Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 55 of 120
Found at i:15473772 original size:57 final size:57
Alignment explanation
Indices: 15473688--15473808 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 57
15473678 TAAGGTTTAT
* * * *
15473688 GGTTTAAGGGTTGGGGTTTAAGGTTTAAGAG-TTAGGGGTTAGAGGTTAGGG-GTTAGG
1 GGTTTAGGGGTTGGGGTTTAAGATTTAAG-GTTTAGGAGATAGAGGTTAGGGAGTTA-G
* * *
15473745 GGTTTAGGGGTTAGGGG-TTATGATTTAAGGTTTAGGAGATAGGGGTTAGGGATTTAG
1 GGTTTAGGGGTT-GGGGTTTAAGATTTAAGGTTTAGGAGATAGAGGTTAGGGAGTTAG
15473802 GGTTTAG
1 GGTTTAG
15473809 ATAAATTAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.02
57 46 0.85
58 7 0.13
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (57 bp):
GGTTTAGGGGTTGGGGTTTAAGATTTAAGGTTTAGGAGATAGAGGTTAGGGAGTTAG
Found at i:15473780 original size:36 final size:36
Alignment explanation
Indices: 15473709--15473795 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
15473699 TGGGGTTTAA
* * *
15473709 GGTTTAAGAGTTAGGGGTTAGAGGTTAGGGGTTAGG
1 GGTTTAGGGGTTAGGGGTTAGAGGTTAAGGGTTAGG
* *
15473745 GGTTTAGGGGTTAGGGGTTATGA-TTTAAGGTTTAGG
1 GGTTTAGGGGTTAGGGGTTA-GAGGTTAAGGGTTAGG
* *
15473781 AG-ATAGGGGTTAGGG
1 GGTTTAGGGGTTAGGG
15473796 ATTTAGGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 12 0.28
36 29 0.67
37 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (36 bp):
GGTTTAGGGGTTAGGGGTTAGAGGTTAAGGGTTAGG
Found at i:15473787 original size:28 final size:29
Alignment explanation
Indices: 15473745--15473808 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
15473735 AGGGGTTAGG
* * *
15473745 GGTTTAGGGGTTAGGGGTTA-TGATTTAA
1 GGTTTAGGAGATAGGGGTTAGGGATTTAA
*
15473773 GGTTTAGGAGATAGGGGTTAGGGATTTAG
1 GGTTTAGGAGATAGGGGTTAGGGATTTAA
15473802 GGTTTAG
1 GGTTTAG
15473809 ATAAATTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (29 bp):
GGTTTAGGAGATAGGGGTTAGGGATTTAA
Found at i:15473807 original size:7 final size:7
Alignment explanation
Indices: 15473681--15473808 Score: 57
Period size: 7 Copynumber: 18.0 Consensus size: 7
15473671 TATGAATTAA
*
15473681 GGTTTAT
1 GGTTTAG
15473688 GGTTTAAG
1 GGTTT-AG
*
15473696 GG-TTGG
1 GGTTTAG
*
15473702 GGTTTAA
1 GGTTTAG
15473709 GGTTTAAG
1 GGTTT-AG
*
15473717 AG-TTAG
1 GGTTTAG
*
15473723 GGGTTAG
1 GGTTTAG
15473730 AGG-TTAG
1 -GGTTTAG
*
15473737 GGGTTAGG
1 GGTTTA-G
15473745 GGTTTAG
1 GGTTTAG
*
15473752 GGGTTAG
1 GGTTTAG
* *
15473759 GGGTTAT
1 GGTTTAG
* *
15473766 GATTTAA
1 GGTTTAG
15473773 GGTTTAG
1 GGTTTAG
*
15473780 GAG-ATAG
1 G-GTTTAG
*
15473787 GGGTTAG
1 GGTTTAG
15473794 GGATTTAG
1 GG-TTTAG
15473802 GGTTTAG
1 GGTTTAG
15473809 ATAAATTAGT
Statistics
Matches: 93, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
6 9 0.10
7 64 0.69
8 20 0.22
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (7 bp):
GGTTTAG
Found at i:15474180 original size:20 final size:19
Alignment explanation
Indices: 15474157--15474211 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
15474147 TATATAAAAA
15474157 TTTTAAAATTTATTT-AAT
1 TTTTAAAATTTATTTAAAT
* *
15474175 TCTTTTAAATATTACTTAAAT
1 T-TTTAAAAT-TTATTTAAAT
*
15474196 TTTCAAAATTTATTTA
1 TTTTAAAATTTATTTA
15474212 TTTAAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 11 0.38
21 4 0.14
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAAAATTTATTTAAAT
Found at i:15474450 original size:14 final size:14
Alignment explanation
Indices: 15474433--15474459 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15474423 TGTAAAGAAA
15474433 AGGGGGGAAAGATG
1 AGGGGGGAAAGATG
15474447 AGGGGGGAAAGAT
1 AGGGGGGAAAGAT
15474460 ATTTCAACAA
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:0.37, C:0.00, G:0.56, T:0.07
Consensus pattern (14 bp):
AGGGGGGAAAGATG
Found at i:15478096 original size:43 final size:43
Alignment explanation
Indices: 15478042--15478170 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
15478032 TTAAAATTTT
* * * **
15478042 TCATGACCTTTAACGGCGTTTTTTGGGAAAGCTTCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGG
* * *
15478085 TCTTGTTCTTTAGCGGCGTTTTTAAGGAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGG
*
15478128 TCATGATCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGG
15478171 CCTAAAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGG
Found at i:15481243 original size:2 final size:2
Alignment explanation
Indices: 15481236--15481277 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15481226 GTTATGCTAA
15481236 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
15481278 GAATGTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15488842 original size:702 final size:702
Alignment explanation
Indices: 15486504--15492281 Score: 6772
Period size: 703 Copynumber: 8.2 Consensus size: 702
15486494 AAATTAAAAG
* * * *
15486504 TAGAAGAGGTTGCTTGGGAACTAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATCTTCTGGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
* * * **
15486569 AAGATTTTTAGTGACAAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAATGAAGTTA
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
* * * * * * *
15486634 GAACAGTGGCTTCGAGTCCACAAATCTAACAAATCTTTGTATGGTTGAAAGTGTCGAATTCCATT
131 GAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCATT
* * * * *
15486699 TTACTGGACAGAGGTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCAAAGAAA
196 ATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGAAA
15486764 AGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTTG
261 AGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTTG
* * *
15486829 AAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGAATTTCTAAAAGTATTGCCTTCGAAGAA
326 AAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAAGAA
* * *
15486894 AGTTCATTGATTTGGCCGAAAAGGAAAGCTTAGCCTCTGGTTTATCGGGCCGTTTGAGATCATTG
391 AGTTC-TTGATTTGGCC-AAAAGGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATCATTG
* * *
15486959 AGTGAATTGGGCTAGTAGCTTAACGGTTAGCTTTGTCATCAGAGTTAGAAAAGATTCATAATGTA
454 AGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAATGTA
* * * * **
15487024 TTCTACGTATCAATGTTACAACGGTATCGATCAGATCCTTCACAAGTAATATCCCTTGTTGATGT
519 TTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGATGT
* * * *
15487089 TGAAATTCAACTTGATATGACGTACAGTGAAAAACTGATCAAAATTCTAGCTC-AGGTAGTTAAA
584 TGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGA-GAAGTTAAA
* * * * * * **
15487153 AAATTGAGAAATAAAAGTATAACTTTAGTTAAATTTTTCTGGTAACGACACAAAA
648 GAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* ** * * *
15487208 TAGAAGAGGTTGTTTGGGAACTAGAAGAAGCTATGAAAGTGTAATACTTGAACTTATTTTCTTGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
* * * *
15487273 -AGATTTTTAGGGACAAAAATTACTTTAGGGGGAAAGTTGTAACAACCCATTTTCAGTGAAGTCG
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
* * * * ** **
15487337 GAACAATGGTTTCGGGACTACAAATCTGATGAAGCTTTTTATGGTAAAAAGTGTTAAATTCCATT
131 GAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCATT
* * * * ** * **
15487402 ATACTAGATAGAGTTGAGTGAGAAAAAGTTATTAAGTATTGATTTGATTTGAGAAATTGAAGAAA
196 ATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGAAA
* * * * * *
15487467 ATGTCAAAGTGATACGTGATAGCTTGAAAACTGCTTTGGATCAATAGAAATCTTTCACAGATTTG
261 AGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTTG
* ** * * * * *
15487532 AAAAGAAAAGATACTGAATTTTGAGTCAGCAACACAATATTTGTCAAAGTATTTCCATGGAAGAA
326 AAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAAGAA
* ** *
15487597 ATTTCTTTGATTTGGTTGAAAAGGAAAGCTTAGTCCATCCGTGGTTTATTGGGCCATTTGAGATC
391 AGTTC-TTGATTTGG-CCAAAAGGAAAGCTTAGT-C-T--GTGGTTTATTGGGCCGTTTGAGATC
* * * * * *
15487662 ATTGAGAGAATTGGGCTAGTAGTTTATCGGTTAGGTTTTTCGTTAGAGTTAGGAAATATTCATAA
450 ATTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAA
* * * * * * * *
15487727 TGTATTCTACGCATCGATGTTACGACTGTATTGATTAGAACCTTCACACGTAGTATCCCCAATTG
515 TGTATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTG
* * * *
15487792 ATGTTGAAATTCAACCTGAAATGACGTACACTGAAGAACCGATCAAAAGTCTAGCTCGGGAAGTT
580 ATGTTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTT
* * * *
15487857 AAAGCATTGAGAAATAAAAGTATAGCTTTAGTTTATAGTTCTTTGGCAATGACACAGAA
645 AAAGAATTGAGAAATAAAAGTATAGCTTTAG-TTAAAGTTCTCTGGCAATGACACGGAA
* * * ** * *
15487916 TAGAAAAGGCTACCTGGAAACTGGAATAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTAGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
* * * * * *
15487981 AAGATTGTCAGGGACGAAAATTCCTTTAGGAGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTCA
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
* * * * * * * ***
15488046 GAATAGTTGTTTCAGGAACACATATCTGACGAATCTTTGTA-GCATC-AACAGTGTCGAATTTTG
131 GAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATG-GTCGAA-AGTGTCGAATTCCA
* * *
15488109 TTAGACTAGAAAAAGCTGAGCGAGAAAAAGTTATTTGGTGTTGATTTGATTTGAGAAACCGAAGA
194 TTATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGA
* *
15488174 AAAGCGT-AAAGTGATACGTGATAGCTTGAAAGCAACTTTGGAACGACAGAAATCTTACACAGAT
259 AAAG-GTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGAT
* *
15488238 TTGAAAAGAAAAGATATTGAATTTCAAGTCGGCAGCACAGTATTT-TAGAAAGTATTGCCTTGGA
323 TTGAAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCT-GAAAGTATTGCCTTGGA
* * *
15488302 AGAAAGTTCTTCGATTTGGCCAAAATGGAAAGCTTAGTCTGTGGTTTATCGGGCTGTTTGAGGTC
387 AGAAAGTTCTT-GATTTGGCCAAAA-GGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATC
** * * *
15488367 ATTGAGAGAATTGGAATAGTAGCTTAACGGTTAGCTTTGTCGTCAGAGGTAGAAAAAATTCATAA
450 ATTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAA
* * * ** * *
15488432 TGTATTCTATGTATCGATGTTACAACAATATCGATTAGATCCTTCACACGTAATATCCCTAGTTG
515 TGTATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTG
* * * *
15488497 ATGTTGACATTCAACCTGATATGACGTACAGTGAAGAATCGATCAGAATTGTAGCTCG-GAAGTT
580 ATGTTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTT
* * *
15488561 AAAGAATTGAGAAATAAAAGTATA-CTTTAGTTAAAGTTCTCTGGTAATGACATGGGA
645 AAAGAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
** * * * * *
15488618 TAGATTAGGCTACCTGGGAACCAGAATAAGCTATGAAAGTACAATACTTGAACTTATTTTTTGGG
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
* * * *
15488683 AAGATTTTTGGGGATGAAAATTCCTTTAAGGAGAGAGTTGTAACAGCCCATTTGT-AGTGAAGTC
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTT-TCAGTGAAGTC
* * *
15488747 GGAACAGTGGTTTCAGGACCACAAATCTGACGAAACTTTGTATGGTCGAAAGTGTCGAATTCCGT
130 GGAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCAT
*
15488812 TATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGACAAACCGAAGAA
195 TATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGAA
* * * *
15488877 AAGGTCAAAGTCATACTTGATAGCTTGAAAGCAGCTTTGGATCGACAAAAATCTTACGCAGATTT
260 AAGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTT
* ** ** * * *
15488942 GAAAAGAGAAGATATTGAATTTTGAGTTGGCGACACAGTATTTCTGAATGTATTTCCTTGGAAGA
325 GAAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAAGA
* *
15489007 AAGTTCGTTGATTTGGCCGAAAAGGAAAGCTTAGTCTATGGTTTATCGGGCCGTTTGAGATCATT
390 AAGTTC-TTGATTTGGCC-AAAAGGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATCATT
* * * *
15489072 TAGAGAATTGGGCTAGTAGCTTATCTGTTAGCTTTGTCATTAGAGTTAGAAAAGATTCATAATGT
453 GAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAATGT
* * *
15489137 ATTCCACGTATTGATATTACGATGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGATG
518 ATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGATG
* * * * *
15489202 TTGAAATTCTACTTGATATGACGTACAGTGAAGAACCGATTAAAATTCTAGCTCGTGAAGCTAAA
583 TTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTAAA
* *
15489267 GAATTAAGAAATAAAAGTATAGCTTTAGTT-AAGTTCTCTGGAAATGACACGGAA
648 GAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* * * *
15489321 TAGAAGAGGCTGCCTTGCAGCCGGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
** * * * *
15489386 AAGATTTCCAGGGACAAAAATT-CTTGTAGGAGGAGAGTTGTAACAACCCGTTTTCAGTGAAGTC
66 AAGATTTTTAGGGACGAAAATTCCTT-TAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTC
* * * * * * * *
15489450 GGAA-TGCTAGTTTTGGGGCCACAAATTTGAGGAAGCTTTGTATGGTCGAAAGTTTCGAATTCTA
130 GGAACAG-TGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCA
* * * ** * *
15489514 TTATACTGGAAAAAG-TGTAGTGAGAAAATTTTTTTCGGTGTTGAATTT-ATTTGAGAAACCAAA
194 TTATACTAGACAAAGCTG-AGCGAGAAAAAGTTATTCGGTGTTG-ATTTGATTTGAGAAACCGAA
* * * * *
15489577 GAGAAGGTCAAAGTGATACGTGATTGCTTGAAAGAAACTTTGGATCGACAAAAATCTTACACAGA
257 GAAAAGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGA
* * ** * * * *
15489642 TTTGAAAATAAAAGATATTGAATTTCAAGTCGGTGACATAATATATCTAAAAGTATTGCCTTGGA
322 TTTGAAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGA
* * *
15489707 AGAAAGTTATGTGATTTGGCCAAAAAGGAAAG-TTGAGTCTATGGTTTATTAGGCCGTTTGAGAT
387 AGAAAGTTCT-TGATTTGGCC-AAAAGGAAAGCTT-AGTCTGTGGTTTATTGGGCCGTTTGAGAT
* * ** * * * *
15489771 CATTGAGGGAATTGGGCCAACAGCTTATCAGTTAGCTTTGCCGTTAGAGTTAGAAAATATTCATA
449 CATTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATA
* *
15489836 ATGTATTTCACGTATCGATGTTACGACGGTACCGATCAGATCCTTCACACGTAATATCCCCAGTT
514 ATGTATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTT
* * * * * * * *
15489901 GATGTTGAAATTTATCCTAATATAACGTACAGTGAAGAACTGGTCAGAATTTTAGCTC-AGGAAG
579 GATGTTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGA-GAAG
* * *
15489965 TTAAAGAATTAATG-AATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATCACATGGAA
643 TTAAAGAATTGA-GAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* *
15490025 TAGAAGAGGCTGCCTGGGACCCAGAAGCAA-CTATGAAAGTGCAATACTTGAACTTATTTTCTAG
1 TAGAAGAGGCTGCCTGGGAACCAGAAG-AAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGG
* ** * * * * * * *
15490089 TAAGATTTTTGGGGACGAAAATTATTTTAGGGGAAAAGTTTTAACAACCCATTTTAAGTGAAATT
65 TAAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTC
* * ** * * * *
15490154 GAAATAGTGGTTTCAAGACCACATAT-TCGACAAAGATTTGTATGGTCGAAAGTGTCGAATTCGA
130 GGAACAGTGGTTTCGGGACCACAAATCT-GACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCA
