Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 118 of 218
Found at i:34964984 original size:40 final size:40
Alignment explanation
Indices: 34964861--34965056 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
34964851 TCGAATGATG
** *
34964861 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
34964901 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
34964941 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
34964981 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
34965021 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
34965057 CGTGTATTCG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:34964997 original size:80 final size:81
Alignment explanation
Indices: 34964861--34965057 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
34964851 TCGAATGATG
**
34964861 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
34964923 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** * *
34964941 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
* *
34965005 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * * *
34965021 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
34965058 GTGTATTCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 73 0.74
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:34968514 original size:47 final size:47
Alignment explanation
Indices: 34968451--34968875 Score: 683
Period size: 47 Copynumber: 9.1 Consensus size: 47
34968441 GAAATGATAG
*
34968451 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
34968498 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
34968545 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
34968592 TAAAGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34968639 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34968686 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34968732 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34968779 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
34968826 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34968872 TAAG
1 TAAG
34968876 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 83 0.23
47 275 0.77
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:34968771 original size:38 final size:40
Alignment explanation
Indices: 34968680--34968812 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 40
34968670 AAGTGTATAT
34968680 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
34968722 TATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -----ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
34968768 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 -----ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
34968813 TGTATATATG
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
46 46 0.54
47 39 0.46
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (40 bp):
ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:34972685 original size:40 final size:40
Alignment explanation
Indices: 34972626--34972762 Score: 247
Period size: 40 Copynumber: 3.4 Consensus size: 40
34972616 GGTCCTGTGC
34972626 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
*
34972666 CTACCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
* *
34972706 CTAGCAGGCTTAATGCCGGTGAGCCTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
34972746 CTAGCAGGCTTAATGCC
1 CTAGCAGGCTTAATGCC
34972763 AGTGTTCTGA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
Found at i:34973594 original size:27 final size:27
Alignment explanation
Indices: 34973564--34973652 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
34973554 ATATGTTTAT
34973564 TAAATTAATTAATAAATGTTAAATAAG
1 TAAATTAATTAATAAATGTTAAATAAG
** * ** *
34973591 TAAATTAACAAATAAATAATATATGTTATG
1 TAAATTAATTAATAAAT-GT-TA-AATAAG
*
34973621 TTAAATTAATTAATAAAGGTTAAATAAG
1 -TAAATTAATTAATAAATGTTAAATAAG
34973649 TAAA
1 TAAA
34973653 ATAAGTAAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
27 19 0.42
28 4 0.09
29 4 0.09
30 4 0.09
31 14 0.31
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (27 bp):
TAAATTAATTAATAAATGTTAAATAAG
Found at i:34973696 original size:59 final size:57
Alignment explanation
Indices: 34973553--34973734 Score: 292
Period size: 59 Copynumber: 3.1 Consensus size: 57
34973543 ACCCTTATAT
* *
34973553 TATATGTTTATTAAATTAATTAATAAATGTTAAATAAGTAAATTAACAAATAAATAA
1 TATATGTTTATTAAATTAATTAATAAAGGTTAAATAAGTAAAATAACAAATAAATAA
* * *
34973610 TATATGTTATGTTAAATTAATTAATAAAGGTTAAATAAGTAAAATAAGTAAAATAAAAAA
1 TATATGTT-TATTAAATTAATTAATAAAGGTTAAATAAGTAAAATAA--CAAATAAATAA
34973670 TATATGTTTATTAAATTAATTAATAAAGGTTAAATAAGTAAAATAACAAATAAATAA
1 TATATGTTTATTAAATTAATTAATAAAGGTTAAATAAGTAAAATAACAAATAAATAA
34973727 TATATGTT
1 TATATGTT
34973735 ATGTGAAAAC
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
57 25 0.22
58 35 0.31
59 37 0.32
60 17 0.15
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (57 bp):
TATATGTTTATTAAATTAATTAATAAAGGTTAAATAAGTAAAATAACAAATAAATAA
Found at i:34974650 original size:43 final size:43
Alignment explanation
Indices: 34974599--34974760 Score: 186
Period size: 43 Copynumber: 3.8 Consensus size: 43
34974589 TTTTTGATAA
*
34974599 GTGTTTTCGTGAAAGACCACGTCTGGGACATTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
* * *
34974642 GTTTTTTCGTGTAAGATCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
**
34974685 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAACGGCATC-A-TCT
1 GTGTTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGACT-T
* * * * *
34974727 GTGGTTACATGTAAGATCACGTCTGGGACGTTGG
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGG
