348 ACAACAGGTAACGCAATATATAAAAACCAATCATGCACTA-CCTAAAAAACTACTGAACAAAAGC
1 ACAACAGGTAACGCAATATATAAAAACCAATCA--CACAAGCCTAAAAAACTACTGAACAAAAGC
* *
15493412 CTCAAAATAACACATGAATTGCACAAGTCATGCGCCACCACTCTTG--CT
64 CTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTTGCACT
* * *
15493460 A-AACAGGTAACGCAATATATAAAAACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCC
1 ACAACAGGTAACGCAATATATAAAAACCAATCACACA-AGCCTAAAAAACTACTGAACAAAAGCC
15493524 TCAAAACAACACATGAATTGCACAAGTCA
65 TCAAAACAACACATGAATTGCACAAGTCA
15493553 GTCACGTAAC
Statistics
Matches: 286, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
109 2 0.01
111 112 0.39
112 66 0.23
113 6 0.02
116 1 0.00
117 1 0.00
118 98 0.34
ACGTcount: A:0.46, C:0.27, G:0.11, T:0.17
Consensus pattern (113 bp):
ACAACAGGTAACGCAATATATAAAAACCAATCACACAAGCCTAAAAAACTACTGAACAAAAGCCT
CAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTTGCACT
Found at i:15494977 original size:40 final size:39
Alignment explanation
Indices: 15494922--15495069 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 39
15494912 CAAACAGGTA
*
15494922 ACGCAATGCTCAACAAATATTCAGTCACATTATGCTTGTC
1 ACGCAACGCTCAACAAATATTCAGTCAC-TTATGCTTGTC
* *
15494962 ACGCAACGCTCAACAAATATTCAATCACGTAATGCCTATAAAGAACTC
1 ACGCAACGCTCAACAAATATTCAGTCAC-TTATG-CT-T---G---TC
* ** *
15495010 ACACAATTCTCAACAAATATTCAGTCACGTATTGCTTGTC
1 ACGCAACGCTCAACAAATATTCAGTCACTTA-TGCTTGTC
15495050 ACGCAACGCTCAACAAATAT
1 ACGCAACGCTCAACAAATAT
15495070 CAATAATGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
40 49 0.57
41 2 0.02
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
47 3 0.03
48 28 0.33
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (39 bp):
ACGCAACGCTCAACAAATATTCAGTCACTTATGCTTGTC
Found at i:15495124 original size:87 final size:89
Alignment explanation
Indices: 15494925--15495127 Score: 322
Period size: 87 Copynumber: 2.3 Consensus size: 89
15494915 ACAGGTAACG
* *
15494925 CAATGCTCAACAAATATTCAGTCACAT-TATGCTTGTCACGCAACGCTCAACAAATATTCAATCA
1 CAATGCTCAACAAATATTCAGTCACGTATATGCTTGTCACGCAACGCTCAACAAATATTCAATAA
15494989 CGTAATGCCTATAAAGAACTCACA
66 CGTAATGCCTATAAAGAACTCACA
*
15495013 CAATTCTCAACAAATATTCAGTCACGTAT-TGCTTGTCACGCAACGCTCAACAAATA-TCAATAA
1 CAATGCTCAACAAATATTCAGTCACGTATATGCTTGTCACGCAACGCTCAACAAATATTCAATAA
* * *
15495076 TGTAATGCTTGTAAAGAACTCACA
66 CGTAATGCCTATAAAGAACTCACA
*
15495100 CAATGCTCAACAAATATTAAGTCACGTA
1 CAATGCTCAACAAATATTCAGTCACGTA
15495128 ATATTCAAGC
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
87 53 0.50
88 52 0.49
89 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (89 bp):
CAATGCTCAACAAATATTCAGTCACGTATATGCTTGTCACGCAACGCTCAACAAATATTCAATAA
CGTAATGCCTATAAAGAACTCACA
Found at i:15499773 original size:22 final size:23
Alignment explanation
Indices: 15499756--15499843 Score: 108
Period size: 22 Copynumber: 3.8 Consensus size: 23
15499746 TTTATTTTTT
*
15499756 AATATTAATATTTATATTAATTAA
1 AATATTAATATTTAAATT-ATTAA
*
15499780 AATATTAATAATTAAATTA-TAA
1 AATATTAATATTTAAATTATTAA
*
15499802 AATATTAATATTTAAATTATTAT
1 AATATTAATATTTAAATTATTAA
*
15499825 AAT-TATAATATTTTAATTA
1 AATAT-TAATATTTAAATTA
15499844 ATAATATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.39
23 19 0.33
24 16 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTAATATTTAAATTATTAA
Found at i:15499808 original size:15 final size:15
Alignment explanation
Indices: 15499790--15499832 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
15499780 AATATTAATA
15499790 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
*
15499805 ATTAATATT-TAAATT
1 ATTAA-ATTATAAAAT
15499820 ATTATAATTATAA
1 ATTA-AATTATAA
15499833 TATTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:15499849 original size:15 final size:14
Alignment explanation
Indices: 15499819--15499862 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
15499809 ATATTTAAAT
*
15499819 TATTATAATTATAA
1 TATTTTAATTATAA
15499833 TATTTTAATTAATAA
1 TATTTTAATT-ATAA
*
15499848 TATTTTATTTATAA
1 TATTTTAATTATAA
15499862 T
1 T