* * * * * * *
15490218 TTATACTGGACAGAGCTGAGTGAGAAAAAGTTATTCAGTGTTGATTTGATTTAAGAAACCTAATA
194 TTATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGA
* * * * ** *
15490283 AATGGTCAAAGTGATACGTGAGAGCTT-AAATGCAGCTTTGGATCGAAAGAAATATTATGCTGAT
259 AAAGGTCAAAGTGATACGTGATAGCTTGAAA-GCAGCTTTGGATCGACAGAAATCTTACACAGAT
*
15490347 TTGAAAAGAAAAGATATTGAATTTCAAGTCAACAACACAGTATTTCTGAAAGTATTGCCTTGGAA
323 TTGAAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAA
* * *
15490412 GAAAGTTCTTCGATTTGGCGGAAAAGGAAAGCTTAGTCTCTGGTTTATTAGGCCGTTTGAGATCA
388 GAAAGTTCTT-GATTTGGC-CAAAAGGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATCA
* * * * * *
15490477 TTGTGAAAATTGGGCCAGTAGCTTATGGGTTAGCTTTGCCGTCAGATTTAGAAAAGATTCATAAT
451 TTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAAT
* * * * * * *
15490542 GTATTCCACATATCAATGTTAC-ACGGTACCAATTAGATCCTTCACACGTAATATCCCCAATTAA
516 GTATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGA
* *
15490606 TGTTGAAATTCAACCTGATATGACGTATAGTGAAGAACCGATCAGAATTCTAGCTCGAGAAGTTA
581 TGTTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTA
* *
15490671 AAGAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTTTGGCAACGACACGGAA
646 AAGAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* * * * *
15490728 TACAAGAGGCTTCCTGGGAACCGGAAGAAGCTATGAAAGT-CTAATACTTGAATTTATTTTCTAG
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGC-AATACTTGAACTTATTTTCTGG
* * * *
15490792 TAAGATTTTCAGGGATGAAAAATTCGTTTAGGGGGAGAGTTGTAACAGCCAATTTTCAGTGAAGT
65 TAAGATTTTTAGGGACG-AAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGT
* * * * *
15490857 CGGAATAGTGGTTTTGAGACCACAAATCTGACGAAGCTTGGTATGGTCAAAAGTGTCGAATTCCA
129 CGGAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCA
* * * * * ** *
15490922 TTATAATGGATAGAGCTGAGTGAGAAAAAGTTATTCAATATTGATTTGATTTGAGAAACCGAAGA
194 TTATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGA
* * * *
15490987 AAATGTCAAAGTAATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTTCGC-GTAT
259 AAAGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAG-AT
* *** * * *
15491051 TTGAAAAGAAAATATATTGAATTTCTTTTCAGTAACACAATATTTGTGAAAGTATTGCCTTGGAA
323 TTGAAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAA
* *
15491116 GAAAGTTCTTTGATTTGGCTGAAAAGGAAAGCTTAGTCTGTCCGTGGTTTATTGGGCCATTTGAG
388 GAAAGTTC-TTGATTTGGC-CAAAAGGAAAGCTTAGTC--T--GTGGTTTATTGGGCCGTTTGAG
* * * *
15491181 ATCATTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGGTTT-TCCATTAGAGTTAGAAAATATTC
447 ATCATTGAGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGT-CGTCAGAGTTAGAAAAGATTC
* * * * *
15491245 ATAATATAATCCACGTATCGATGTTACGACGATA-CGAATCAGATCCTTCATACATAATATCCCC
511 ATAATGTATTCCACGTATCGATGTTACGACGGTATCG-ATCAGATCCTTCACACGTAATATCCCC
* * *
15491309 AGTTGATGTTGAAATTCAACCTAATATGACTTACAGAGAAGAACCGATCAAAATTCTAGCTCGAG
575 AGTTGATGTTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAG
* * * *
15491374 AAGTTAAAGAATTGAGAAATAAAAGTATAACTTTAGTTAAAGTTATTTGGCAATGACACAGAA
640 AAGTTAAAGAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* * * * *
15491437 TACAAGAGGGTGCCTGGGAACCAGAAGAAGCGATGAAAGTGGAATACTTGAATTTATTTTCTGGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
* * * * * ** * *
15491502 AAGATTTTTAGGAACAAAAATTCCTTGAGGGGGAGAGTTGTAGCAGTCGGTTTTCAGTAAAGTCA
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
* *
15491567 GAACAGTGGTTTCGGGACCACAAATTTGACGAAGCTTTGTATGGTCAAAAGTGTCGAATTCCATT
131 GAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCATT
* * * * * *
15491632 ATACGAGACAAAGTTGAGCGACAAAAGGTTATTCGGTGGTGATTTGATTTGAGAAACTGAAGAAA
196 ATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGAAA
* * * **
15491697 AGTTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGACCAACAGAAATCTTACGTAGATTTG
261 AGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTTG
* * ** * *
15491762 AAAACAAAAGATATTGAATTTCAAGTCGGTGACACAGTATTTCTGAACGTATTACCTTGGAAGAA
326 AAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAAGAA
*
15491827 AGTTCTTCGATTTGGCCGAAAAAGAAAGCTTAGTC--T-G-----T----CGTTT---ATC----
391 AGTTCTT-GATTTGGCC-AAAAGGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATCATTG
* * * *
15491873 -G-TAATTGGGCTAGTAGCTTATCAGTTAGCTTTGACGTCGGAGTTAGAAAAGATTCAT-ATAGT
454 AGAGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAAT-GT
* * * * *
15491935 ATTCCACGTATCAATGTTATGACAGTATTGATCAGATCCTTCACACGTAATATCACCAGTTGATG
518 ATTCCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGATG
* * * * * *
15492000 TTGAAATTCAACCTGACATGACGTACAATGTAGAACTGGTCAGAATTCTAGCTCGAGAAGTTAAA
583 TTGAAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTAAA
* * * * **
15492065 GAATTTAGAAATAAAAGTATAACTTTAGTCAAAGTTCTTTGGCAACAACACGGAA
648 GAATTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
* ** * *
15492120 TAGAAGAGGCTGTCTGGGAACTGGAAGAAGCTATGAAAGTTCAATACTTGAACTTATTTTTTGGT
1 TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
** * * * * *
15492185 AAGATTTTCGGGGATGAAAATTCCTTTAGGGGGAGAGTTGTAATAGCCCATTTTTAGTGAAATCA
66 AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
* * *
15492250 AAATAGTGGTTTCGGGACCACAAGTCTGACGA
131 GAACAGTGGTTTCGGGACCACAAATCTGACGA
15492282 GTAAAGTTTT
Statistics
Matches: 4337, Mismatches: 671, Indels: 153
0.84 0.13 0.03
Matches are distributed among these distances:
682 2 0.00
683 341 0.08
684 2 0.00
689 3 0.00
692 4 0.00
696 1 0.00
701 3 0.00
702 581 0.13
703 1156 0.27
704 850 0.20
705 198 0.05
706 1 0.00
707 218 0.05
708 473 0.11
709 502 0.12
710 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (702 bp):
TAGAAGAGGCTGCCTGGGAACCAGAAGAAGCTATGAAAGTGCAATACTTGAACTTATTTTCTGGT
AAGATTTTTAGGGACGAAAATTCCTTTAGGGGGAGAGTTGTAACAGCCCATTTTCAGTGAAGTCG
GAACAGTGGTTTCGGGACCACAAATCTGACGAAGCTTTGTATGGTCGAAAGTGTCGAATTCCATT
ATACTAGACAAAGCTGAGCGAGAAAAAGTTATTCGGTGTTGATTTGATTTGAGAAACCGAAGAAA
AGGTCAAAGTGATACGTGATAGCTTGAAAGCAGCTTTGGATCGACAGAAATCTTACACAGATTTG
AAAAGAAAAGATATTGAATTTCAAGTCAGCAACACAGTATTTCTGAAAGTATTGCCTTGGAAGAA
AGTTCTTGATTTGGCCAAAAGGAAAGCTTAGTCTGTGGTTTATTGGGCCGTTTGAGATCATTGAG
AGAATTGGGCTAGTAGCTTATCGGTTAGCTTTGTCGTCAGAGTTAGAAAAGATTCATAATGTATT
CCACGTATCGATGTTACGACGGTATCGATCAGATCCTTCACACGTAATATCCCCAGTTGATGTTG
AAATTCAACCTGATATGACGTACAGTGAAGAACCGATCAAAATTCTAGCTCGAGAAGTTAAAGAA
TTGAGAAATAAAAGTATAGCTTTAGTTAAAGTTCTCTGGCAATGACACGGAA
Found at i:15493709 original size:14 final size:14
Alignment explanation
Indices: 15493690--15493719 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15493680 TGAAAAGGGA
15493690 TTGAAACAATAAGT
1 TTGAAACAATAAGT
15493704 TTGAAACAATAAGT
1 TTGAAACAATAAGT
15493718 TT
1 TT
15493720 CCAAATGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (14 bp):
TTGAAACAATAAGT
Found at i:15494820 original size:16 final size:16
Alignment explanation
Indices: 15494801--15494831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15494791 ATATTAATTT
*
15494801 TATTTAATCTTAAAAA
1 TATTTAATATTAAAAA
15494817 TATTTAATATTAAAA
1 TATTTAATATTAAAA
15494832 TTACAAAAAT
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:15501372 original size:56 final size:50
Alignment explanation
Indices: 15501156--15501402 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 50
15501146 GATAATAACA
* * ** * * * *
15501156 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * * ** * *
15501205 TACCAATTCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* **
15501255 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
15501305 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC-A-G
*
15501360 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15501403 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 32, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 35 0.22
50 79 0.50
53 3 0.02
54 1 0.01
55 1 0.01
56 40 0.25
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:15513232 original size:16 final size:17
Alignment explanation
Indices: 15513211--15513246 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15513201 GATGATCAAA
15513211 TACAAA-CTTCAAACGG
1 TACAAAGCTTCAAACGG
15513227 TACAAAGCTTCAAACGG
1 TACAAAGCTTCAAACGG
15513244 TAC
1 TAC
15513247 CATTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (17 bp):
TACAAAGCTTCAAACGG
Found at i:15517453 original size:19 final size:19
Alignment explanation
Indices: 15517429--15517467 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15517419 CACATGTTTC
*
15517429 ATTTCATGCGTACAAACCT
1 ATTTCATGCATACAAACCT
15517448 ATTTCATGCATACAAACCT
1 ATTTCATGCATACAAACCT
15517467 A
1 A
15517468 GTCCATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (19 bp):
ATTTCATGCATACAAACCT
Found at i:15517959 original size:40 final size:40
Alignment explanation
Indices: 15517864--15518102 Score: 166
Period size: 40 Copynumber: 6.0 Consensus size: 40
15517854 CTGCATTTAG
*
15517864 GGGTACCAAAGTATAAACA-AGGGCACGTATGTGCAATC-A
1 GGGTACCAAAGTACAAACAGA-GGCACGTATGTGCAATCAA
* ** * *
15517903 GCGATAATGAAA-TACAAACAGAGGCACGTGTGAGCAATCAA
1 G-GGT-ACCAAAGTACAAACAGAGGCACGTATGTGCAATCAA
* * * *
15517944 GGGTACCAAAGTACAAAAAGGGGAACATATGTGCAATCAA
1 GGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATCAA
* * * * *
15517984 GGGTACCAAAGTACCAACAGGGGTACGTATGTGTAGTC-A
1 GGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATCAA
* * *
15518023 GGGATACCGAAGTGCAAACA-AGGGCACGTATGTGGAATC-A
1 GGG-TACCAAAGTACAAACAGA-GGCACGTATGTGCAATCAA
* * * * * *
15518063 GGTGTACCGAAGTACCAACAGGGGCATGTTTGTCCAATCA
1 GG-GTACCAAAGTACAAACAGAGGCACGTATGTGCAATCA
15518103 TACAATAATT
Statistics
Matches: 155, Mismatches: 35, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
39 9 0.06
40 138 0.89
41 8 0.05
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.18
Consensus pattern (40 bp):
GGGTACCAAAGTACAAACAGAGGCACGTATGTGCAATCAA
Found at i:15518003 original size:80 final size:80
Alignment explanation
Indices: 15517862--15518088 Score: 194
Period size: 80 Copynumber: 2.8 Consensus size: 80
15517852 AACTGCATTT
* * * * * ** * *
15517862 AGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCAATCAGCGAT-AATGAAA-TACAAACAGA
1 AGGGATACCAAAGTACAAACAAGGGAACATATGTGCAATCAG-G-TGTACCAAAGTACCAACAGG
*
15517925 GGCACGTGTGAGCAATC
64 GGCACGTATGAGCAATC
15517942 AAGGG-TACCAAAGTACAAA-AAGGGGAACATATGTGCAATCAAGG-GTACCAAAGTACCAACAG
1 -AGGGATACCAAAGTACAAACAA-GGGAACATATGTGCAATC-AGGTGTACCAAAGTACCAACAG
* * * *
15518004 GGGTACGTATGTGTAGTC
63 GGGCACGTATGAGCAATC
* * * * * *
15518022 AGGGATACCGAAGTGCAAACAAGGGCACGTATGTGGAATCAGGTGTACCGAAGTACCAACAGGGG
1 AGGGATACCAAAGTACAAACAAGGGAACATATGTGCAATCAGGTGTACCAAAGTACCAACAGGGG
15518087 CA
66 CA
15518089 TGTTTGTCCA
Statistics
Matches: 119, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
79 13 0.11
80 98 0.82
81 8 0.07
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.16
Consensus pattern (80 bp):
AGGGATACCAAAGTACAAACAAGGGAACATATGTGCAATCAGGTGTACCAAAGTACCAACAGGGG
CACGTATGAGCAATC
Found at i:15518062 original size:120 final size:120
Alignment explanation
Indices: 15517864--15518086 Score: 261
Period size: 120 Copynumber: 1.9 Consensus size: 120
15517854 CTGCATTTAG
* *
15517864 GGGTACCAAAGTATAAACAAGGGCACGTATGTGCAATCAGCGATAATGAAATACAAACAGAGGCA
1 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAGCGATAACGAAATACAAACAGAGGCA
*
15517929 CGTGTGAGCAATCAAGG-GTACCAAAGTACAAAAAGGGGAACATATGTGCAATCAA
66 CGTATGAGCAATC-AGGTGTACCAAAGTACAAAAAGGGGAACATATGTGCAATCAA
* * * * * * * * *
15517984 GGGTACCAAAGTACCAACAGGGGTACGTATGTGTAGTCAGGGATACCGAAGTGCAAACA-AGGGC
1 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAGCGATAACGAAATACAAACAGA-GGC
* * * * *
15518048 ACGTATGTGGAATCAGGTGTACCGAAGTACCAACAGGGG
65 ACGTATGAGCAATCAGGTGTACCAAAGTACAAAAAGGGG
15518087 CATGTTTGTC
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
119 4 0.05
120 80 0.95
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (120 bp):
GGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATCAGCGATAACGAAATACAAACAGAGGCA
CGTATGAGCAATCAGGTGTACCAAAGTACAAAAAGGGGAACATATGTGCAATCAA
Found at i:15526282 original size:27 final size:27
Alignment explanation
Indices: 15526252--15526788 Score: 465
Period size: 27 Copynumber: 20.0 Consensus size: 27
15526242 GGTATAATAG
*
15526252 TCATTTAACCCTATGGAGGTATTTCGA
1 TCATTTTACCCTATGGAGGTATTTCGA
* * * *
15526279 TCATTTTAACCTACGGGGGTATTT-TA
1 TCATTTTACCCTATGGAGGTATTTCGA
* * *
15526305 GTCATTTTACCTTATGGGGGTATTTCGG
1 -TCATTTTACCCTATGGAGGTATTTCGA
* * *
15526333 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGAGGTATTTCGA
* * * * *
15526360 TCATTTTACCTTTTGGGGGTATTTTGG
1 TCATTTTACCCTATGGAGGTATTTCGA
15526387 TCATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATGGA-GGTATTTCGA
*
15526414 TCATTTTACCCTAT-GAGGGTATTTCGT
1 TCATTTTACCCTATGGA-GGTATTTCGA
*
15526441 TCATTTTACCTTATGGAGGTATTTC-A
1 TCATTTTACCCTATGGAGGTATTTCGA
* * * *
15526467 GTCATTCTATCCTATGGGGGTATTTCGG
1 -TCATTTTACCCTATGGAGGTATTTCGA
* * * * *
15526495 TTATTCTATCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGAGGTATTTCGA
* *
15526522 TTATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGAGGTATTTCGA
*
15526549 TCATTTTACCCTAT-GAGGGTATTTCGG
1 TCATTTTACCCTATGGA-GGTATTTCGA
15526576 TCATTTTAACCC-AT-GAGGGTATTTC-A
1 TCATTTT-ACCCTATGGA-GGTATTTCGA
* * *
15526602 GTCATTCTACCCTATGGGGGTATTTCAA
1 -TCATTTTACCCTATGGAGGTATTTCGA
*
15526630 TCATTTTACCCTATTGG-GTTATTTCGA
1 TCATTTTACCCTA-TGGAGGTATTTCGA
*
15526657 TCATTTTATCCTATGG-GGTTATTTCGA
1 TCATTTTACCCTATGGAGG-TATTTCGA
* *
15526684 TAATTTTACCCTATAGGA-GTATTTCGG
1 TCATTTTACCCTAT-GGAGGTATTTCGA
* *
15526711 TCATTTTACCTTAT-GAGAGTATTTCGG
1 TCATTTTACCCTATGGAG-GTATTTCGA
* *
15526738 TCATTCTACCCTATGG-GGTAGTTT-GG
1 TCATTTTACCCTATGGAGGTA-TTTCGA
* *
15526764 TCATTTTATCCTATCG-GGTATTTCG
1 TCATTTTACCCTATGGAGGTATTTCG
15526789 GTTGTTTTAC
Statistics
Matches: 437, Mismatches: 52, Indels: 43
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.01
26 34 0.08