34974761 TGTTGTACGA
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 71 0.71
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
Found at i:34979301 original size:3 final size:3
Alignment explanation
Indices: 34979208--34979281 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
34979198 CTTTTTAATT
* * * *
34979208 TAA TAA TGA TAA AAA TAA TAAA TAAA TAAA TAA -AA GAGA -AA TAA TAG
1 TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TAA TAA TA-A TAA TAA TAA
34979255 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
34979282 ACTAATTAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 3 0.05
3 46 0.75
4 12 0.20
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:34980855 original size:44 final size:44
Alignment explanation
Indices: 34980779--34981194 Score: 287
Period size: 44 Copynumber: 9.5 Consensus size: 44
34980769 ATTTGCTCTT
* * ** * *
34980779 TGCAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCGC
1 TGCAACTTCAGGGAGATAAGAT-TATTGGCTTTAATCTGCTCCAC
*
34980823 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCAC
* *** * *
34980867 TGCAACTTCAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATT-ATTGGCTTTAATCTGCTCCAC
* * * *
34980912 TACAACTTCAGGGGGATAAGATT-TGCTTGC-TTAGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTAT--TGGCTTTAATCTGCTCCAC
* * *
34980956 TACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCAC
* * *
34981000 TGCAACTTGAGGGAGATAAGA-T-TT-GCTTATTCAGTCTGCTCCGC
1 TGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTGCTCCAC
* * * * *** * *
34981044 TGAAACATCAGGGAGATAAGACTA---GATACGATCTACT-CTC
1 TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCAC
* * * ** * **
34981084 TGCAATTTTAGAGAGATAAGATT-TGTCACTTTAATCCGCTCTGC
1 TGCAACTTCAGGGAGATAAGATTAT-TGGCTTTAATCTGCTCCAC
* *
34981128 TGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCAC
* *
34981172 TGCAACTTCAAGGAGATAGGATT
1 TGCAACTTCAGGGAGATAAGATT
34981195 TGTGGTTTTA
Statistics
Matches: 287, Mismatches: 68, Indels: 34
0.74 0.17 0.09
Matches are distributed among these distances:
40 19 0.07
41 7 0.02
42 3 0.01
43 16 0.06
44 202 0.70
45 40 0.14
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCAC
Found at i:34989548 original size:16 final size:17
Alignment explanation
Indices: 34989506--34989548 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
34989496 CATGTAATTC
34989506 ATACGTACCATCTTTCT
1 ATACGTACCATCTTTCT
34989523 ATACGTACCATCTTTCT
1 ATACGTACCATCTTTCT
*
34989540 -TAGGTACCA
1 ATACGTACCA
34989549 ATAAGACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (17 bp):
ATACGTACCATCTTTCT
Found at i:35013002 original size:25 final size:26
Alignment explanation
Indices: 35012959--35013012 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
35012949 AAATAATTTG
*
35012959 AATTGGATGAAATTAAATGTCG-AGA
1 AATTGGATGAAATTAAATGACGTAGA
*
35012984 AATTGGATTG-AATTTAATGACGTAGA
1 AATTGGA-TGAAATTAAATGACGTAGA
35013010 AAT
1 AAT
35013013 AGTATGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (26 bp):
AATTGGATGAAATTAAATGACGTAGA
Found at i:35014276 original size:50 final size:50
Alignment explanation
Indices: 35014222--35014323 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
35014212 GAATGGAAAC
* * * * *
35014222 TCACCACAAATGCTTTCTAGAGGATTTGCCACAAAGGATTTCCAGAGAAT
1 TCACCAAAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
** *
35014272 TCACCAAAAAGGCTTTCCAGAGAAGTTGCCACTTAGGCTTTCCAGAGAAT
1 TCACCAAAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
35014322 TC
1 TC
35014324 TTGAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (50 bp):
TCACCAAAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
Found at i:35016799 original size:21 final size:21
Alignment explanation
Indices: 35016750--35016802 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
35016740 ATGAGTAGGT
35016750 AGTGTTGAGTTTCGAAAATGA
1 AGTGTTGAGTTTCGAAAATGA
*
35016771 AGTATTGAGTTT-GAAAATGCA
1 AGTGTTGAGTTTCGAAAATG-A
*
35016792 ATTGTTGAGTT
1 AGTGTTGAGTT
35016803 AAATTTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (21 bp):
AGTGTTGAGTTTCGAAAATGA
Found at i:35016974 original size:15 final size:15
Alignment explanation
Indices: 35016950--35016979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35016940 AGAAATAAAA
*
35016950 CAAATTCCAAAATAT
1 CAAATACCAAAATAT
35016965 CAAATACCAAAATAT
1 CAAATACCAAAATAT
35016980 AATAGTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
CAAATACCAAAATAT
Found at i:35017627 original size:35 final size:35
Alignment explanation
Indices: 35017578--35017670 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
35017568 TTTAACATTG
*
35017578 TAGCATGCTTAACATGCGATTC-TGAATCAGAATAA
1 TAGCATGCTTAACATGCGAATCAT-AATCAGAATAA
* *
35017613 TATCATGCTCAACATGCGAATCATAATCAGAATAA
1 TAGCATGCTTAACATGCGAATCATAATCAGAATAA
35017648 TAGCATGCTTAACATGCGAATCA
1 TAGCATGCTTAACATGCGAATCA
35017671 AAGTATCAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
35 51 0.98
36 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (35 bp):
TAGCATGCTTAACATGCGAATCATAATCAGAATAA
Found at i:35024364 original size:40 final size:40
Alignment explanation
Indices: 35024298--35024487 Score: 245
Period size: 40 Copynumber: 4.8 Consensus size: 40
35024288 TAATTATTGT
* *
35024298 TGATTGCACATACGTGCCCCTATTTGTACTTGGGTACACC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
35024338 TGATTGCACATATGTGGCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
35024378 TGATTGCACATACGTGGCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
35024418 TGATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