15499863 TTAATACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTTAATTATAA
Found at i:15499912 original size:24 final size:21
Alignment explanation
Indices: 15499875--15499923 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
15499865 AATACATATA
15499875 TATTAAAATAATAAATAATATTAT
1 TATTAAAATAAT-AATAA-ATT-T
15499899 TATT-AAATATATAATAAATTT
1 TATTAAAATA-ATAATAAATTT
15499920 TATT
1 TATT
15499924 TTTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.21
22 3 0.12
23 10 0.42
24 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTAAAATAATAATAAATTT
Found at i:15501612 original size:20 final size:22
Alignment explanation
Indices: 15501583--15501623 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15501573 AAAAAGGATC
15501583 AAATGAGG-T-TATTGAAAGAG
1 AAATGAGGTTGTATTGAAAGAG
*
15501603 AAATGGGGTTGTATTGAAAGA
1 AAATGAGGTTGTATTGAAAGA
15501624 AATATGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (22 bp):
AAATGAGGTTGTATTGAAAGAG
Found at i:15504978 original size:2 final size:2
Alignment explanation
Indices: 15504971--15505003 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
15504961 GCGAAAGAAA
15504971 AG AG AG AG AG AG AG A- AG AG -G AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15505004 AACAGTCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15516128 original size:29 final size:28
Alignment explanation
Indices: 15516088--15516145 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
15516078 ATATATTTTC
*
15516088 TTATTAATTTATTATAGTGAGCTTATTA
1 TTATTAATTTATTATAGTGAACTTATTA
*
15516116 TTATTATTATTATTATAGTGAACTTATTA
1 TTATTAAT-TTATTATAGTGAACTTATTA
15516145 T
1 T
15516146 GCACGAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (28 bp):
TTATTAATTTATTATAGTGAACTTATTA
Found at i:15520992 original size:16 final size:16
Alignment explanation
Indices: 15520971--15521005 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15520961 GATATATAAT
15520971 AATTTAATTAATTAAA
1 AATTTAATTAATTAAA
* *
15520987 AATTTATTTAATTTAA
1 AATTTAATTAATTAAA
15521003 AAT
1 AAT
15521006 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTAATTAATTAAA
Found at i:15523230 original size:24 final size:24
Alignment explanation
Indices: 15523187--15523236 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15523177 TATACAGAAA
15523187 AACTAAATGGAAAAAGAAAAACAT
1 AACTAAATGGAAAAAGAAAAACAT
*
15523211 AACTCAAATGGAAATA-AAAAACAT
1 AACT-AAATGGAAAAAGAAAAACAT
15523235 AA
1 AA
15523237 GGCTAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (24 bp):
AACTAAATGGAAAAAGAAAAACAT
Found at i:15523330 original size:96 final size:96
Alignment explanation
Indices: 15523219--15523408 Score: 362
Period size: 96 Copynumber: 2.0 Consensus size: 96
15523209 ATAACTCAAA
15523219 TGGAAATAAAAAACATAAGGCTAATCAAAATTTACCATGTAGTACAAATAAAGCCAAATGGAATG
1 TGGAAATAAAAAACATAAGGCTAATCAAAATTTACCATGTAGTACAAATAAAGCCAAATGGAATG
15523284 CTTCATGAAAAAAACAAATGGAGTGTGTGTG
66 CTTCATGAAAAAAACAAATGGAGTGTGTGTG
*
15523315 TGGAAATAAAAAACATAAGGCTAATCAAAATTTACCATGTTGTACAAATAAAGCCAAATGGAATG
1 TGGAAATAAAAAACATAAGGCTAATCAAAATTTACCATGTAGTACAAATAAAGCCAAATGGAATG
*
15523380 CTTCATGAAAAAAACAAATGGTGTGTGTG
66 CTTCATGAAAAAAACAAATGGAGTGTGTG
15523409 CGTGTGCGCG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (96 bp):
TGGAAATAAAAAACATAAGGCTAATCAAAATTTACCATGTAGTACAAATAAAGCCAAATGGAATG
CTTCATGAAAAAAACAAATGGAGTGTGTGTG
Found at i:15523415 original size:6 final size:6
Alignment explanation
Indices: 15523404--15523496 Score: 87
Period size: 6 Copynumber: 14.8 Consensus size: 6
15523394 CAAATGGTGT
* * *
15523404 GTGTGC GTGTGCGC GCGTGC GTGCGTGC GTGTGT GTGTGT GTGTGC GTGTGC
1 GTGTGC GTGT--GC GTGTGC GT--GTGC GTGTGC GTGTGC GTGTGC GTGTGC
* * * *
15523456 GTGTGC GTGTGC GTGTGT GCGTGC GTGTGT GTGTGT GTGTG
1 GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTG
15523497 AACTGAATCT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
6 63 0.85
8 11 0.15
ACGTcount: A:0.00, C:0.14, G:0.51, T:0.35
Consensus pattern (6 bp):
GTGTGC
Done.