27 383 0.88
28 15 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGAGGTATTTCGA
Found at i:15526378 original size:81 final size:81
Alignment explanation
Indices: 15526251--15526787 Score: 609
Period size: 81 Copynumber: 6.7 Consensus size: 81
15526241 GGGTATAATA
* * * * * *
15526251 GTCATTTAACCCTATGGAGGTATTTCGATCATTTTAACCTACGGGGGTATTTTAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
* *
15526316 TTATGGGGGTATTTCG
66 CTATGAGGGTATTTCG
* * * **
15526332 GTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTTTGGGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
15526397 CTATGAGGGTATTTCG
66 CTATGAGGGTATTTCG
* * * * * * *
15526413 ATCATTTTACCCTATGAGGGTATTTCGTTCATTTTACCTTATGGAGGTATTTCAGTCATTCTATC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
*
15526478 CTATGGGGGTATTTCG
66 CTATGAGGGTATTTCG
* * * *
15526494 GTTATTCTATCCTATGGGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTC-GATCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAG-TCATTTTAC
15526558 CCTATGAGGGTATTTCG
65 CCTATGAGGGTATTTCG
* * * *
15526575 GTCATTTTAACCC-ATGAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCAATCATTTTAC
1 GTCATTTT-ACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTAC
*
15526639 CCTATTG-GGTTATTTCG
65 CCTA-TGAGGGTATTTCG
* * * * * * * *
15526656 ATCATTTTATCCTATGGGGTTATTTCGATAATTTTACCCTATAGGAGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
* *
15526721 TTATGAGAGTATTTCG
66 CTATGAGGGTATTTCG
* * *
15526737 GTCATTCTACCCTAT-GGGGTAGTTT-GGTCATTTTATCCTAT-CGGGTATTTC
1 GTCATTTTACCCTATGGGGGTA-TTTCGGTCATTTTACCCTATGGGGGTATTTC
15526788 GGTTGTTTTA
Statistics
Matches: 382, Mismatches: 67, Indels: 16
0.82 0.14 0.03
Matches are distributed among these distances:
79 8 0.02
80 24 0.06
81 345 0.90
82 5 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
CTATGAGGGTATTTCG
Found at i:15530173 original size:39 final size:39
Alignment explanation
Indices: 15530119--15530204 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
15530109 TAGAAAACTA
*
15530119 TTGTACTTCGGTACCCCTGATCACACTTACGTGCCCCAG
1 TTGTACTTCGATACCCCTGATCACACTTACGTGCCCCAG
** *
15530158 TTGTACTTCGATACCCCTGATTGCACTTACGTGCCCCTG
1 TTGTACTTCGATACCCCTGATCACACTTACGTGCCCCAG
15530197 TTGTACTT
1 TTGTACTT
15530205 TAGTACTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.34
Consensus pattern (39 bp):
TTGTACTTCGATACCCCTGATCACACTTACGTGCCCCAG
Found at i:15530194 original size:20 final size:20
Alignment explanation
Indices: 15530132--15530196 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
15530122 TACTTCGGTA
**
15530132 CCCCTGATCACACTTACGTG
1 CCCCTGATTGCACTTACGTG
* * *
15530152 CCCCAG-TTGTACTT-CGATA
1 CCCCTGATTGCACTTACG-TG
15530171 CCCCTGATTGCACTTACGTG
1 CCCCTGATTGCACTTACGTG
15530191 CCCCTG
1 CCCCTG
15530197 TTGTACTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.32
20 19 0.56
21 2 0.06
ACGTcount: A:0.17, C:0.38, G:0.17, T:0.28
Consensus pattern (20 bp):
CCCCTGATTGCACTTACGTG
Found at i:15530223 original size:39 final size:39
Alignment explanation
Indices: 15530119--15530231 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
15530109 TAGAAAACTA
* * *
15530119 TTGTACTTCGGTACCCCTGATCA-CACTTACGTGCCCCAG
1 TTGTACTTAGATACCCCTAAT-AGCACTTACGTGCCCCAG
* * * *
15530158 TTGTACTTCGATACCCCTGATTGCACTTACGTGCCCCTG
1 TTGTACTTAGATACCCCTAATAGCACTTACGTGCCCCAG
* *
15530197 TTGTACTTTAG-TACTCCTAATAGCACTTTCGTGCC
1 TTGTAC-TTAGATACCCCTAATAGCACTTACGTGCC
15530232 GTGTTTATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 61 0.95
40 3 0.05
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.34
Consensus pattern (39 bp):
TTGTACTTAGATACCCCTAATAGCACTTACGTGCCCCAG
Found at i:15534141 original size:29 final size:29
Alignment explanation
Indices: 15534108--15534339 Score: 173
Period size: 29 Copynumber: 8.0 Consensus size: 29
15534098 AGTCTAATCA
*
15534108 TGATGGCCGTCACCGTCCCTTTTCATAAT
1 TGATGGCCGTCACCATCCCTTTTCATAAT
* *
15534137 TGATGGTCGTCACCATCCCTTTTCATAAC
1 TGATGGCCGTCACCATCCCTTTTCATAAT
** * * *
15534166 CAATAGCCG-AAGCTATCCCTTTTCATAAT
1 TGATGGCCGTCA-CCATCCCTTTTCATAAT
* * *
15534195 TCAGTGGTCATCACCATCCCTTTTCATAAT
1 TGA-TGGCCGTCACCATCCCTTTTCATAAT
** * ** ** *
15534225 CAATAGCC-AAAGTATCCCTTTTCATAGT
1 TGATGGCCGTCACCATCCCTTTTCATAAT
*
15534253 TGATGGTCGTCACCATCCCTTTTCATAAT
1 TGATGGCCGTCACCATCCCTTTTCATAAT
* * *
15534282 TGATAGCCG-AAGCTATCCCTTTTCATAAT
1 TGATGGCCGTCA-CCATCCCTTTTCATAAT
* * *
15534311 TCAGTGGTCATCACCATCCCTTTTCATAA
1 TGA-TGGCCGTCACCATCCCTTTTCATAA
15534340 CCGATAGCTG
Statistics
Matches: 151, Mismatches: 45, Indels: 13
0.72 0.22 0.06
Matches are distributed among these distances:
28 21 0.14
29 90 0.60
30 38 0.25
31 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (29 bp):
TGATGGCCGTCACCATCCCTTTTCATAAT
Found at i:15534214 original size:59 final size:58
Alignment explanation
Indices: 15534123--15534365 Score: 353
Period size: 59 Copynumber: 4.2 Consensus size: 58
15534113 GCCGTCACCG
* *
15534123 TCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
1 TCCCTTTTCATAATTCATGGTCATCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
* *
15534181 TCCCTTTTCATAATTCAGTGGTCATCACCATCCCTTTTCATAATCAATAGCCAAAG-TA
1 TCCCTTTTCATAATTCA-TGGTCATCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
* * * ***
15534239 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTA
1 TCCCTTTTCATAATTCATGGTCATCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
* *
15534297 TCCCTTTTCATAATTCAGTGGTCATCACCATCCCTTTTCATAACCGATAGCTGAAGCTA
1 TCCCTTTTCATAATTCA-TGGTCATCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
15534356 TCCCTTTTCA
1 TCCCTTTTCA
15534366 CAATCTGATG
Statistics
Matches: 166, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
57 34 0.20
58 50 0.30
59 82 0.49
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (58 bp):
TCCCTTTTCATAATTCATGGTCATCACCATCCCTTTTCATAACCAATAGCCGAAGCTA
Found at i:15534327 original size:116 final size:117
Alignment explanation
Indices: 15534123--15534382 Score: 414
Period size: 116 Copynumber: 2.2 Consensus size: 117
15534113 GCCGTCACCG
15534123 TCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAACCAATAGCCGAAGCTATCCCTTT
1 TCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAACCAATAGCCGAAGCTATCCCTTT
*
15534188 TCATAATTCAGTGGTCATCACCATCCCTTTTCATAATCAATAGCCAAAG-TA
66 TCATAATTCAGTGGTCATCACCATCCCTTTTCATAACCAATAGCCAAAGCTA
* ***
15534239 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTT
1 TCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAACCAATAGCCGAAGCTATCCCTTT
* **
15534304 TCATAATTCAGTGGTCATCACCATCCCTTTTCATAACCGATAGCTGAAGCTA
66 TCATAATTCAGTGGTCATCACCATCCCTTTTCATAACCAATAGCCAAAGCTA
* *
15534356 TCCCTTTTCACAATCTGATGATCGTCA
1 TCCCTTTTCATAAT-TGATGGTCGTCA
15534383 ACACGCCGTT
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
116 106 0.81
117 14 0.11
118 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (117 bp):
TCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAACCAATAGCCGAAGCTATCCCTTT
TCATAATTCAGTGGTCATCACCATCCCTTTTCATAACCAATAGCCAAAGCTA
Found at i:15535684 original size:30 final size:30
Alignment explanation
Indices: 15535649--15535711 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
15535639 AATTTACCAC
*
15535649 TTTTTTAGATTATA-CAATTTTGCCCCTATT
1 TTTTTTAGATTATATC-ATTCTGCCCCTATT
* *
15535679 TTTTTTAGATTTTATCGTTCTGCCCCTATT
1 TTTTTTAGATTATATCATTCTGCCCCTATT
15535709 TTT
1 TTT
15535712 CATATGTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.57
Consensus pattern (30 bp):
TTTTTTAGATTATATCATTCTGCCCCTATT
Found at i:15543702 original size:416 final size:415
Alignment explanation
Indices: 15542927--15544582 Score: 2981
Period size: 416 Copynumber: 4.0 Consensus size: 415
15542917 AAATCGTCCC
* * **
15542927 TTTTCTTTTTATTCTAAATTTATCTTTAAATTTTAGGCCCAAAACTTTGGGAAAATTGCTCTTGA
1 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
15542992 CT-CCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGT
66 -TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGT
*
15543056 TCTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTTTTCGCTTCTTTCCTCTCTTTTAC
130 TCTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTTTTCTCTTCTTTCCTCTCTTTTAC
* **
15543121 ATCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTGGAATCAAAGTCAATCCTT
195 ACCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTT
*
15543186 GTTAACTCATTGTTCTACCAGAAATGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
260 GTTAACTCATTGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
15543251 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
325 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
15543316 ATATTGTGATCGATTAAATTCATCCG
390 ATATTGTGATCGATTAAATTCATCCG
*
15543342 TTTTATTTTTATGCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
1 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
15543407 TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
66 TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
15543472 CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTCTTTCTCTTCTTTCCTCTCTTTTAC
131 CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTT-TTTCTCTTCTTTCCTCTCTTTTAC
* *
15543537 ACCAAATTTTTCATGATTTTTTTGTTGAATTTTTATTTTTTTTTCTAAAATCAAAGTCAATCCTT
195 ACCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTT
* *
15543602 GTTAACTCATTGTTTTACCAGAAATGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
260 GTTAACTCATTGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
15543667 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
325 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
*
15543732 ATATTGTGATCGATTAAATTCGTCCG
390 ATATTGTGATCGATTAAATTCATCCG
15543758 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
1 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
15543823 TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
66 TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
*
15543888 CTCTTCAAAACCAAATAGAATTTCTTTTACCTCCCTATTTTTTTCTCTTCTTTCCTCTCTTTTAC
131 CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTA-TTTTTTCTCTTCTTTCCTCTCTTTTAC
* **
15543953 ACCAAATTTTTCATGATTTTGCTGTTGAATTTTTATTGTTTTTTCTGGAATCAAAGTCAATCCTT
195 ACCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTT
* ** *
15544018 CTTAACTTGTGGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
260 GTTAACTCATTGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAAT
15544083 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
325 TGGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATA
15544148 ATATTGTGATCGATTAAATTCATCCG
390 ATATTGTGATCGATTAAATTCATCCG
* *
15544174 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAGCTTTGGGAAAATTGCTCCAGA
1 TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
*
15544239 TGCCCTACGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
66 TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
15544304 CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTTTTCTCTTCTTTCCTCTCTTTTACA
131 CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTTTTCTCTTCTTTCCTCTCTTTTACA
* * *
15544369 TCAAATTTGTCATGATTTTTTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTTG
196 CCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTTG
* * *
15544434 TTAACTCGTTGTTCTACCAGAAACAAAATTGTCGATAGAAACATTCCAAATACTAACCAAGAATT
261 TTAACTCATTGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAATT
15544499 GGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATAA
326 GGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATAA
*
15544564 TATTATGATCGATTAAATT
391 TATTGTGATCGATTAAATT
15544583 ATCTTTCTCA
Statistics
Matches: 1195, Mismatches: 43, Indels: 6
0.96 0.03 0.00
Matches are distributed among these distances:
414 1 0.00
415 393 0.33
416 798 0.67
417 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (415 bp):
TTTTATTTTTATTCTAAATTTATCTTTAAATTTTATGCCCAAAACTTTGGGAAAATTGCTCCCGA
TGCCCTAGGGTTCCCAAACCCTATATTTTTAATCCAACTTTACCCAATTGAACAAGGATTATGTT
CTCTTCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTTTTCTCTTCTTTCCTCTCTTTTACA
CCAAATTTTTCATGATTTTGTTGTTGAATTTTTATTGTTTTTTCTAAAATCAAAGTCAATCCTTG
TTAACTCATTGTTCTACCAGAAACGAAATTGTCAATAGAAACATTCCAAATACTAACCAAGAATT
GGTAAGTACGCCTCAATCTCGACGTTTAGATCTCGAATCACTATATGACTTCTATCTAACAATAA
TATTGTGATCGATTAAATTCATCCG
Found at i:15547915 original size:16 final size:18
Alignment explanation
Indices: 15547894--15547931 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15547884 TTCTATAGGG
15547894 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
15547910 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
15547928 ATTT
1 ATTT
15547932 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:15553620 original size:27 final size:27
Alignment explanation
Indices: 15553576--15553801 Score: 258
Period size: 27 Copynumber: 8.4 Consensus size: 27
15553566 CGTGCAATTC
** *
15553576 ATGGGT-AAATTACTGAAATACCCTTG
1 ATGGGTAAAATTACCAAAATACCCTCG
** * * *
15553602 AAAGGTAAACTTACCGAAATACCC-CTA
1 ATGGGTAAAATTACCAAAATACCCTC-G
* *
15553629 AAGGGTAAAATTACCAAAAAACCCTCG
1 ATGGGTAAAATTACCAAAATACCCTCG
*
15553656 ATGGGTAAAATTACCAAAATACCGTCG
1 ATGGGTAAAATTACCAAAATACCCTCG
** *
15553683 ATGGGTAAAATTACTGAAATATCCTCG
1 ATGGGTAAAATTACCAAAATACCCTCG
*
15553710 ATGGGTAAAATTACCAAAATACCCTTG
1 ATGGGTAAAATTACCAAAATACCCTCG
* *
15553737 ATGGGTAAAATTATCGAAATACCCTCG
1 ATGGGTAAAATTACCAAAATACCCTCG
*
15553764 ATGGGTAAAATTACTAAAATACCCTCG
1 ATGGGTAAAATTACCAAAATACCCTCG
*
15553791 AAGGGTAAAAT
1 ATGGGTAAAAT
15553802 AACCGTATTG
Statistics
Matches: 168, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 163 0.97
28 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
ATGGGTAAAATTACCAAAATACCCTCG
Found at i:15553815 original size:27 final size:27
Alignment explanation
Indices: 15553650--15553854 Score: 83
Period size: 27 Copynumber: 7.6 Consensus size: 27