35024458 TGAATGAACTTACGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTATTTGTACT
35024488 CTGGAAGCCC
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:35024437 original size:20 final size:20
Alignment explanation
Indices: 35024336--35024438 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 20
35024326 CTTGGGTACA
*
35024336 CCTGATTGCACATATGTGGC
1 CCTGATTGCACATATGTGCC
* * * * ** *
35024356 CTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATATGTGCC
* *
35024376 CCTGATTGCACATACGTGGC
1 CCTGATTGCACATATGTGCC
* * *
35024396 CCT-ATTTGTACTTCA-GTACC
1 CCTGA-TTGCACAT-ATGTGCC
35024416 CCTGATTGCACATATGTGCC
1 CCTGATTGCACATATGTGCC
35024436 CCT
1 CCT
35024439 ATTTGTACTT
Statistics
Matches: 56, Mismatches: 23, Indels: 8
0.64 0.26 0.09
Matches are distributed among these distances:
19 2 0.04
20 52 0.93
21 2 0.04
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.34
Consensus pattern (20 bp):
CCTGATTGCACATATGTGCC
Found at i:35024457 original size:20 final size:20
Alignment explanation
Indices: 35024395--35024458 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
35024385 ACATACGTGG
35024395 CCCTATTTGTACTTCAGTAC
1 CCCTATTTGTACTTCAGTAC
* * *
35024415 CCCTGA-TTGCACAT-ATGTGC
1 CCCT-ATTTGTACTTCA-GTAC
35024435 CCCTATTTGTACTTCAGTAC
1 CCCTATTTGTACTTCAGTAC
35024455 CCCT
1 CCCT
35024459 GAATGAACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (20 bp):
CCCTATTTGTACTTCAGTAC
Found at i:35031205 original size:16 final size:16
Alignment explanation
Indices: 35031184--35031214 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35031174 TTAGAATTTG
35031184 GGCCCACATGCCCTAT
1 GGCCCACATGCCCTAT
*
35031200 GGCCCACATGGCCTA
1 GGCCCACATGCCCTA
35031215 CTTGGCTAGC
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:0.19, C:0.42, G:0.23, T:0.16
Consensus pattern (16 bp):
GGCCCACATGCCCTAT
Found at i:35031992 original size:5 final size:5
Alignment explanation
Indices: 35031982--35032010 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
35031972 ATTATTTATA
35031982 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
35032011 AACAAACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:35032721 original size:40 final size:40
Alignment explanation
Indices: 35032677--35032807 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
35032667 AAACATTTCG
* *
35032677 TATAAACATTTCATATTACTATTTCCATATAACTGGTTCA
1 TATAATCATTTCATATTACTATTTCCATATAACTGATTCA
** * *
35032717 TATAATCA-TTC--CGTA--ATTTCCATACAACTGATTCT
1 TATAATCATTTCATATTACTATTTCCATATAACTGATTCA
*
35032752 TATAATCATTTCATA-TATCTAGTTCCATATAACTGATTCA
1 TATAATCATTTCATATTA-CTATTTCCATATAACTGATTCA
35032792 TAT-ATCCATTTCATAT
1 TATAAT-CATTTCATAT
35032808 ACATCACACA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
35 25 0.34
36 3 0.04
37 4 0.05
39 5 0.07
40 36 0.49
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.43
Consensus pattern (40 bp):
TATAATCATTTCATATTACTATTTCCATATAACTGATTCA
Found at i:35035244 original size:50 final size:50
Alignment explanation
Indices: 35035129--35035314 Score: 264
Period size: 50 Copynumber: 3.7 Consensus size: 50
35035119 ACATGCGAAA
* ** * * *
35035129 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
* * **
35035180 GTCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
35035230 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
35035280 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35035315 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 95 0.79
51 25 0.21
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:35040387 original size:45 final size:47
Alignment explanation
Indices: 35040083--35040455 Score: 541
Period size: 46 Copynumber: 8.0 Consensus size: 47
35040073 NNNNNNNNNN
35040083 TCATCACATCGGCCATTA-GCCTTATCACATATAT-CACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
35040128 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAACACAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTT---CACAT
* *
35040180 TCATCACATTGGCCATTCGGCCTT-TCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
35040226 TCATCACATCGGCCATTAGGCCTTATCACATTTATACAC-TTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
35040272 TCATCACATCGGCCATTAGGCCTTATCACATATATATCACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATA-CACTTTCACAT
35040320 TCATCACATCGGCCATTA-GCCTTATCACATATTATA-ACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATA-TATACACTTTCACAT
* *
35040366 TCA-CACATTGGCCA-TCGGCCTTATCACATATATACACTTT-ACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
* * *
35040410 TCATCACATCGGCCATTAGGCCTTGT-ACATATATATACATTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
35040456 CACAATTATC
Statistics
Matches: 299, Mismatches: 13, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
44 12 0.04
45 69 0.23
46 104 0.35
47 29 0.10
48 35 0.12
49 19 0.06
51 4 0.01
52 27 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:35043879 original size:39 final size:39
Alignment explanation
Indices: 35043823--35044211 Score: 542
Period size: 39 Copynumber: 10.1 Consensus size: 39
35043813 CGAATACACG
* * * *
35043823 TCACTAGCATGATTGCTCTTCGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
* * ** * *
35043862 ACACCAGCACGAATGCTCTTCGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
*
35043901 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACA
35043941 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
35043980 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG-TACA
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
*
35044019 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
*
35044059 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TA-A