15553640 TACCAAAAAA
* * ** *
15553650 CCCTCGATGGGTAAAATTACCAAAATA
1 CCCTCGAAGGGTAAAATAACCGTAATG
* * * * * *
15553677 CCGTCGATGGGTAAAATTACTGAAATA
1 CCCTCGAAGGGTAAAATAACCGTAATG
* * * ** *
15553704 TCCTCGATGGGTAAAATTACCAAAATA
1 CCCTCGAAGGGTAAAATAACCGTAATG
* * * * * *
15553731 CCCTTGATGGGTAAAATTATCGAAATA
1 CCCTCGAAGGGTAAAATAACCGTAATG
* * *** *
15553758 CCCTCGATGGGTAAAATTACTAAAATA
1 CCCTCGAAGGGTAAAATAACCGTAATG
*
15553785 CCCTCGAAGGGTAAAATAACCGTATTG
1 CCCTCGAAGGGTAAAATAACCGTAATG
*
15553812 CCCT--ATAGGGTAAAATGACCGTAATG
1 CCCTCGA-AGGGTAAAATAACCGTAATG
*
15553838 -CCTCTGTAGGGTAAAAT
1 CCCTC-GAAGGGTAAAAT
15553855 GAATGTGATG
Statistics
Matches: 149, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.03
26 18 0.12
27 127 0.85
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
CCCTCGAAGGGTAAAATAACCGTAATG
Found at i:15553849 original size:53 final size:53
Alignment explanation
Indices: 15553792--15553897 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
15553782 ATACCCTCGA
*
15553792 AGGGTAAAAT-AACCGT-ATTG-CCCTATAGGGTAAAATGACCGTAATGCCTCTGT
1 AGGGTAAAATGAA-CGTGA-TGCCCCTATA-GGTAAAATGACCGTAATACCTCTGT
* *
15553845 AGGGTAAAATGAATGTGATGCCCCTATAGGTAAAATGACTGTAATACCTCTGT
1 AGGGTAAAATGAACGTGATGCCCCTATAGGTAAAATGACCGTAATACCTCTGT
15553898 TAGGTGAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
53 37 0.79
54 10 0.21
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (53 bp):
AGGGTAAAATGAACGTGATGCCCCTATAGGTAAAATGACCGTAATACCTCTGT
Found at i:15553855 original size:27 final size:27
Alignment explanation
Indices: 15553792--15553895 Score: 113
Period size: 26 Copynumber: 3.9 Consensus size: 27
15553782 ATACCCTCGA
* *
15553792 AGGGTAAAATAACCGTATTGCC-CTAT
1 AGGGTAAAATGACCGTAATGCCTCTAT
*
15553818 AGGGTAAAATGACCGTAATGCCTCTGT
1 AGGGTAAAATGACCGTAATGCCTCTAT
** * *
15553845 AGGGTAAAATGAATGTGATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCTCTAT
* *
15553872 A-GGTAAAATGACTGTAATACCTCT
1 AGGGTAAAATGACCGTAATGCCTCT
15553896 GTTAGGTGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 39 0.60
27 26 0.40
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCTCTAT
Found at i:15553986 original size:24 final size:24
Alignment explanation
Indices: 15553955--15554049 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
15553945 CCCCTCAGGT
15553955 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTGTGATG
* * * *
15553979 TAAGTGATTAATTTGTCCGAGATG
1 TAAATGATTGATTTGTCTGTGATG
*
15554003 TAAATGATTGATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATG
*
15554027 TAAATGACTGATTTGTCTGTGAT
1 TAAATGATTGATTTGTCTGTGAT
15554050 TGGTATGACT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.44
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATG
Found at i:15554057 original size:24 final size:23
Alignment explanation
Indices: 15553958--15554087 Score: 95
Period size: 24 Copynumber: 5.4 Consensus size: 23
15553948 CTCAGGTTAA
*
15553958 ATGATTGATTTGTCTGTGA-TGT
1 ATGACTGATTTGTCTGTGATTGT
* * * *
15553980 AAGTGATTAATTTGTCCGAGA-TGT
1 -A-TGACTGATTTGTCTGTGATTGT
*
15554004 AAATGATTGATTTGTCTGTGATT-T
1 --ATGACTGATTTGTCTGTGATTGT
15554028 AAATGACTGATTTGTCTGTGATTGGT
1 --ATGACTGATTTGTCTGTGATT-GT
*
15554054 ATGACTGATTTGTTTGTGAATTGT
1 ATGACTGATTTGTCTGTG-ATTGT
*
15554078 ATAACTGATT
1 ATGACTGATT
15554088 CTGAGCATGG
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.01
24 84 0.91
25 6 0.07
26 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (23 bp):
ATGACTGATTTGTCTGTGATTGT
Found at i:15554232 original size:26 final size:26
Alignment explanation
Indices: 15554203--15554260 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
15554193 TTGGCCACAT
* *
15554203 ATACTATTACGGGCAGCTTTATTGCG
1 ATACTATTACGGGCAACTTTACTGCG
* * * *
15554229 ATACTGTTGCTGGCAACTTTGCTGCG
1 ATACTATTACGGGCAACTTTACTGCG
15554255 ATACTA
1 ATACTA
15554261 CTGATGGCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (26 bp):
ATACTATTACGGGCAACTTTACTGCG
Found at i:15554300 original size:32 final size:32
Alignment explanation
Indices: 15554259--15554429 Score: 204
Period size: 32 Copynumber: 5.4 Consensus size: 32
15554249 GCTGCGATAC
15554259 TACTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * **
15554291 TACTGATGGCTTTGTGTCGATCATATTACAAT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
15554323 TACTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * *
15554355 TACTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATTACCGT
* *
15554387 TACTGA-GGACTTTTTGCCAATCATATTACTG-
1 TACTGATGG-CTTTGTGCCAATCATATTACCGT
*
15554418 TACTTATGGCTT
1 TACTGATGGCTT
15554430 GTAGCATTCT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
31 12 0.10
32 105 0.88
33 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:15554338 original size:64 final size:65
Alignment explanation
Indices: 15554257--15554431 Score: 241
Period size: 64 Copynumber: 2.7 Consensus size: 65
15554247 TTGCTGCGAT
* *
15554257 ACTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTT-TGTGTCGATCATATTACA
1 ACTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTTGTGTGCCGATCATATCACA
* *
15554321 ATTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGG-TTGTGTGCCGATCATATCACT
1 ACTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTTGTGTGCCGATCATATCACA
* * * *
15554385 GCTACTGA-GGACTTTTTGCCAATCATATTACTG-TACTTATGGCTTGT
1 ACTACTGATGG-CTTTGTGCCAATCATATTACCGTTACTGATGGCTTGT
15554432 AGCATTCTGT
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
63 12 0.12
64 87 0.88
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (65 bp):
ACTACTGATGGCTTTGTGCCAATCATATTACCGTTACTGATGGCTTGTGTGCCGATCATATCACA
Found at i:15554445 original size:21 final size:22
Alignment explanation
Indices: 15554421--15554471 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
15554411 ATTACTGTAC
* * *
15554421 TTATGGCTTGTAGC-ATTCTGT
1 TTATAGCTTATAGCTATCCTGT
15554442 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCTATCCTGT
*
15554464 TTACAGCT
1 TTATAGCT
15554472 CTTAGCCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (22 bp):
TTATAGCTTATAGCTATCCTGT
Found at i:15554748 original size:33 final size:33
Alignment explanation
Indices: 15554687--15554751 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
15554677 GATACTGTAA
* *
15554687 TGGGCTAAGGCCCACACTACACTTTTACTGTTT
1 TGGGCTAAAGCCCACACTACACTATTACTGTTT
* **
15554720 TGGGCTAAAGCCCACATTATTCTATTACTGTT
1 TGGGCTAAAGCCCACACTACACTATTACTGTT
15554752 AAAGGACTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (33 bp):
TGGGCTAAAGCCCACACTACACTATTACTGTTT
Found at i:15562530 original size:22 final size:22
Alignment explanation
Indices: 15562502--15562654 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
15562492 TGTTGATAGT
*
15562502 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
15562524 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
15562546 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
15562568 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
15562590 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
15562612 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
15562634 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
15562655 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:15580193 original size:33 final size:33
Alignment explanation
Indices: 15580156--15580222 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
15580146 TACTCAAATG
15580156 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
1 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
15580189 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
1 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
15580222 T
1 T
15580223 TACTCGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.03, T:0.52
Consensus pattern (33 bp):
TCATGATCTTTAATTTCCTCTTTACTTACTCTC
Found at i:15580577 original size:50 final size:50
Alignment explanation
Indices: 15580453--15580696 Score: 260
Period size: 50 Copynumber: 4.9 Consensus size: 50
15580443 GATAATAACA
* * * ** *
15580453 TGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGT-TTA-CT-GTAG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCG--G
* * * * * ** * *
15580502 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
15580552 TGCCTATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
15580602 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
15580652 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT
15580697 AATCTTAATG
Statistics
Matches: 164, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 31 0.19
50 131 0.80
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15580630 original size:100 final size:103
Alignment explanation
Indices: 15580501--15580744 Score: 296
Period size: 100 Copynumber: 2.4 Consensus size: 103
15580491 GTTTACTGTA
* * * ** * * *
15580501 GTGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCTATGCCATGT
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
*
15580566 CCCAAACATGGTCTTACGGGGGACCTCTC-ATC-T-CG
66 CCCAAACATGGTCTTACAGGGGACCTCTCAATCTTACG
* * *
15580601 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATGT
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
* *
15580666 CCCAAACATGGTCTTACATGGGACCTCTCATAATCTTAATG
66 CCCAAACATGGTCTTACAGGGGACCTCTC--AATCTT-ACG
* *
15580707 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGA
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15580745 TCTCATTCCC
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
100 81 0.67
103 3 0.02
104 1 0.01
106 36 0.30
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (103 bp):
GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
CCCAAACATGGTCTTACAGGGGACCTCTCAATCTTACG
Found at i:15588431 original size:31 final size:31
Alignment explanation
Indices: 15588393--15588454 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
15588383 CAAAGTAAGC
*
15588393 TTTGGAAGCTTAGTAAGCCATAAGCAAATAA
1 TTTGGAAGCTTAATAAGCCATAAGCAAATAA
15588424 TTTGGAAGCTTAATAAGCCATAAGCAAATAA
1 TTTGGAAGCTTAATAAGCCATAAGCAAATAA
15588455 ATCATCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (31 bp):
TTTGGAAGCTTAATAAGCCATAAGCAAATAA
Found at i:15588773 original size:41 final size:40
Alignment explanation
Indices: 15588714--15588793 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
15588704 CATATTAACG
* *
15588714 CATATCGATGCCACTGTCCCAGACAGGGTCTTATACGAAT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTAGACGAAT
* *
15588754 CATATACGATGTCAATGTCCCAGACATGGTCTTAGACGAA
1 CATAT-CGATGCCAATGTCCCAGACAGGGTCTTAGACGAA
15588794 ATCACACCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCCAGACAGGGTCTTAGACGAAT
Found at i:15592781 original size:18 final size:17
Alignment explanation
Indices: 15592738--15592781 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
15592728 CAATCATCCC
15592738 TCATTCATCTTTCATTTA
1 TCATTC-TCTTTCATTTA
*
15592756 ACATTTCTCTTTCATTATA
1 TCA-TTCTCTTTCATT-TA
15592775 TCATTCT
1 TCATTCT
15592782 TTCATTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTCTCTTTCATTTA
Found at i:15599645 original size:27 final size:28
Alignment explanation
Indices: 15599585--15599660 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
15599575 GGTTAAAATA
* * *
15599585 ATAAAATTTGTAAAGTAAGGGACAAAATT
1 ATAAAATTTGAAAAAT-AGGGACAAAAGT
*
15599614 GTAAAATTTGAAAAATAGGG-CAAAAGT
1 ATAAAATTTGAAAAATAGGGACAAAAGT
15599641 ATAAAATCTT-AAAAATAGGG
1 ATAAAAT-TTGAAAAATAGGG
15599661 GAAACTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 22 0.54
28 6 0.15
29 13 0.32
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (28 bp):
ATAAAATTTGAAAAATAGGGACAAAAGT
Found at i:15599672 original size:27 final size:27
Alignment explanation
Indices: 15599602--15599680 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
15599592 TTGTAAAGTA
15599602 AGGGACAAAATTGTAAAAT-TTGAAAAAT
1 AGGG-CAAAATTGTAAAATCTT-AAAAAT
* *
15599630 AGGGCAAAAGTATAAAATCTTAAAAAT
1 AGGGCAAAATTGTAAAATCTTAAAAAT
* *
15599657 AGGGGAAACTTGTAAAATC-TAAAA
1 AGGGCAAAATTGTAAAATCTTAAAA
15599681 CTTTGGGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.11
27 33 0.75
28 6 0.14
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (27 bp):
AGGGCAAAATTGTAAAATCTTAAAAAT
Found at i:15610005 original size:17 final size:17
Alignment explanation
Indices: 15609979--15610013 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15609969 ACTAACATGA
*
15609979 AAATGTAATGACAATAT
1 AAATGCAATGACAATAT
15609996 AAATGCAATGACAATAT
1 AAATGCAATGACAATAT
15610013 A
1 A
15610014 TGTTTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (17 bp):
AAATGCAATGACAATAT
Found at i:15614812 original size:208 final size:208
Alignment explanation
Indices: 15614454--15615181 Score: 1041
Period size: 208 Copynumber: 3.5 Consensus size: 208
15614444 AACGACGTCT
*
15614454 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGTTGAAGTCAATCATT
1 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
* *
15614519 AGCGGCGCTTTAGAGGAAGTGCCGCAAAAAGTTTTAAGCATACACCGTCATTTTCTGTTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
15614584 AGGGACATTAGTGGCACTTCGCGAAAAATGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
131 AGGGACATTAGTGGCACTTCGCGAAAAATGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
*
15614649 GCAGACGACAACA
196 GCAAACGACAACA
* *
15614662 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCACTTCAAAGAAATTGCCGCTGAAGTCAATCATT
1 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
* * * *
15614727 ACCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCATCGTTTTTTGTTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
* *
15614792 AGGGACATTAGTGGCACTTCGCGAAAAATGTCGCAAAAGTCAAGCATTATTGGTAATAGTTTTAG
131 AGGGACATTAGTGGCACTTCGCGAAAAATGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
* *
15614857 ACAAACAACAACA
196 GCAAACGACAACA
* * *
15614870 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCGAAGAAATCACCGCCGAAGTCAATCATT
1 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
*
15614935 AGCGGCGCTTTTGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
* * * ** * *
15615000 AAGGAAATTAGTGGCGCTTCGCGAAAAATGCCATAAAATTCAAGCATTATCGATAATAGTTTTAG
131 AGGGACATTAGTGGCACTTCGCGAAAAATGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
*
15615065 GCAAACGACAGCA
196 GCAAACGACAACA
* * * * * * ** * *
15615078 TTTTCTT-TTCAGATTTAGAGACATTAGTGGCGCATTGC-CAGAAA-CGTCGCAAAATTCAATAA
1 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGC-TT-CAAAGAAATCGCCGCTGAAGTCAATCA
* * * *
15615140 TTAGCGGCGTTTTTATA-GTAGCGCCGCAAAAAATTTTAAGCA
64 TTAGCGGCG-CTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCA
15615182 AATGGCAACA
Statistics
Matches: 465, Mismatches: 52, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
207 66 0.14
208 398 0.86
209 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (208 bp):
TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
AGGGACATTAGTGGCACTTCGCGAAAAATGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
GCAAACGACAACA
Found at i:15615912 original size:7 final size:7
Alignment explanation
Indices: 15615900--15615944 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
15615890 GGGGTTCGTG
15615900 GGTTTAA
1 GGTTTAA
15615907 GGTTTAA
1 GGTTTAA
*
15615914 GGGTTAA
1 GGTTTAA
*
15615921 GGGTTTAG
1 -GGTTTAA
15615929 GGTTTAA
1 GGTTTAA
*
15615936 GGTCTAA
1 GGTTTAA
15615943 GG
1 GG
15615945 AATAGAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.24, C:0.02, G:0.38, T:0.36
Consensus pattern (7 bp):
GGTTTAA
Found at i:15615922 original size:14 final size:15
Alignment explanation
Indices: 15615899--15615944 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
15615889 TGGGGTTCGT
15615899 GGGTTTAAGGTTTAA
1 GGGTTTAAGGTTTAA
15615914 GGG-TTAAGGGTTT-A
1 GGGTTTAA-GGTTTAA
*
15615928 GGGTTTAAGGTCTAA
1 GGGTTTAAGGTTTAA
15615943 GG
1 GG
15615945 AATAGAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.24, C:0.02, G:0.39, T:0.35
Consensus pattern (15 bp):
GGGTTTAAGGTTTAA
Found at i:15618669 original size:9 final size:9
Alignment explanation
Indices: 15618643--15618722 Score: 58
Period size: 9 Copynumber: 8.9 Consensus size: 9
15618633 TTCAAATATT
15618643 ATAACTTAC
1 ATAACTTAC
* *
15618652 GTAATTTAC
1 ATAACTTAC
15618661 ATAACTTAC
1 ATAACTTAC
*
15618670 ATAA--TCC
1 ATAACTTAC
15618677 ATAACTTAC
1 ATAACTTAC
* *
15618686 ATAATTTAA
1 ATAACTTAC
*
15618695 ATTTATA-ATAC
1 A--TA-ACTTAC
15618706 ATAACTTAC
1 ATAACTTAC
15618715 ATAACTTA
1 ATAACTTA
15618723 TTAATATTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 41 0.76
11 5 0.09
12 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAC
Found at i:15618681 original size:16 final size:16
Alignment explanation
Indices: 15618660--15618690 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15618650 ACGTAATTTA
15618660 CATAACTTACATAATC
1 CATAACTTACATAATC
15618676 CATAACTTACATAAT
1 CATAACTTACATAAT
15618691 TTAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
CATAACTTACATAATC
Found at i:15618747 original size:19 final size:19
Alignment explanation
Indices: 15618723--15618779 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
15618713 ACATAACTTA
*
15618723 TTAATATTTATATATAGTT
1 TTAATATTTATATATATTT
15618742 TTAATA--TA-A-ATATTT
1 TTAATATTTATATATATTT
*
15618757 TTAAAATTTATATATATTT
1 TTAATATTTATATATATTT
15618776 TTAA
1 TTAA
15618780 AAATTGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 10 0.31
16 1 0.03
17 4 0.12
18 1 0.03
19 16 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATATTTATATATATTT
Found at i:15618836 original size:23 final size:20
Alignment explanation
Indices: 15618786--15619213 Score: 120
Period size: 18 Copynumber: 22.4 Consensus size: 20
15618776 TTAAAAATTG
15618786 ATACATTACATAACTTACATA
1 ATACA-TACATAACTTACATA
*
15618807 ACCTACATACATAAACTTACA-C
1 A--TACATACAT-AACTTACATA
*
15618829 ATA-ATACATAACTTATATA
1 ATACATACATAACTTACATA
* **
15618848 ACTTAAATTTATAA--TACATA
1 A--TACATACATAACTTACATA
*
15618868 ATA-ATACATAACCTACATA
1 ATACATACATAACTTACATA
* * *
15618887 A-A-TTAAATAAGTTACATA
1 ATACATACATAACTTACATA
**
15618905 ATAC--ACA-AA-AAACA-A
1 ATACATACATAACTTACATA
* *
15618920 AAACTTACATAACTTACATA
1 ATACATACATAACTTACATA
15618940 GTATCCTACATA-ATAACTTACATA
1 --A---TACATACATAACTTACATA
*
15618964 ATA-ATACATAACCTACATA
1 ATACATACATAACTTACATA
* * *
15618983 A-A-TTAAATAAGTTACATA
1 ATACATACATAACTTACATA
15619001 ATACAT--A-AAC--ACA-A
1 ATACATACATAACTTACATA
* *
15619015 AAACTTACATAACTTACATA
1 ATACATACATAACTTACATA
* * * *
15619035 ATACATAAATTACATAACCTA
1 ATACATACATAAC-TTACATA
* *
15619056 CTAACTTACATAACTTACATA
1 AT-ACATACATAACTTACATA
* * * *
15619077 ATACATAAATTACATAACCTA
1 ATACATACATAAC-TTACATA
*
15619098 CTTA-ATACATAACTTACATA
1 -ATACATACATAACTTACATA
15619118 ATAC--AC--AACTTACAT-
1 ATACATACATAACTTACATA
*
15619133 A-ACTTACATAA--TACAT-
1 ATACATACATAACTTACATA
* *
15619149 A-ACTTACATAACTTATATA
1 ATACATACATAACTTACATA
* *
15619168 AGACAACTTACATAATTTAC-T-
1 ATAC-A--TACATAACTTACATA
15619189 -TA-ATACATAACTTACATA
1 ATACATACATAACTTACATA
15619207 ATACATA
1 ATACATA
15619214 ACTTACATAA
Statistics
Matches: 298, Mismatches: 59, Indels: 101
0.65 0.13 0.22
Matches are distributed among these distances:
14 7 0.02
15 8 0.03
16 42 0.14
17 17 0.06
18 54 0.18
19 41 0.14
20 39 0.13
21 27 0.09
22 25 0.08
23 22 0.07
24 12 0.04
25 4 0.01
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.30
Consensus pattern (20 bp):
ATACATACATAACTTACATA
Found at i:15618905 original size:9 final size:9
Alignment explanation
Indices: 15618862--15619334 Score: 156
Period size: 9 Copynumber: 54.0 Consensus size: 9
15618852 AAATTTATAA
*
15618862 TACATAATAA
1 TACATAA-AT
**
15618872 TACATAACC
1 TACATAAAT
15618881 TACATAAAT
1 TACATAAAT
* *
15618890 TAAATAAGT
1 TACATAAAT
15618899 TACAT-AA-
1 TACATAAAT
* *
15618906 TACACAAAA
1 TACATAAAT
* *
15618915 AACAAAAACT
1 TACATAAA-T
*
15618925 TACATAACT
1 TACATAAAT
*
15618934 TACATAGTAT
1 TACATA-AAT
15618944 CCTACATAATAACT
1 --TACAT-A-AA-T
*
15618958 TACATAATAA
1 TACATAA-AT
**
15618968 TACATAACC
1 TACATAAAT
15618977 TACATAAAT
1 TACATAAAT
* *
15618986 TAAATAAGT
1 TACATAAAT
15618995 TACAT-AA-
1 TACATAAAT
15619002 TACATAAA-
1 TACATAAAT
* *
15619010 CACAAAAACT
1 TACATAAA-T
*
15619020 TACATAACT
1 TACATAAAT
15619029 TACAT-AA-
1 TACATAAAT
15619036 TACATAAAT
1 TACATAAAT
**
15619045 TACATAACC
1 TACATAAAT
*
15619054 TAC-TAACT
1 TACATAAAT
*
15619062 TACATAACT
1 TACATAAAT
15619071 TACAT-AA-
1 TACATAAAT
15619078 TACATAAAT
1 TACATAAAT
**
15619087 TACATAACC
1 TACATAAAT
*
15619096 TAC-TTAA-
1 TACATAAAT
*
15619103 TACATAACT
1 TACATAAAT
15619112 TACAT-AA-
1 TACATAAAT
* *
15619119 TACACAACT
1 TACATAAAT
*
15619128 TACATAACT
1 TACATAAAT
15619137 TACAT-AA-
1 TACATAAAT
*
15619144 TACATAACT
1 TACATAAAT
*
15619153 TACATAACT
1 TACATAAAT
*
15619162 TATATAAGACAACT
1 TACAT---A-AA-T
*
15619176 TACATAATT
1 TACATAAAT
*
15619185 TAC-TTAA-
1 TACATAAAT
*
15619192 TACATAACT
1 TACATAAAT
15619201 TACAT-AA-
1 TACATAAAT
*
15619208 TACATAACT
1 TACATAAAT
**
15619217 TACATAACC
1 TACATAAAT
15619226 TACAT-AA-
1 TACATAAAT
* *
15619233 GACATAACT
1 TACATAAAT
*
15619242 TACATAAGT
1 TACATAAAT
*
15619251 TTCAT-AA-
1 TACATAAAT
* *
15619258 TACACAACT
1 TACATAAAT
*
15619267 TACATAACT
1 TACATAAAT
15619276 TACAT-AA-
1 TACATAAAT
*
15619283 TACATAACT
1 TACATAAAT
*
15619292 TACATAATT
1 TACATAAAT
*
15619301 TAC-TTAA-
1 TACATAAAT
*
15619308 TACATAACT
1 TACATAAAT
*
15619317 TACATAACT
1 TACATAAAT
15619326 TACATAAAT
1 TACATAAAT
15619335 ATATGATGTG
Statistics
Matches: 343, Mismatches: 80, Indels: 81
0.68 0.16 0.16
Matches are distributed among these distances:
7 54 0.16
8 49 0.14
9 190 0.55
10 27 0.08
11 3 0.01
12 11 0.03
13 3 0.01
14 6 0.02
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (9 bp):
TACATAAAT
Found at i:15618906 original size:34 final size:34
Alignment explanation
Indices: 15618868--15619332 Score: 201
Period size: 34 Copynumber: 14.1 Consensus size: 34
15618858 ATAATACATA
*
15618868 ATAATACATAACCTACATAAATTAAATAAGTTAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* *** * *
15618902 ATAATACACAAAAAACAAAAACTTACATAACTTAC
1 ATAATACATAACCTACATAAA-TTAAATAACTTAC
* * * *
15618937 ATAGT--AT--CCTACAT-AA-TAACTTACATA-
1 ATAATACATAACCTACATAAATTAAATAACTTAC
*
15618964 ATAATACATAACCTACATAAATTAAATAAGTTAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
15618998 ATAATACATAAAC-ACAAAAACTTACATAACTTAC
1 ATAATACATAACCTACATAAA-TTAAATAACTTAC
** ** *
15619032 ATAATACATAAATTACATAACCT-ACTAACTTAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* *
15619065 ATAACTTACATAA--TACATAAATTACATAACCTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * * *
15619099 TTAATACATAACTTACAT-AA-TACACAACTTAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
15619131 ATAACTTACATAA--TACATAACTTACATAACTTAT
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * * **
15619165 ATAAGAC--AACTTACATAATTTACTTAA--TAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
15619195 ATAACTTACATAA--TACATAACTTACATAACCTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * * **
15619229 ATAAGACATAACTTACATAAGTTTCATAA--TAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
15619261 ACAACTTACATAACTTACAT-AA-TACATAACTTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * *
15619295 ATAATTTACTTAA--TACATAACTTACATAACTTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
15619329 ATAA
1 ATAA
15619333 ATATATGATG
Statistics
Matches: 334, Mismatches: 62, Indels: 70
0.72 0.13 0.15
Matches are distributed among these distances:
27 4 0.01
28 7 0.02
29 2 0.01
30 10 0.03
31 10 0.03
32 82 0.25
33 39 0.12
34 153 0.46
35 27 0.08
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAATACATAACCTACATAAATTAAATAACTTAC
Found at i:15618973 original size:96 final size:95
Alignment explanation
Indices: 15618862--15619034 Score: 319
Period size: 96 Copynumber: 1.8 Consensus size: 95
15618852 AAATTTATAA
15618862 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACA-AAAAAACAAAAACTTA
15618927 CATAACTTACATAGTATCCTACATAATAACT
65 CATAACTTACATAGTATCCTACATAATAACT
* *
15618958 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACATAAACACAAAAACTTAC
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACAAAAAAACAAAAACTTAC
15619023 ATAACTTACATA
66 ATAACTTACATA
15619035 ATACATAAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 27 0.36
96 48 0.64
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (95 bp):
TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACAAAAAAACAAAAACTTAC
ATAACTTACATAGTATCCTACATAATAACT
Found at i:15619005 original size:25 final size:26
Alignment explanation
Indices: 15618968--15619332 Score: 253
Period size: 25 Copynumber: 14.3 Consensus size: 26
15618958 TACATAATAA
* *
15618968 TACATAACCTACATAAATTAAATAAGT
1 TACATAA-CTACATAAATTACATAACT
* *
15618995 TACATAA-TACATAAA-CACAAAAACT
1 TACATAACTACATAAATTAC-ATAACT
*
15619020 TACATAACTTACAT-AA-TACATAAAT
1 TACATAAC-TACATAAATTACATAACT
*
15619045 TACATAACCTAC-TAACTTACATAACT
1 TACATAA-CTACATAAATTACATAACT
*
15619071 TACATAA-TACATAAATTACATAACC
1 TACATAACTACATAAATTACATAACT
* *
15619096 TACTTAA-TACATAACTTACATAA--
1 TACATAACTACATAAATTACATAACT
* *
15619119 TACACAACTTACATAACTTACATAA--
1 TACATAAC-TACATAAATTACATAACT
* *
15619144 TACATAACTTACATAACTTATATAAGACAACT
1 TACATAAC-TACATAA---AT-T-ACATAACT
* *
15619176 TACATAATTTAC-TTAA-TACATAACT
1 TACATAA-CTACATAAATTACATAACT
* *
15619201 TACATAA-TACATAACTTACATAACC
1 TACATAACTACATAAATTACATAACT
* * *
15619226 TACATAA-GACATAACTTACATAAGT
1 TACATAACTACATAAATTACATAACT
* * *
15619251 TTCATAA-TACACAACTTACATAACT
1 TACATAACTACATAAATTACATAACT
* *
15619276 TACATAA-TACATAACTTACATAATT
1 TACATAACTACATAAATTACATAACT
* *
15619301 TACTTAA-TACATAACTTACATAACT
1 TACATAACTACATAAATTACATAACT
15619326 TACATAA
1 TACATAA
15619333 ATATATGATG
Statistics
Matches: 280, Mismatches: 39, Indels: 40
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.03
24 7 0.03
25 213 0.76
26 21 0.08
27 12 0.04
28 2 0.01
29 1 0.00
30 4 0.01
31 2 0.01
32 10 0.04
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.31
Consensus pattern (26 bp):
TACATAACTACATAAATTACATAACT
Found at i:15619041 original size:16 final size:17
Alignment explanation
Indices: 15618952--15619332 Score: 251
Period size: 16 Copynumber: 22.2 Consensus size: 17
15618942 ATCCTACATA
*
15618952 ATAACTTACATAATAATAC
1 ATAACTTACAT-A-ACTAC
* * *
15618971 ATAACCTACATAAATTAA
1 ATAACTTACAT-AACTAC
*
15618989 ATAAGTTACATAA-TAC
1 ATAACTTACATAACTAC
*
15619005 ATAAAC--ACAAAAACTTAC
1 AT-AACTTAC-ATAAC-TAC
15619023 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
*
15619039 ATAAATTACATAACCTAC
1 ATAACTTACATAA-CTAC
15619057 -TAACTTACATAACTTAC
1 ATAACTTACATAAC-TAC
*
15619074 ATAA--TACATAAATTAC
1 ATAACTTACAT-AACTAC
* *
15619090 ATAACCTACTTAA-TAC
1 ATAACTTACATAACTAC
15619106 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
*
15619122 ACAACTTACATAACTTAC
1 ATAACTTACATAAC-TAC
15619140 ATAA--TACATAACTTAC
1 ATAACTTACATAAC-TAC
*
15619156 ATAACTTATATAAGACAACTTAC
1 ATAACTTACAT-----AAC-TAC
* *
15619179 ATAATTTACTTAA-TAC
1 ATAACTTACATAACTAC
15619195 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
15619211 ATAACTTACATAACCTAC
1 ATAACTTACATAA-CTAC
*
15619229 ATAA--GACATAACTTAC
1 ATAACTTACATAAC-TAC
* *
15619245 ATAAGTTTCATAA-TAC
1 ATAACTTACATAACTAC
*
15619261 ACAACTTACATAACTTAC
1 ATAACTTACATAAC-TAC
15619279 ATAA--TACATAACTTAC
1 ATAACTTACATAAC-TAC
* *
15619295 ATAATTTACTTAA-TAC
1 ATAACTTACATAACTAC
15619311 ATAACTTACATAACTTAC
1 ATAACTTACATAAC-TAC
15619329 ATAA
1 ATAA
15619333 ATATATGATG
Statistics
Matches: 296, Mismatches: 33, Indels: 67
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.01