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
*
35044097 TCACTAGCATGAATGCTCTTCGGACTTAG-CCGG-TACA
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
*
35044134 TCACTAGCATGAATGCTCTTCGGGA-TTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
35044173 TCACTAGCACGAATGCTCTTC-GACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
35044210 TC
1 TC
35044212 GTCGAACCTT
Statistics
Matches: 324, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
36 6 0.02
37 40 0.12
38 40 0.12
39 152 0.47
40 86 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACA
Found at i:35043958 original size:79 final size:79
Alignment explanation
Indices: 35043823--35044211 Score: 571
Period size: 79 Copynumber: 5.0 Consensus size: 79
35043813 CGAATACACG
* * * * * **
35043823 TCACTAGCATGATTGCTCTTC-GGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
* *
35043887 TTAGCACGGATATA
66 TTAGCCCGGATACA
* * *
35043901 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
35043966 TTAGCCCGGATACA
66 TTAGCCCGGATACA
* *
35043980 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG-TACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGA
35044044 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
*
35044059 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TA-ATCACTAGCATGAATGCTCTTCGGAC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
35044122 TTAG-CCGG-TACA
66 TTAGCCCGGATACA
35044134 TCACTAGCATGAATGCTCTTCGGGA-TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
35044197 TTAGCCCGGAT-CA
66 TTAGCCCGGATACA
35044210 TC
1 TC
35044212 GTCGAACCTT
Statistics
Matches: 288, Mismatches: 17, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
74 9 0.03
75 38 0.13
76 33 0.11
77 9 0.03
78 65 0.23
79 134 0.47
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
TTAGCCCGGATACA
Found at i:35044033 original size:118 final size:118
Alignment explanation
Indices: 35043823--35044211 Score: 578
Period size: 118 Copynumber: 3.3 Consensus size: 118
35043813 CGAATACACG
* * * * * * *
35043823 TCACTAGCATGATTGCTCTTCGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG-T
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* * * * *
35043887 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTAGCCCGG-TACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
35043941 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
35044006 TTAGCCCGGTACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 TTAGCCCGGTACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
35044059 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-TA-ATCACTAGCATGAATGCTCTTC-GGA
1 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
35044121 CTTAG-CCGGTACATCACTAGCATGAATGCTCTTCGGGA-TTAGCCCGGATACA
65 CTTAGCCCGGTACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
35044173 TCACTAGCACGAATGCTCTTC-GACTTAGCCCGGAT-CATC
1 TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATC
35044212 GTCGAACCTT
Statistics
Matches: 252, Mismatches: 15, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
112 12 0.05
113 4 0.02
114 34 0.13
115 33 0.13
116 8 0.03
117 21 0.08
118 119 0.47
119 21 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (118 bp):
TCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
TTAGCCCGGTACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:35046488 original size:47 final size:47
Alignment explanation
Indices: 35046410--35047050 Score: 1052
Period size: 47 Copynumber: 13.6 Consensus size: 47
35046400 CCCTTCGGGA
* * * * * *
35046410 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35046457 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35046504 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046551 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046598 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35046647 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046695 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046742 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35046789 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35046838 CTTATCACATATATTCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35046932 CTTATCACATAT-TACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35047025 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
35047051 CACAATTATC
Statistics
Matches: 560, Mismatches: 28, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 71 0.13
47 350 0.62
48 18 0.03
49 121 0.22
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35046879 original size:238 final size:240
Alignment explanation
Indices: 35046410--35047050 Score: 1079
Period size: 238 Copynumber: 2.7 Consensus size: 240
35046400 CCCTTCGGGA
* * * * *
35046410 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCAC-ATGGCCATTCGGCCTTATCACATATATAC
*
35046473 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
35046538 TCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
130 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
35046601 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35046647 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTTATCACATATATACA
35046712 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
35046777 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
131 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
35046842 TCACATATAT-T-CACTTTCACATTCATCACATCGGCCATTAGGC
196 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35046885 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT-TAC
1 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGCCTTATCACATATATAC
* *
35046947 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
35047012 TCGGCCATTAGGCCTTATCACATATATATACA--TTCACAT
130 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
35047051 CACAATTATC
Statistics
Matches: 387, Mismatches: 12, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
234 7 0.02
236 125 0.32
237 32 0.08
238 150 0.39
239 22 0.06
240 51 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (240 bp):
CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35046920 original size:285 final size:282
Alignment explanation
Indices: 35046410--35047050 Score: 1079
Period size: 285 Copynumber: 2.3 Consensus size: 282
35046400 CCCTTCGGGA
* * * * * * * *
35046410 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
35046475 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
35046540 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
35046605 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
196 CA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT-TACACTTT
35046670 CACATTCATCACA-TGGCCATTCGGC
257 CACATTCATCACATTGGCCATTCGGC
35046695 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
35046760 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCACA
* * *
35046825 TTGGCCATTCGGCCTTATCACATATATTCACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
35046890 CAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTACACTTTCA
194 CACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTACACTTTCA
35046954 CATTCATCACATTGGCCATTCGGC
259 CATTCATCACATTGGCCATTCGGC
*
35046978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
35047043 ATTCACAT
66 TTTCACAT
35047051 CACAATTATC
Statistics
Matches: 338, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
282 21 0.06
283 87 0.26
285 140 0.41
287 90 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (282 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTACACTTTCACA
TTCATCACATTGGCCATTCGGC
Found at i:35050354 original size:11 final size:11
Alignment explanation
Indices: 35050333--35050375 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
35050323 ACCCTTTTAT
*
35050333 TTAACATAAAA
1 TTAAAATAAAA
*
35050344 TTGAAATAAAA
1 TTAAAATAAAA
35050355 TTAAAAT-AAA
1 TTAAAATAAAA
*
35050365 TTAGAATAAAA
1 TTAAAATAAAA
35050376 GTTCCTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (11 bp):
TTAAAATAAAA
Found at i:35054088 original size:47 final size:47
Alignment explanation
Indices: 35054025--35054450 Score: 701
Period size: 47 Copynumber: 9.1 Consensus size: 47
35054015 GAAATGATAG
*
35054025 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
35054072 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
35054119 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35054166 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35054213 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35054260 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35054307 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35054354 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
35054401 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35054447 TAAG
1 TAAG
35054451 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 37 0.10
47 325 0.90
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:35055790 original size:40 final size:40
Alignment explanation
Indices: 35055735--35056082 Score: 588
Period size: 40 Copynumber: 8.7 Consensus size: 40
35055725 GAGCATTGGA
35055735 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35055775 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35055815 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35055855 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35055895 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35055935 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35055975 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35056015 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35056055 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
35056083 AGGTGTTTGC
Statistics
Matches: 287, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 287 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:35063109 original size:40 final size:40
Alignment explanation
Indices: 35063054--35063401 Score: 588
Period size: 40 Copynumber: 8.7 Consensus size: 40
35063044 GAGCATTGGA
35063054 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35063094 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35063134 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35063174 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35063214 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35063254 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35063294 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35063334 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35063374 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
35063402 AGGTGTTTGC
Statistics
Matches: 287, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 287 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:35067409 original size:50 final size:50
Alignment explanation
Indices: 35067355--35067461 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
35067345 ACATGAGACT
* * * * *
35067355 TCTCATATCGG-AGCCTATGCCATGTCTCAGACATGGTCTTATGGGGGACC
1 TCTCATATCGGTA-CCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
* *
35067405 TCTCATCTCGGTACCAATGCCATGTCCCAAACATGGTCTAACGTGGGACC
1 TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
35067455 TCTCATA
1 TCTCATA
35067462 ACCTCAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