16 166 0.56
17 25 0.08
18 73 0.25
19 14 0.05
23 15 0.05
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (17 bp):
ATAACTTACATAACTAC
Found at i:15625333 original size:43 final size:43
Alignment explanation
Indices: 15625244--15625554 Score: 315
Period size: 43 Copynumber: 7.3 Consensus size: 43
15625234 ACCTAACAAA
* * * *
15625244 TAGCGGCATTTGTGTAAAAA-CGCTGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGATCTT
* * * *
15625287 TAGTGGCGTTTGCGGAAGAAGCGCCGTTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* * * *
15625330 TAGTGGCATTTGTGAAAAAAGCGCTGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* * *
15625373 TAGCGGCGTTTGTGGAAAAAACCCCGCTAAGGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
15625416 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* * *
15625459 TAGCGGCGTTTGTAGGAAAAA-CGTCGCTAAAGACCCTGA-CTTT
1 TAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGAACATGATC-TT
* * ***** *
15625502 TAGCGGCATTTTTTTTGTAA-CGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
15625544 TAGTGGCGTTT
1 TAGCGGCGTTT
15625555 ATAAAAATAA
Statistics
Matches: 224, Mismatches: 40, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
42 29 0.13
43 183 0.82
44 12 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:15628527 original size:20 final size:20
Alignment explanation
Indices: 15628484--15628527 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15628474 TTATATAAGT
* *
15628484 AAATAAATAATTAAATAACT
1 AAATAAATAAATAAATAACC
15628504 AAATAAATAAAATAAA-AACC
1 AAATAAAT-AAATAAATAACC
15628524 AAAT
1 AAAT
15628528 TACCTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAATAAATAAATAACC
Found at i:15630202 original size:11 final size:11
Alignment explanation
Indices: 15630186--15630215 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15630176 TGGCTAAAAT
15630186 AATGATATGGA
1 AATGATATGGA
*
15630197 AATGATATGGG
1 AATGATATGGA
15630208 AATGATAT
1 AATGATAT
15630216 ATATGAGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
AATGATATGGA
Found at i:15630434 original size:20 final size:21
Alignment explanation
Indices: 15630406--15630444 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15630396 AAATAGTAGT
*
15630406 TTAGATGTGGAA-TAAAATGG
1 TTAGATGTGCAAGTAAAATGG
*
15630426 TTAGGTGTGCAAGTAAAAT
1 TTAGATGTGCAAGTAAAAT
15630445 TGATTTGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (21 bp):
TTAGATGTGCAAGTAAAATGG
Found at i:15631751 original size:23 final size:22
Alignment explanation
Indices: 15631706--15631751 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
15631696 AATATACATT
* * *
15631706 TTAATTTTAGAAAATATTTTAA
1 TTAATTTTAAAAAATAATATAA
15631728 TTAATTTTATAAAAATAATATAA
1 TTAATTTTA-AAAAATAATATAA
15631751 T
1 T
15631752 ATAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATTTTAAAAAATAATATAA
Found at i:15648560 original size:38 final size:38
Alignment explanation
Indices: 15648508--15648589 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
15648498 TTGGGGGCAA
15648508 GTTTAGTGGCAAATTGATTGAATTTATACTGAATTTTG
1 GTTTAGTGGCAAATTGATTGAATTTATACTGAATTTTG
*
15648546 GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
1 GTTTAGTGGCAAATTGATTGAATTTATACTGAATTTTG
15648584 GTTTAG
1 GTTTAG
15648590 GTTCGTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (38 bp):
GTTTAGTGGCAAATTGATTGAATTTATACTGAATTTTG
Found at i:15648571 original size:21 final size:21
Alignment explanation
Indices: 15648509--15648571 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 21
15648499 TGGGGGCAAG
*
15648509 TTTAGTGGCAAATTGATTGAA
1 TTTAGTGGTAAATTGATTGAA
** * *
15648530 TTTA-TACTGAATT--TTG-G
1 TTTAGTGGTAAATTGATTGAA
15648547 TTTAGTGGTAAATTGATTGAA
1 TTTAGTGGTAAATTGATTGAA
15648568 TTTA
1 TTTA
15648572 TACTGAATTT
Statistics
Matches: 29, Mismatches: 9, Indels: 8
0.63 0.20 0.17
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
20 8 0.28
21 8 0.28
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (21 bp):
TTTAGTGGTAAATTGATTGAA
Found at i:15662496 original size:42 final size:42
Alignment explanation
Indices: 15662428--15662690 Score: 364
Period size: 42 Copynumber: 6.3 Consensus size: 42
15662418 AAGGAAAGCA
*
15662428 TTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
15662470 TTCATTGCATTTAGAGGCTCACGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
15662512 TTCATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ** *
15662554 CTCATTGCATTTAGATACCCAGATGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * **
15662596 TTCATTGCATCTAGAGGCCTAGGTATGGAGGTCTGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
15662638 TTCCTTGCATTTAAAGGCCCAGGTGTAGAGATCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
15662680 TTCATTGCATT
1 TTCATTGCATT
15662691 CTATATGAAG
Statistics
Matches: 189, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 189 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:15663736 original size:150 final size:147
Alignment explanation
Indices: 15663515--15663798 Score: 437
Period size: 148 Copynumber: 1.9 Consensus size: 147
15663505 TTTTTTTTAA
*
15663515 AAAAGAAAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTA
1 AAAAGAAAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTA
*
15663580 A-ATTTTTAAAACAAAGTTTTGAATTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAG
66 ATATTTTTAAAACAAAGTTTTG-ATCTTTTTCAACTATTTCAAAAT-AAAGTTTTGATCTTTAAG
15663644 AAAAATAATATTTATTTTT
129 AAAAATAATATTTATTTTT
* * *
15663663 AAAAGAGAAATTTTAAATTTTTAAAATAAAAATATG-TTTTTTAGTCATTTTAATGGAAAAAAGT
1 AAAAGAAAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG---AAAGT
* * *
15663727 TTAATTTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAA
63 TTAATATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATCTTTAA
15663792 GAAAAAT
128 GAAAAAT
15663799 TGTGATTTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
147 19 0.15
148 33 0.27
149 23 0.19
150 30 0.24
151 19 0.15
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (147 bp):
AAAAGAAAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTA
ATATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATCTTTAAGAA
AAATAATATTTATTTTT
Found at i:15663824 original size:20 final size:19
Alignment explanation
Indices: 15663780--15663827 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
15663770 GAAATAAAGT
15663780 TTTGA-TTTTTAAGAAAAA
1 TTTGATTTTTTAAGAAAAA
**
15663798 TTGTGATTTTTTAAAGAAACC
1 TT-TGATTTTTT-AAGAAAAA
15663819 TTTGATTTT
1 TTTGATTTT
15663828 GCAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 12 0.48
21 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (19 bp):
TTTGATTTTTTAAGAAAAA
Found at i:15671004 original size:21 final size:21
Alignment explanation
Indices: 15670962--15671005 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15670952 GTTTGAAGAT
*
15670962 AAAAATATATAATAGATATAA
1 AAAAATATATAATAAATATAA
* * *
15670983 AAAAATGTATGATAAATTTAA
1 AAAAATATATAATAAATATAA
15671004 AA
1 AA
15671006 CATGTCAATA
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:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAAATATATAATAAATATAA
Found at i:15671068 original size:24 final size:23
Alignment explanation
Indices: 15671012--15671068 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
15671002 AAAACATGTC
15671012 AATAATAA--TTTAAAATAATAG
1 AATAATAAGTTTTAAAATAATAG
* * * *
15671033 AATATTACGTTTTAAAATTATAAT
1 AATAATAAGTTTTAAAATAAT-AG
15671057 AATAATAAGTTT
1 AATAATAAGTTT
15671069 AAAGGTAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 6 0.22
23 10 0.37
24 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (23 bp):
AATAATAAGTTTTAAAATAATAG
Found at i:15671069 original size:23 final size:22
Alignment explanation
Indices: 15671012--15671071 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
15671002 AAAACATGTC
15671012 AATAATAA-TTTAAAATAATAG
1 AATAATAAGTTTAAAATAATAG
* * * *
15671033 AATATTACGTTTTAAAATTATAAT
1 AATAATAAG-TTTAAAATAAT-AG
15671057 AATAATAAGTTTAAA
1 AATAATAAGTTTAAA
15671072 GGTAATGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.20
23 16 0.53
24 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
AATAATAAGTTTAAAATAATAG
Found at i:15671205 original size:3 final size:3
Alignment explanation
Indices: 15671199--15671232 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15671189 ATAAAGAAGA
15671199 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
15671233 GGATTAAAAA
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:15671276 original size:5 final size:6
Alignment explanation
Indices: 15671257--15671313 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
15671247 ATTGGAATTC
* * * *
15671257 AAATAA AAATAA AAATAA AACACTAC AAATAG AAATAA AAAGAA AATTAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAATAA
*
15671307 AGATAA A
1 AAATAA A
15671314 CTAAGTTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 35 0.85
7 2 0.05
8 4 0.10
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:15672769 original size:50 final size:50
Alignment explanation
Indices: 15672694--15673272 Score: 459
Period size: 50 Copynumber: 11.6 Consensus size: 50
15672684 CACCGCTTGA
* * * * *
15672694 GAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * * ** *
15672744 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCC-TG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAAT-GCCAGG
* * ***
15672793 GAGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGG
1 GA-AGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* ** * ** *
15672844 GAAGCAAGATTCACTGAAGTGGCTTTAATCTATTCCACTGCACTGCCAGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * * *
15672894 GAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCAAG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * * ** *
15672944 GAGGTAAGATTCACCGTTGTGGCTTTATTCTGTTCCACTGC-ATCGCCTGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAAT-GCCAGG
* ** *
15672994 GAAGTAAGATTTGA-TGTTGTACCTTTAATCTTTTTAACTGCAATGTCAGG
1 GAAGTAAGA-TTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * ** **
15673044 GAAGCAAGATTCACCGTTGTGGCTTT-ATCTGTTCCACTGCACCGCCAGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * *
15673093 GAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGCCAGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * * ** ** *
15673143 GAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * * * *
15673193 G-GGTAAGATTCGCTGCTGTAGCTTTAATCCTTTTAACTGCAATGTCAGG
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
* * * *
15673242 GAGGCAAGATTCACCGTTGTGGCATTAATCT
1 GAAGTAAGATTCACTGTTGTGGCTTTAATCT
15673273 ATTCCACTGC
Statistics
Matches: 398, Mismatches: 121, Indels: 20
0.74 0.22 0.04
Matches are distributed among these distances:
49 84 0.21
50 304 0.76
51 10 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
GAAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGG
Found at i:15673136 original size:99 final size:100
Alignment explanation
Indices: 15672674--15673294 Score: 917
Period size: 100 Copynumber: 6.2 Consensus size: 100
15672664 CAAGATTTGT
* *
15672674 TGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTG-TGGTAGCTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCT-GTAGCTTTAATCTTTTTAACTGCAAT
* *
15672738 GTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC
65 GTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
* *
15672774 TGTTCCACTGCATCGCCT-GGAGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCTGGGA-AGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
** * **
15672838 GTTGGGGAAGCAAGATTCACTGAAGTGGCTTTAATC
65 GTCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
* * *
15672874 TATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
1 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
* * * *
15672939 TCAAGGAGGTAAGATTCACCGTTGTGGCTTTATTC
66 TCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
* * * * *
15672974 TGTTCCACTGCATCGCCTGGGAAGTAAGATTTGATGTTGTACCTTTAATCTTTTTAACTGCAATG
1 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
15673039 TCAGGGAAGCAAGATTCACCGTTGTGGCTTT-ATC
66 TCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
*
15673073 TGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
1 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
* *
15673138 CCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
66 TCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
* *
15673173 TGTTCCACTGCACCGCCTGGG-GGTAAGATTCGCTGCTGTAGCTTTAATCCTTTTAACTGCAATG
1 TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
* *
15673237 TCAGGGAGGCAAGATTCACCGTTGTGGCATTAATC
66 TCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
*
15673272 TATTCCACTGCACCGCCTGGGAA
1 TGTTCCACTGCACCGCCTGGGAA
15673295 AATAAGATCT
Statistics
Matches: 469, Mismatches: 47, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
99 186 0.40
100 279 0.59
101 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
TGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATG
TCAGGGAAGCAAGATTCACCGTTGTGGCTTTAATC
Found at i:15673484 original size:44 final size:44
Alignment explanation
Indices: 15673406--15673678 Score: 171
Period size: 44 Copynumber: 6.0 Consensus size: 44
15673396 TTCTAATCCG
* * * *
15673406 CTCCACTGTAATCTCAGGGAAATATGATTACTGGCTTCAATCTC
1 CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTC
* *
15673450 CTCCGCTATAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTGATGC
1 CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATC---T-C
* ** *
15673498 GATCTACTCTACTATAA-CTTC-AGAGAGATAAGATCCTT-T-ATTTTAATC-C
1 ---CT-C-C-ACTGTAATC-TCAAG-GAGATAAGAT--TTCTGGCTTCAATCTC
* * * * * *
15673547 ACTCCACTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTG
1 -CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTC
* * *
15673592 CT-CAGCTGTAATCTCAAGGAGATAAGATTTTTGGCTTTAATCTA