Found at i:35074754 original size:20 final size:20
Alignment explanation
Indices: 35074729--35074767 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35074719 TACTTTCTTC
35074729 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
35074749 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
35074768 AAATACCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:35075096 original size:50 final size:50
Alignment explanation
Indices: 35075057--35075163 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
35075047 ACATGAGAGT
*
35075057 TCTCATATCGG-AGCCCATGCCATGTCCCAGACATGGTCTTACGGAGGACC
1 TCTCATATCGGTA-CCAATGCCATGTCCCAGACATGGTCTTACGGAGGACC
* * *
35075107 TCTCATCTCGGTACCAATGCCATGTCCCAGACATAGTCTTATGTG-GGACC
1 TCTCATATCGGTACCAATGCCATGTCCCAGACATGGTCTTACG-GAGGACC
35075157 TCTCATA
1 TCTCATA
35075164 ACCTTAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTACCAATGCCATGTCCCAGACATGGTCTTACGGAGGACC
Found at i:35075176 original size:50 final size:50
Alignment explanation
Indices: 35075073--35075178 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
35075063 ATCGGAGCCC
* ** * *
35075073 ATGCCATGTCCCAGACATGGTCTTACGGAGGACCTCTCATCTCGGTACCA
1 ATGCCATGTCCCAGACATAGTCTTACGGAGGACCTCTCATAACCGTAACA
* * *
35075123 ATGCCATGTCCCAGACATAGTCTTATGTG-GGACCTCTCATAACCTTAATA
1 ATGCCATGTCCCAGACATAGTCTTACG-GAGGACCTCTCATAACCGTAACA
35075173 ATGCCA
1 ATGCCA
35075179 ATTCAGTGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATAGTCTTACGGAGGACCTCTCATAACCGTAACA
Found at i:35080499 original size:12 final size:12
Alignment explanation
Indices: 35080482--35080512 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35080472 ATATTGCAAG
35080482 AAATAATTTCAA
1 AAATAATTTCAA
35080494 AAATAATTTCAA
1 AAATAATTTCAA
35080506 AAATAAT
1 AAATAAT
35080513 GATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATAATTTCAA
Found at i:35085785 original size:24 final size:24
Alignment explanation
Indices: 35085736--35085786 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
35085726 TTTTCAAAAT
* * *
35085736 TCCTTGATTTTCTCCCCAATCTCC
1 TCCTTGATTTGCTCCCAAAACTCC
35085760 TCCTTGATTTGCTCCACAAAAC-CC
1 TCCTTGATTTGCTCC-CAAAACTCC
35085784 TCC
1 TCC
35085787 AAGACCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (24 bp):
TCCTTGATTTGCTCCCAAAACTCC
Found at i:35095002 original size:3 final size:3
Alignment explanation
Indices: 35094994--35095064 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
35094984 CTCTGTGGGA
*
35094994 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
35095042 TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TC
35095065 AGGATCCTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:35095986 original size:25 final size:26
Alignment explanation
Indices: 35095958--35096011 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
35095948 TAATTAGTAT
*
35095958 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
35095983 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
35096009 AAA
1 AAA
35096012 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:35107724 original size:43 final size:39
Alignment explanation
Indices: 35107645--35107727 Score: 94
Period size: 43 Copynumber: 2.0 Consensus size: 39
35107635 TAATCCTAGG
* * *
35107645 GAAAAAGAATTTAAAAAGAGAAGATAATCTTAGGTTGTT
1 GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
*
35107684 GAAAAGAGAATTTTAAAAAAGGAGAACATAAACATGGGTTGTT
1 GAAAA-AGAA-TTT-AAAAA-GAGAACATAAACATAGGTTGTT
35107727 G
1 G
35107728 GATTTACCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.14
40 4 0.11
41 3 0.08
42 5 0.14
43 19 0.53
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (39 bp):
GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
Found at i:35117155 original size:20 final size:22
Alignment explanation
Indices: 35117124--35117167 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
35117114 TTGTTTTTAC
35117124 TTAGGTACA-TTTAGTTGTATT
1 TTAGGTACATTTTAGTTGTATT
*
35117145 TTAGG-ACATTTTATTTGTATT
1 TTAGGTACATTTTAGTTGTATT
35117166 TT
1 TT
35117168 CATCATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.57
Consensus pattern (22 bp):
TTAGGTACATTTTAGTTGTATT
Found at i:35119407 original size:16 final size:16
Alignment explanation
Indices: 35119386--35119416 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35119376 TCTGACAATG
35119386 AGAGTTAGGGTGGGTA
1 AGAGTTAGGGTGGGTA
35119402 AGAGTTAGGGTGGGT
1 AGAGTTAGGGTGGGT
35119417 TAGATTGCGT
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:0.23, C:0.00, G:0.52, T:0.26
Consensus pattern (16 bp):
AGAGTTAGGGTGGGTA
Found at i:35120721 original size:42 final size:42
Alignment explanation
Indices: 35120642--35120724 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
35120632 TCCTAGAAAT
* * * * *
35120642 AAAATAATTTAAAAAGAAGAGATGATAATCTTGGGTTGTTGA
1 AAAAAAATTTAAAAAGAAGAGAAGATAAACATAGGTTGTTGA
35120684 AAAAAAATTTAAAAAGATA-AGAAGATAAACATAGGTTGTTG
1 AAAAAAATTTAAAAAGA-AGAGAAGATAAACATAGGTTGTTG
35120725 GATTTACGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (42 bp):
AAAAAAATTTAAAAAGAAGAGAAGATAAACATAGGTTGTTGA
Found at i:35129115 original size:28 final size:28
Alignment explanation
Indices: 35129001--35129132 Score: 129
Period size: 28 Copynumber: 4.7 Consensus size: 28
35128991 TCTAGTGAAT
* * * * *
35129001 TATCTATGTGTTTATTTTCCCAACGAAC
1 TATCTCTGTGTTTATTGTCCTAGCGGAC
*
35129029 TATCTCTTTGTTTATTGTCCTAGCGGAC
1 TATCTCTGTGTTTATTGTCCTAGCGGAC
* * *
35129057 TATCTCTGTGTTTACTGTCCCAGCAGAC
1 TATCTCTGTGTTTATTGTCCTAGCGGAC
* * * *
35129085 TATCTCTATGTTTATTATCCTTGCGGGC
1 TATCTCTGTGTTTATTGTCCTAGCGGAC
* *