1 CTCCA-CTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTC
* *
15673636 CTCCACTGTAATCTCAGGGAGATAACATTTCTGGCTTCAATCT
1 CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCT
15673679 GATGCGATCT
Statistics
Matches: 177, Mismatches: 31, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 128 0.72
45 5 0.03
46 1 0.01
47 3 0.02
48 1 0.01
49 1 0.01
51 2 0.01
52 1 0.01
53 4 0.02
54 24 0.14
55 1 0.01
56 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTC
Found at i:15673605 original size:142 final size:142
Alignment explanation
Indices: 15673349--15673634 Score: 464
Period size: 142 Copynumber: 2.0 Consensus size: 142
15673339 GAGATAAGAC
* *
15673349 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTG
* * * *
15673414 TAATCTCAGGGAAATATGATTACTGGCTTCAATCTCCTCCGCTATAATCTCAAGGAGATAAGATT
66 TAACCTCAGGGAAATAGGATTACTAGCTTCAATCTCCTCAGCTATAATCTCAAGGAGATAAGATT
15673479 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
15673491 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTG
* * *
15673556 TAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCAGCTGTAATCTCAAGGAGATAAGATT
66 TAACCTCAGGGAAATAGGATTACTAGCTTCAATCTCCTCAGCTATAATCTCAAGGAGATAAGATT
* *
15673621 TTTGGCTTTAAT
131 TCTGGCTTCAAT
15673633 CT
1 CT
15673635 ACTCCACTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTG
TAACCTCAGGGAAATAGGATTACTAGCTTCAATCTCCTCAGCTATAATCTCAAGGAGATAAGATT
TCTGGCTTCAAT
Found at i:15673680 original size:186 final size:186
Alignment explanation
Indices: 15673411--15673830 Score: 660
Period size: 186 Copynumber: 2.3 Consensus size: 186
15673401 ATCCGCTCCA
* * ** * * * *
15673411 CTGTAATCTCAGGGAAATATGATTACTGGCTTCAATCTCCTCCGCTATAATCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTACTCCACTGTAATCTCAAGGAGATAAC
15673476 ATTTCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTT
66 ATTTCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTT
*
15673541 TAATCCACTCCACTGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCAG
131 TAATCCACTCCACTATAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCAG
* * *
15673597 CTGTAATCTCAAGGAGATAAGATTTTTGGCTTTAATCTACTCCACTGTAATCTCAGGGAGATAAC
1 CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTACTCCACTGTAATCTCAAGGAGATAAC
*
15673662 ATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 ATTTCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTT
* * * * * *
15673727 TAATTCGCTCCATTATAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCG
131 TAATCCACTCCACTATAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCAG
*
15673783 CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTACCCCACTGT
1 CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTACTCCACTGT
15673831 GGCTTAAATC
Statistics
Matches: 212, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
186 212 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (186 bp):
CTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTACTCCACTGTAATCTCAAGGAGATAAC
ATTTCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCACTCCACTATAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCAG
Found at i:15675165 original size:13 final size:15
Alignment explanation
Indices: 15675138--15675173 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
15675128 CCTCAACCTC
15675138 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
15675153 T-CATTTTTA-TTTT
1 TCCATTTTTACTTTT
15675166 TCCATTTT
1 TCCATTTT
15675174 CTCTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:15676040 original size:34 final size:33
Alignment explanation
Indices: 15676001--15676072 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 33
15675991 TCATTTTGAC
* * *
15676001 TTTGATTTTGATTTTTCTTTTTCTTCTTTTTTGT
1 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTT-T
15676035 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTTT
1 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTTT
15676068 TTTGA
1 TTTGA
15676073 GATCGGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.07, C:0.10, G:0.11, T:0.72
Consensus pattern (33 bp):
TTTGATCTTGATTTTGCTTTTGCTTCTTTTTTT
Found at i:15676046 original size:40 final size:38
Alignment explanation
Indices: 15675994--15676071 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 38
15675984 TTCATTTTCA
* *
15675994 TTTTGACTTTGATTTTGATTTTTCTTTTTCTTCTTTTTTG
1 TTTTGACTTTGATTTTGATTTTGCTTCTT-TT-TTTTTTG
*
15676034 TTTTGA-TCTTGATTTTGCTTTTGCTTCTTTTTTTTTTG
1 TTTTGACT-TTGATTTTGATTTTGCTTCTTTTTTTTTTG
15676072 AGATCGGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.21
39 3 0.09
40 24 0.71
ACGTcount: A:0.06, C:0.10, G:0.12, T:0.72
Consensus pattern (38 bp):
TTTTGACTTTGATTTTGATTTTGCTTCTTTTTTTTTTG
Found at i:15680437 original size:15 final size:15
Alignment explanation
Indices: 15680417--15680457 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
15680407 AATTAATAAA
15680417 TCAAATAATAACATG
1 TCAAATAATAACATG
15680432 TCAAATTTAA-AACATG
1 TCAAA--TAATAACATG
15680448 TC-AATAATAA
1 TCAAATAATAA
15680458 TTTAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.13
14 2 0.09
15 7 0.30
16 8 0.35
17 3 0.13
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (15 bp):
TCAAATAATAACATG
Found at i:15680507 original size:23 final size:23
Alignment explanation
Indices: 15680450--15680509 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
15680440 AAAACATGTC
*
15680450 AATAATAA-TTTAAAATAATAGT
1 AATAATAAGTTTAAAATAATAAT
* * *
15680472 -ATATTACGTTTTAAAATTATAAT
1 AATAATAAG-TTTAAAATAATAAT
15680495 AATAATAAGTTTAAA
1 AATAATAAGTTTAAA
15680510 GGTAATGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 5 0.17
23 18 0.62
24 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (23 bp):
AATAATAAGTTTAAAATAATAAT
Found at i:15680644 original size:3 final size:3
Alignment explanation
Indices: 15680638--15680686 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
15680628 ATAAAGAAGA
15680638 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15680686 A
1 A
15680687 GGATTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15680730 original size:5 final size:6
Alignment explanation
Indices: 15680711--15680767 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
15680701 ATTGGAATTC
* * *
15680711 AAATAA AAATAA AAATAA AACACTAC AAATAG AAATAA AAAGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAATAA
*
15680761 AGATAA A
1 AAATAA A
15680768 CTAAGTTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:15685832 original size:15 final size:15
Alignment explanation
Indices: 15685809--15685841 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15685799 GAGGAGAGGA
15685809 AATTAAAAAGAACAC
1 AATTAAAAAGAACAC
*
15685824 AATTGAAAAGAACAC
1 AATTAAAAAGAACAC
15685839 AAT
1 AAT
15685842 CAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.09, T:0.15
Consensus pattern (15 bp):
AATTAAAAAGAACAC
Found at i:15690541 original size:43 final size:43
Alignment explanation
Indices: 15690480--15690566 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
15690470 TAATCGGGTT
*
15690480 TGTGAATCGAGAGAGAGTGGTCATGCCTTAATTTTTTAAATTA
1 TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
*
15690523 TGTGAATCGGGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
1 TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
15690566 T
1 T
15690567 CTATGAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (43 bp):
TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
Found at i:15707513 original size:134 final size:134
Alignment explanation
Indices: 15707273--15707542 Score: 459
Period size: 134 Copynumber: 2.0 Consensus size: 134
15707263 CATTTGAATA
*
15707273 CTAGACTGGTAGCTATTATTATACGCGAACTCTGCTAGCGGCAAATAGTCTTCCCAGCTACCTTA
1 CTAGACTGGTAGCTATTATTATACGCGAACTCTGCTAGCGGCAAATAGTCTTCCCAACTACCTTA
* *
15707338 GAAATCTATTACACAACTTCTTAACATGTCTTCCAATATCTGAATCACCCTCTCTGACTAACCAT
66 GAAATCCATTACACAACTTCTCAACATGTCTTCCAATATCTGAATCACCCTCTCTGACTAACCAT
15707403 CTGT
131 CTGT
* * * *
15707407 CTAGACTGGTAGCTATTATTATACGCGAACTTTGCTAGCGGTAAATAGTCTTCCCAACTGCCTTG
1 CTAGACTGGTAGCTATTATTATACGCGAACTCTGCTAGCGGCAAATAGTCTTCCCAACTACCTTA
* *
15707472 GAAATCCATTACACAACTTCTCAACATTTCTTCCAGTATCTGAATCACCCTCTCTGACTAACCAT
66 GAAATCCATTACACAACTTCTCAACATGTCTTCCAATATCTGAATCACCCTCTCTGACTAACCAT
15707537 CTGT
131 CTGT
15707541 CT
1 CT
15707543 GAGGATGGAA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 127 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (134 bp):
CTAGACTGGTAGCTATTATTATACGCGAACTCTGCTAGCGGCAAATAGTCTTCCCAACTACCTTA
GAAATCCATTACACAACTTCTCAACATGTCTTCCAATATCTGAATCACCCTCTCTGACTAACCAT
CTGT
Found at i:15712271 original size:28 final size:27
Alignment explanation
Indices: 15712212--15712263 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
15712202 CTATTCAGCA
15712212 ACAGT-ACAGTGTGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGCCTTAGCCCAAT
15712238 ACAGTAACAGTGTGGGCCTTAGCCCA
1 ACAGTAACAGTGT-GGCCTTAGCCCA
15712264 TTATAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (27 bp):
ACAGTAACAGTGTGGCCTTAGCCCAAT
Found at i:15715223 original size:26 final size:26
Alignment explanation
Indices: 15715194--15715263 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
15715184 CATTCTGACC
* **
15715194 CACAGCTCGAGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAAACCCATTT
*
15715220 CACAGCTCGTGTGAGCAAACTCATTT
1 CACAGCTCGTGTGAGCAAACCCATTT
*
15715246 CACAGCTTGTGTGAGCAA
1 CACAGCTCGTGTGAGCAA
15715264 CGATGTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAACCCATTT
Found at i:15719962 original size:31 final size:32
Alignment explanation
Indices: 15719927--15719988 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
15719917 CATAATTAAA
15719927 AAACACTTA-AA-ATAAATAAAACCCTAAACTT
1 AAACACTTACAATATAAA-AAAACCCTAAACTT
*
15719958 AAACACTTACAATCTAAAAAAACCCTAAACT
1 AAACACTTACAATATAAAAAAACCCTAAACT
15719989 CTAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.32
32 15 0.54
33 4 0.14
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (32 bp):
AAACACTTACAATATAAAAAAACCCTAAACTT
Found at i:15720646 original size:19 final size:19
Alignment explanation
Indices: 15720608--15720652 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
15720598 TCTTTATTTG
* * *
15720608 CACCACTCCTCTCTTCGCT
1 CACCACTCCGCTCCTAGCT
*
15720627 CGCCACTCCGCTCCTAGCT
1 CACCACTCCGCTCCTAGCT
15720646 CACCACT
1 CACCACT
15720653 TTCCCCAACT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.13, C:0.53, G:0.09, T:0.24
Consensus pattern (19 bp):
CACCACTCCGCTCCTAGCT
Found at i:15723866 original size:2 final size:2
Alignment explanation
Indices: 15723859--15723890 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15723849 TAAAGACTGT
15723859 TA 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
15723891 CGTGTGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 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:15724161 original size:2 final size:2
Alignment explanation
Indices: 15724154--15724183 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15724144 TTGATTTGAT
15724154 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
15724184 AACATTTGTT
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:15724724 original size:19 final size:19
Alignment explanation
Indices: 15724697--15724735 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15724687 TTATAATGGT
*
15724697 TATATTTTA-ATATTTAAAA
1 TATAGTTTATATA-TTAAAA
15724716 TATAGTTTATATATTAAAA
1 TATAGTTTATATATTAAAA
15724735 T
1 T
15724736 TAAATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATAGTTTATATATTAAAA
Found at i:15726412 original size:2 final size:2
Alignment explanation
Indices: 15726405--15726441 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15726395 AGGGGGAGAA
15726405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15726442 ATTAAACCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15727256 original size:35 final size:35
Alignment explanation
Indices: 15727217--15727328 Score: 111
Period size: 35 Copynumber: 3.1 Consensus size: 35
15727207 TTTTTTCAAC
15727217 ATTTTTTATGTCCGTTTTACAATCTATATTTTAAG
1 ATTTTTTATGTCCGTTTTACAATCTATATTTTAAG
** * ** * *
15727252 ATTTTGGATTATCTTTTTTAACAA--TATCATCTGTAAC
1 ATTTTTTA-TGTCCGTTTT-ACAATCTAT-AT-TTTAAG
15727289 ATTTTTTATGTCCGTTTTACAATCTATATTTTAAG
1 ATTTTTTATGTCCGTTTTACAATCTATATTTTAAG
15727324 ATTTT
1 ATTTT
15727329 GGATTATCTT
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 17 0.30
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (35 bp):
ATTTTTTATGTCCGTTTTACAATCTATATTTTAAG
Found at i:15727276 original size:37 final size:36
Alignment explanation
Indices: 15727231--15727341 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 36
15727221 TTTATGTCCG
15727231 TTTTACAATCTATATTTTAAGATTTTGGATTATCTT
1 TTTTACAATCTATATTTTAAGATTTTGGATTATCTT
* * ** * **
15727267 TTTTAACAA--TATCATCTGTAACATTTTTTA-TGTCCG
1 TTTT-ACAATCTAT-AT-TTTAAGATTTTGGATTATCTT
15727303 TTTTACAATCTATATTTTAAGATTTTGGATTATCTT
1 TTTTACAATCTATATTTTAAGATTTTGGATTATCTT
15727339 TTT
1 TTT
15727342 CAACAATATC
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
35 17 0.31
36 21 0.38
37 17 0.31
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (36 bp):
TTTTACAATCTATATTTTAAGATTTTGGATTATCTT
Found at i:15727331 original size:72 final size:72
Alignment explanation
Indices: 15727214--15727364 Score: 284
Period size: 72 Copynumber: 2.1 Consensus size: 72
15727204 CATTTTTTTC
*
15727214 AACATTTTTTATGTCCGTTTTACAATCTATATTTTAAGATTTTGGATTATCTTTTTTAACAATAT
1 AACATTTTTTATGTCCGTTTTACAATCTATATTTTAAGATTTTGGATTATCTTTTTCAACAATAT
15727279 CATCTGT
66 CATCTGT
15727286 AACATTTTTTATGTCCGTTTTACAATCTATATTTTAAGATTTTGGATTATCTTTTTCAACAATAT
1 AACATTTTTTATGTCCGTTTTACAATCTATATTTTAAGATTTTGGATTATCTTTTTCAACAATAT
15727351 CATCTGT
66 CATCTGT
*
15727358 AAAATTT
1 AACATTT