35129113 TATCTTTGTGTTTACTGTCC
1 TATCTCTGTGTTTATTGTCC
35129133 CAGTGAACTA
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (28 bp):
TATCTCTGTGTTTATTGTCCTAGCGGAC
Found at i:35129135 original size:56 final size:56
Alignment explanation
Indices: 35129001--35129149 Score: 183
Period size: 56 Copynumber: 2.7 Consensus size: 56
35128991 TCTAGTGAAT
* * * * *
35129001 TATCTATGTGTTTATTTTCCCAACGAACTATCTCTTTGTTTATTGTCCTAGCGGAC
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCTAGCGGAC
* * *
35129057 TATCTCTGTGTTTACTGTCCCAGC-AGACTATCTCTATGTTTATTATCCTTGCGGGC
1 TATCTATGTGTTTACTGTCCCAGCGA-ACTATCTCTATGTTTATTATCCTAGCGGAC
* * *
35129113 TATCTTTGTGTTTACTGTCCCAGTGAACTATTTCTAT
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTAT
35129150 AGATGTCATG
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.01
56 78 0.98
57 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.44
Consensus pattern (56 bp):
TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCTAGCGGAC
Found at i:35132254 original size:49 final size:50
Alignment explanation
Indices: 35132117--35132257 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 50
35132107 CTGATCACCA
* * *
35132117 TTTGTGGACAAGCCACCACTGATTTCTAGATAAACTGACACTGATAACAC
1 TTTGTGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACAC
* ** * * **
35132167 TTTGTGGACAAGCCACCACTTATACGCAAATATGCTGCCACTGA-AACAC
1 TTTGTGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACAC
* *
35132216 TTTGTGGACAAGTCGCCACTAATTTGTAGATAAACTGCCACT
1 TTTGTGGACAAGCCACCACTAATTTGTAGATAAACTGCCACT
35132258 TACTTCCATC
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
49 38 0.52
50 35 0.48
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TTTGTGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACAC
Found at i:35133630 original size:32 final size:32
Alignment explanation
Indices: 35133592--35133662 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
35133582 GAAAGCAATG
35133592 ATAGGTGGGTGAGTAGGAGGAAAGGTTAGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTAGTCA
*
35133624 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTAGTCA
35133656 ACTAGGT
1 A-TAGGT
35133663 CTAGGTTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.30, C:0.04, G:0.44, T:0.23
Consensus pattern (32 bp):
ATAGGTGGGTGAGTAGGAGGAAAGGTTAGTCA
Found at i:35137869 original size:39 final size:39
Alignment explanation
Indices: 35137685--35137862 Score: 174
Period size: 39 Copynumber: 4.6 Consensus size: 39
35137675 TTGAATGATG
* * * *
35137685 TCCGGGCTAAGTCCCG-AGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35137724 TCC-GACTAAGATCCGAAGGCA-TTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
35137761 TCCGGGCTAAG-CCCAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
35137799 TCCGGG-TAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
35137839 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
35137863 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
36 8 0.07
37 19 0.16
38 29 0.25
39 54 0.47
40 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35137869 original size:78 final size:75
Alignment explanation
Indices: 35137736--35137895 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 75
35137726 CGACTAAGAT
* **
35137736 CCGAAGGCATTGTGCGAGTACTAATTCCGGGCTAAGCCCAAGGCATTTGTGCGAGTTA-CTAAAT
1 CCGAAGGCATTGTGCGAGTACTAATACCGGGCTAAGCCCAAGGCATTTGAACGAG-TAGCTAAAT
*
35137800 CCGGGTAAGTC
65 CCGGGTAAATC
* *
35137811 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGC-ATTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCAAGGCATTTGAACGAGTAGCTA
* * *
35137875 TATCCGGTTAAATT
62 AATCCGGGTAAATC
35137889 CCGAAGG
1 CCGAAGG
35137896 TACGTGATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
75 8 0.11
76 12 0.17
77 15 0.21
78 36 0.51
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (75 bp):
CCGAAGGCATTGTGCGAGTACTAATACCGGGCTAAGCCCAAGGCATTTGAACGAGTAGCTAAATC
CGGGTAAATC
Found at i:35145723 original size:39 final size:39
Alignment explanation
Indices: 35145579--35145760 Score: 185
Period size: 39 Copynumber: 4.6 Consensus size: 39
35145569 TTGAATGATG
* * * *
35145579 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35145619 TCCGGACTAAGATCCGAAGGCATTTGTGCGA-ATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
35145658 TCCGGGCTAAG-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
35145696 TCCGGG-TAAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCT-AAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35145736 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
35145761 ACGGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
37 18 0.15
38 15 0.13
39 44 0.37
40 34 0.29
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35148364 original size:21 final size:22
Alignment explanation
Indices: 35148339--35148380 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
35148329 TTTGGCAAGA
35148339 AATTTTATATTATTA-CAAATT
1 AATTTTATATTATTACCAAATT
* *
35148360 AATTTTTTATTGTTACCAAAT
1 AATTTTATATTATTACCAAAT
35148381 CGGTAGCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATATTATTACCAAATT
Found at i:35149259 original size:12 final size:12
Alignment explanation
Indices: 35149244--35149284 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
35149234 GGAAAGGGAA
35149244 AGAGAACGAGAT
1 AGAGAACGAGAT
*
35149256 AGAGAGCGAGAT
1 AGAGAACGAGAT
* *
35149268 AGAGAAAGAGAA
1 AGAGAACGAGAT
35149280 AGAGA
1 AGAGA
35149285 TCGCTTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.37, T:0.05
Consensus pattern (12 bp):
AGAGAACGAGAT
Found at i:35149284 original size:18 final size:19
Alignment explanation