15727365 AACTATGCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (72 bp):
AACATTTTTTATGTCCGTTTTACAATCTATATTTTAAGATTTTGGATTATCTTTTTCAACAATAT
CATCTGT
Found at i:15727348 original size:37 final size:36
Alignment explanation
Indices: 15727231--15727348 Score: 102
Period size: 37 Copynumber: 3.3 Consensus size: 36
15727221 TTTATGTCCG
15727231 TTTT-ACAATCTATATTTTAAGATTTTGGATTATCTT
1 TTTTAACAATCTATATTTTAAGATTTTGGATTATC-T
* * ** * *
15727267 TTTTAACAA--TATCATCTGTAACATTTTTTATGT-CCG
1 TTTTAACAATCTAT-AT-TTTAAGATTTTGGAT-TATCT
15727303 TTTT-ACAATCTATATTTTAAGATTTTGGATTATCT
1 TTTTAACAATCTATATTTTAAGATTTTGGATTATCT
15727338 TTTTCAACAAT
1 TTTT-AACAAT
15727349 ATCATCTGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
34 1 0.02
35 23 0.38
36 12 0.20
37 24 0.39
38 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (36 bp):
TTTTAACAATCTATATTTTAAGATTTTGGATTATCT
Found at i:15731142 original size:21 final size:21
Alignment explanation
Indices: 15731118--15731159 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15731108 TTAACGGGAC
* * *
15731118 AGCTGATGTGGCTAGTTAACT
1 AGCTGACGTGGCCAATTAACT
15731139 AGCTGACGTGGCCAATTAACT
1 AGCTGACGTGGCCAATTAACT
15731160 TGCCACATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (21 bp):
AGCTGACGTGGCCAATTAACT
Found at i:15733393 original size:34 final size:34
Alignment explanation
Indices: 15733349--15733415 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
15733339 CAATTAGTTA
* *
15733349 AGGTTCAAAAAAGGTCCCCATCTTCAAAATTTTG
1 AGGTTAAAAAAAGGTCCCCACCTTCAAAATTTTG
* **
15733383 AGGTTAAAAAAATGTCTTCACCTTCAAAATTTT
1 AGGTTAAAAAAAGGTCCCCACCTTCAAAATTTT
15733416 CAAATCTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (34 bp):
AGGTTAAAAAAAGGTCCCCACCTTCAAAATTTTG
Found at i:15735572 original size:1 final size:1
Alignment explanation
Indices: 15735566--15735592 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
15735556 GCCGAGAATC
15735566 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
15735593 ATGATCGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15738537 original size:27 final size:27
Alignment explanation
Indices: 15738506--15738581 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
15738496 GCGTGGTGCT
*
15738506 TATCTGATAGGCGGCACCAGTGACCCC
1 TATCTGATAGGCGGCACTAGTGACCCC
* *
15738533 TATCTGATAGGCGGCACTGGTGACCTC
1 TATCTGATAGGCGGCACTAGTGACCCC
*
15738560 TATCTGATAGGCGACACTAGTG
1 TATCTGATAGGCGGCACTAGTG
15738582 CATGCCCTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (27 bp):
TATCTGATAGGCGGCACTAGTGACCCC
Found at i:15738673 original size:4 final size:4
Alignment explanation
Indices: 15738664--15738727 Score: 69
Period size: 4 Copynumber: 15.5 Consensus size: 4
15738654 ATAGAGGGAG
*
15738664 AAGA AAGA AAGA AAGA AATGA GAAGA AATA AAGA AAGAA AAGA GAAG-
1 AAGA AAGA AAGA AAGA AA-GA -AAGA AAGA AAGA AAG-A AAGA -AAGA
15738711 AA-A AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AA
15738728 ATGTATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 4 0.08
4 35 0.67
5 11 0.21
6 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:15738676 original size:22 final size:22
Alignment explanation
Indices: 15738660--15738727 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
15738650 AAGAATAGAG
15738660 GGAGAAGAAAGAAAGAAAGAAA
1 GGAGAAGAAAGAAAGAAAGAAA
* *
15738682 TGAGAAGAAATAAAGAAAGAAA
1 GGAGAAGAAAGAAAGAAAGAAA
*
15738704 AGAGAAGAAAAAGAAAGAAAGAAA
1 GGAGAAG--AAAGAAAGAAAGAAA
15738728 ATGTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 26 0.65
24 14 0.35
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (22 bp):
GGAGAAGAAAGAAAGAAAGAAA
Found at i:15738689 original size:18 final size:17
Alignment explanation
Indices: 15738667--15738727 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
15738657 GAGGGAGAAG
15738667 AAAGAAAGAAAGAAATGA
1 AAAGAAAGAAAGAAA-GA
* *
15738685 GAAGAAATAAAGAAAGA
1 AAAGAAAGAAAGAAAGA
15738702 AAAGAGAAG-AA-AAAG-
1 AAAGA-AAGAAAGAAAGA
15738717 AAAGAAAGAAA
1 AAAGAAAGAAA
15738728 ATGTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.08
15 7 0.19
16 4 0.11
17 8 0.22
18 15 0.41
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAGA
Found at i:15738713 original size:14 final size:14
Alignment explanation
Indices: 15738671--15738728 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
15738661 GAGAAGAAAG
15738671 AAAGAAAGAAATG-A
1 AAAGAAAGAAA-GAA
* *
15738685 GAAGAAATAAAGAA
1 AAAGAAAGAAAGAA
*
15738699 AGA-AAAGAGAAGAA
1 AAAGAAAGA-AAGAA
15738713 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
15738727 AA
1 AA
15738729 TGTATTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.14
14 25 0.71
15 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:15742794 original size:68 final size:68
Alignment explanation
Indices: 15742722--15742852 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
15742712 AAACAACATG
*
15742722 TTGTAAGATAGGAGCGTGATCTTAAATCAGCATCCTATGTAGGTTAACCGTGATCTTAAATCAAT
1 TTGTAAGATAGGAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCGTGATCTTAAATCAAT
15742787 GGA
66 GGA
* * ** * * *
15742790 TTGTAAGATATGAGTGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCA
1 TTGTAAGATAGGAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCGTGATCTTAAATCA
15742853 GCGATCTATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.34
Consensus pattern (68 bp):
TTGTAAGATAGGAGCGTGATCTTAAATCAGCATCCTATGTAGATTAACCGTGATCTTAAATCAAT
GGA
Found at i:15742880 original size:68 final size:68
Alignment explanation
Indices: 15742740--15743368 Score: 302
Period size: 68 Copynumber: 9.2 Consensus size: 68
15742730 TAGGAGCGTG
* * * * * ** * * * * * *
15742740 ATCTTAAATCAGCATCCTATGTAGGTTAACCGTGATCTTAAATCAATGGATTGTAAGATATGAGT
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
**
15742805 GTG
66 GCA
* *
15742808 ATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGATCTATAAAATAGGGGT
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
15742873 GCA
66 GCA
* * *** ** * ** * * *
15742876 ATCTTAAATCGACGTGCTATGTAAATTAGTTATGATCTTAAATTGGTGGGCTATAAGATAAGAGT
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
*
15742941 GCG
66 GCA
* * * * * * * * * * *
15742944 ATCTTAAATTGGCGTGCTATATAGGTTAACTGTGATATTAAATCAGTGAACTGTAATATAGGAGC
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
15743009 G-A
66 GCA
* * * * **
15743011 TATCTTAAATCAGCGTGCTATGTAAATTAGCTGTGATCTTCAATCAGC-AGACTATAAAATAAAG
1 -ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGA-ACTATAAAATAGGG
*
15743075 GTGCG
64 GTGCA
* ** * * *
15743080 ATCTTAAATTGATGTGCTATAGAAATA-ATATAGGAGCGAT-ATCTTAAATCAGTGGA-TAGTAA
1 ATCTTAAATCGGCGTGCTAT-G---TAGAT-TA-G-CCG-TGATCTTAAATCAGCGAACTA-TAA
* * * *
15743142 GATAGGAGCGCG
57 AATAGGGGTGCA
* * * ** * *
15743154 ATCTTAAATCAGTGTGCTATGTAGGTTAGTTGTGATCTTAAATCAACGAACTATAAAATAGGGGC
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
15743219 GCA
66 GCA
* * * * * * * ** * *
15743222 ATATTAAATTGGTGTGCTATGTAAATTAGTCGTGATATTAAATTAGC-AGGTTGTAAGATAGGAG
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGA-ACTATAAAATAGG-G
15743286 CGTG--
64 -GTGCA
* * * ** * * *
15743290 ATCTTAAATCGGCATGCTATGTAGGTAATTCGTGATATTAAATCAACAAACTATAAAATAGGGGT
1 ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
*
15743355 GTA
66 GCA
15743358 ATCTTAAATCG
1 ATCTTAAATCG
15743369 CTAACTCTAA
Statistics
Matches: 419, Mismatches: 120, Indels: 44
0.72 0.21 0.08
Matches are distributed among these distances:
66 3 0.01
67 4 0.01
68 348 0.83
69 6 0.01
70 6 0.01
71 3 0.01
72 4 0.01
73 4 0.01
74 40 0.10
75 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (68 bp):
ATCTTAAATCGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAACTATAAAATAGGGGT
GCA
Found at i:15742933 original size:136 final size:136
Alignment explanation
Indices: 15742793--15743100 Score: 352
Period size: 136 Copynumber: 2.3 Consensus size: 136
15742783 CAATGGATTG
* * * * * *
15742793 TAAGATATGAGTGTGATCTTAAATTGGCGTGCTATGTAGATTAGCCGTGATCTTAAATCAGCGAT
1 TAAGATAAGAGTGCGATCTTAAATTGGCGTGCTATATAGATTAACCGTGATATTAAATCAGCGAA
* * *
15742858 CTATAAAATAGGGGTGCA-ATCTTAAATC-GACGTGCTATGTAAATTAGTTATGATCTTAAATTG
66 CTATAAAATAGGAGCG-ATATCTTAAATCAG-CGTGCTATGTAAATTAGCTATGATCTTAAATTG
15742921 GTGGGCTA
129 GTGGGCTA
* * *
15742929 TAAGATAAGAGTGCGATCTTAAATTGGCGTGCTATATAGGTTAACTGTGATATTAAATCAGTGAA
1 TAAGATAAGAGTGCGATCTTAAATTGGCGTGCTATATAGATTAACCGTGATATTAAATCAGCGAA
* * * * ** *
15742994 CTGTAATATAGGAGCGATATCTTAAATCAGCGTGCTATGTAAATTAGCTGTGATCTTCAATCAGC
66 CTATAAAATAGGAGCGATATCTTAAATCAGCGTGCTATGTAAATTAGCTATGATCTTAAATTGGT
* *
15743059 AGACTA
131 GGGCTA
* **
15743065 TAAAATAA-AGGTGCGATCTTAAATTGATGTGCTATA
1 TAAGATAAGA-GTGCGATCTTAAATTGGCGTGCTATA
15743101 GAAATAATAT
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
135 2 0.01
136 142 0.98
137 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (136 bp):
TAAGATAAGAGTGCGATCTTAAATTGGCGTGCTATATAGATTAACCGTGATATTAAATCAGCGAA
CTATAAAATAGGAGCGATATCTTAAATCAGCGTGCTATGTAAATTAGCTATGATCTTAAATTGGT
GGGCTA
Found at i:15743050 original size:34 final size:34
Alignment explanation
Indices: 15742675--15743058 Score: 127
Period size: 34 Copynumber: 11.3 Consensus size: 34
15742665 AATTGAGCTA
* *
15742675 TTAAATCACCGTGCTATGTAAATTAGTTGTGATC
1 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
* * * *
15742709 TTAAAACAACATG-T-TGTAAGATAGGAGC-GTGATC
1 TTAAATCAGCGTGCTATGTAA-AT--TAGCTGTGATC
* * ** * *
15742743 TTAAATCAGCATCCTATGTAGGTTAACCGTGATC
1 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
** *
15742777 TTAAATCAATG-GAT-TGTAAGATATGAG-TGTGATC
1 TTAAATCAGCGTGCTATGTAA-AT-T-AGCTGTGATC
** * *
15742811 TTAAATTGGCGTGCTATGTAGATTAGCCGTGATC
1 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
* **
15742845 TTAAATCAGCGAT-CTA--TAAAATAGGGGTGCAATC
1 TTAAATCAGCG-TGCTATGTAAATTAGCTGTG--ATC
* *
15742879 TTAAATC-GACGTGCTATGTAAATTAGTTATGATC
1 TTAAATCAG-CGTGCTATGTAAATTAGCTGTGATC
** * * * * *
15742913 TTAAATTGGTGGGCTA--TAAGATAAGAGTGCGATC
1 TTAAATCAGCGTGCTATGTAA-ATTAG-CTGTGATC
** * ** * *
15742947 TTAAATTGGCGTGCTATATAGGTTAACTGTGATA
1 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
* *
15742981 TTAAATCA--GTG-AACTGTAATATAGGAGC-GAT-ATC
1 TTAAATCAGCGTGCTA-TGTAA-AT--TAGCTG-TGATC
15743015 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
1 TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
*
15743049 TTCAATCAGC
1 TTAAATCAGC
15743059 AGACTATAAA
Statistics
Matches: 250, Mismatches: 66, Indels: 68
0.65 0.17 0.18
Matches are distributed among these distances:
31 1 0.00
32 27 0.11
33 20 0.08
34 156 0.62
35 18 0.07
36 27 0.11
37 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (34 bp):
TTAAATCAGCGTGCTATGTAAATTAGCTGTGATC
Found at i:15743176 original size:142 final size:142
Alignment explanation
Indices: 15742981--15743241 Score: 346
Period size: 142 Copynumber: 1.8 Consensus size: 142
15742971 AACTGTGATA
* *
15742981 TTAAATCAGTGAACTGTAATATAGGAGCGATATCTTAAATCAGCGTGCTATGTAAATTAGCTGTG
1 TTAAATCAGTGAACTGTAAGATAGGAGCGAGATCTTAAATCAGCGTGCTATGTAAATTAGCTGTG
* * * * *
15743046 ATCTTCAATCAGC-AGACTATAAAATAAAGGTGCGATCTTAAATTGATGTGCTATAGAAATAATA
66 ATCTTAAATCAACGA-ACTATAAAATAAAGGCGCAATATTAAATTGATGTGCTATAGAAATAATA
15743110 TAGGAGCGATATC
130 TAGGAGCGATATC
* * * ** *
15743123 TTAAATCAGTGGA-TAGTAAGATAGGAGCGCGATCTTAAATCAGTGTGCTATGTAGGTTAGTTGT
1 TTAAATCAGTGAACT-GTAAGATAGGAGCGAGATCTTAAATCAGCGTGCTATGTAAATTAGCTGT
** *
15743187 GATCTTAAATCAACGAACTATAAAATAGGGGCGCAATATTAAATTGGTGTGCTAT
65 GATCTTAAATCAACGAACTATAAAATAAAGGCGCAATATTAAATTGATGTGCTAT
15743242 GTAAATTAGT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
141 1 0.01
142 99 0.98
143 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (142 bp):
TTAAATCAGTGAACTGTAAGATAGGAGCGAGATCTTAAATCAGCGTGCTATGTAAATTAGCTGTG
ATCTTAAATCAACGAACTATAAAATAAAGGCGCAATATTAAATTGATGTGCTATAGAAATAATAT
AGGAGCGATATC
Found at i:15743263 original size:17 final size:16
Alignment explanation
Indices: 15743222--15743267 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
15743212 TAGGGGCGCA
*
15743222 ATATTAAATTGGTGTG
1 ATATTAAATTAGTGTG
*
15743238 CTATGTAAATTAGTCGTG
1 ATAT-TAAATTAGT-GTG
15743256 ATATTAAATTAG
1 ATATTAAATTAG
15743268 CAGGTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 6 0.24
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (16 bp):
ATATTAAATTAGTGTG
Found at i:15745629 original size:16 final size:18
Alignment explanation
Indices: 15745607--15745684 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 18
15745597 CTTAATCACT
15745607 TTAATATTAAATTAAA-A
1 TTAATATTAAATTAAATA
* *
15745624 -TAATATCAAGTTAAATA
1 TTAATATTAAATTAAATA
15745641 TTAA-ATTAAATTAAATA
1 TTAATATTAAATTAAATA
15745658 TTAATTATATTAAATT-AATA
1 TT-A--ATATTAAATTAAATA
15745678 -TAATATT
1 TTAATATT
15745685 TATCTATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
16 18 0.35
17 14 0.27
18 5 0.10
19 1 0.02
20 5 0.10
21 8 0.16
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
TTAATATTAAATTAAATA
Found at i:15745692 original size:26 final size:26
Alignment explanation
Indices: 15745610--15745675 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 26
15745600 AATCACTTTA
* *
15745610 ATATTAAATTAAAAT-AATATCAAGTT
1 ATATTAAATTAAATTAAATATTAA-TT
15745636 AAATATTAAATTAAATTAAATATTAATT
1 --ATATTAAATTAAATTAAATATTAATT
15745664 ATATTAAATTAA
1 ATATTAAATTAA
15745676 TATAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 12 0.34
28 16 0.46
29 7 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATTAAATTAAATTAAATATTAATT
Found at i:15754283 original size:11 final size:10
Alignment explanation
Indices: 15754258--15754282 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15754248 AAACGAGAAG
15754258 AAAAATAGCA
1 AAAAATAGCA
15754268 AAAAATAGCA
1 AAAAATAGCA
15754278 AAAAA
1 AAAAA
15754283 AAAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAATAGCA
Done.