Indices: 35149235--35149285 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
35149225 TCGAGAAAGG
*
35149235 GAAAGGGAAAGAGA-ACGA
1 GAAAGAGAAAGAGATACGA
* **
35149253 GATAGAGAGCGAGATA-GA
1 GAAAGAGAAAGAGATACGA
35149271 GAAAGAGAAAGAGAT
1 GAAAGAGAAAGAGAT
35149286 CGCTTTAGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.37, T:0.06
Consensus pattern (19 bp):
GAAAGAGAAAGAGATACGA
Found at i:35160600 original size:22 final size:22
Alignment explanation
Indices: 35160564--35160607 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
35160554 GATAATAATA
35160564 TTTAAAAATTCAA-TTAAAATT
1 TTTAAAAATTCAATTTAAAATT
*
35160585 TTTAAAGAATTTAATTTAAAATT
1 TTTAAA-AATTCAATTTAAAATT
35160608 AGAGTCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTCAATTTAAAATT
Found at i:35161285 original size:23 final size:21
Alignment explanation
Indices: 35161246--35161303 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
35161236 GGATTAAAGC
*
35161246 TTAATTAATTATGATTAAGTAAA
1 TTAATTAATTATAATT-A-TAAA
35161269 TTAATTAAGTT-TAATTATAAA
1 TTAATTAA-TTATAATTATAAA
*
35161290 TTAATCTAACTATA
1 TTAAT-TAATTATA
35161304 TAAATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.33
22 6 0.20
23 12 0.40
24 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAATTAATTATAATTATAAA
Found at i:35162771 original size:25 final size:25
Alignment explanation
Indices: 35162673--35162774 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 25
35162663 CATTAGGGAT
* * *
35162673 TACTGATT-GTAGCTCGTAAGAGCT
1 TACTGATTCATAGCTCGTATGAGCA
* *
35162697 TACTGATTC-TCAACTCGTATGAGCT
1 TACTGATTCAT-AGCTCGTATGAGCA
* * *
35162722 TATTGATTTACAGCTCGTGA-GAGCA
1 TACTGATTCATAGCTCGT-ATGAGCA
*
35162747 TACCGATTCATAGCTCGTATGAGCA
1 TACTGATTCATAGCTCGTATGAGCA
35162772 TAC
1 TAC
35162775 ATGTACAAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
24 10 0.16
25 51 0.82
26 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
TACTGATTCATAGCTCGTATGAGCA
Found at i:35178106 original size:19 final size:20
Alignment explanation
Indices: 35178082--35178126 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
35178072 CTTTGTGGAT
*
35178082 TTTTGG-ACTTTTAA-TTTTG
1 TTTTGGAAC-TTTAACTTTGG
35178101 TTTTGGAACTTTAACTTTGG
1 TTTTGGAACTTTAACTTTGG
35178121 TTTTGG
1 TTTTGG
35178127 TATTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.58
Consensus pattern (20 bp):
TTTTGGAACTTTAACTTTGG
Found at i:35179066 original size:19 final size:19
Alignment explanation
Indices: 35179042--35179112 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
35179032 GTGTTAATGC
35179042 GCTAGGATGCACTTCGTGT
1 GCTAGGATGCACTTCGTGT
* **
35179061 GCTAGGATGTACTT--TAA
1 GCTAGGATGCACTTCGTGT
* *
35179078 GCTTCAGTATGCGCTTCGTGT
1 GC-T-AGGATGCACTTCGTGT
35179099 GCTAGGATGCACTT
1 GCTAGGATGCACTT
35179113 TATGTGTCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 30 0.79
20 1 0.03
21 3 0.08
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (19 bp):
GCTAGGATGCACTTCGTGT
Found at i:35179127 original size:38 final size:38
Alignment explanation
Indices: 35179048--35179128 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
35179038 ATGCGCTAGG
* *
35179048 ATGCACTTCGTGTGCTAGGATGTACTTTAAGCTTCAGT
1 ATGCACTTCGTGTGCTAGGATGCACTTTAAGCTTCAAT
* *
35179086 ATGCGCTTCGTGTGCTAGGATGCACTTTATG-TGTCAAT
1 ATGCACTTCGTGTGCTAGGATGCACTTTAAGCT-TCAAT
35179124 ATGCA
1 ATGCA
35179129 ATATCTTTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (38 bp):
ATGCACTTCGTGTGCTAGGATGCACTTTAAGCTTCAAT
Found at i:35183495 original size:49 final size:49
Alignment explanation
Indices: 35183333--35183497 Score: 115
Period size: 49 Copynumber: 3.3 Consensus size: 49
35183323 CTCTATTCAA
* *
35183333 TGGGACATGTTTGTTATGTTGGAGAGTGTTAACTTTATGATTCACTTTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
* * ** * * *
35183382 TGGGATATGTTTGACTCTATGAATCAATTAGTG-T-G-TTGGA-GATGCTC-CATTCAA
1 TGGGACATGTTTG--T-TATG-TTGGA-GAGTGTTAGCTT-TATGAT--TCACATT--T
35183436 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
*
35183485 TGGGATATGTTTG
1 TGGGACATGTTTG
35183498 ACTCTATGAA
Statistics
Matches: 84, Mismatches: 17, Indels: 30
0.64 0.13 0.23
Matches are distributed among these distances:
49 28 0.33
50 5 0.06
51 16 0.19
52 14 0.17
53 5 0.06
54 16 0.19
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (49 bp):
TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
Found at i:35183506 original size:103 final size:103
Alignment explanation
Indices: 35183322--35183527 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
35183312 TGTGAGTTAA
* *
35183322 GCTCTATTCAATGGGACATGTTTGTTATGTTGGAGAGTGTTAACTTTATGATTCACTTTTTGGGA
1 GCTCCATTCAATGGGACATGTTTGTTATGTTGGAGAGTGTTAACTTTATGATTCACATTTTGGGA
35183387 TATGTTTGACTCTATGAATCAATTAGTGTGTTGGAGAT
66 TATGTTTGACTCTATGAATCAATTAGTGTGTTGGAGAT
*
35183425 GCTCCATTCAATGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTTTGGGA
1 GCTCCATTCAATGGGACATGTTTGTTATGTTGGAGAGTGTTAACTTTATGATTCACATTTTGGGA
35183490 TATGTTTGACTCTATGAATCAATTAGTGTGTTGGAGAT
66 TATGTTTGACTCTATGAATCAATTAGTGTGTTGGAGAT
35183528 CCGTGTATCT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (103 bp):
GCTCCATTCAATGGGACATGTTTGTTATGTTGGAGAGTGTTAACTTTATGATTCACATTTTGGGA
TATGTTTGACTCTATGAATCAATTAGTGTGTTGGAGAT
Found at i:35189848 original size:21 final size:21
Alignment explanation
Indices: 35189824--35189865 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35189814 TTTATCTATA
35189824 CAGATA-AATTTAATTCAATTT
1 CAGATATAA-TTAATTCAATTT
*
35189845 CAGATATAATTCATTCAATTT
1 CAGATATAATTAATTCAATTT
35189866 AATCCAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (21 bp):
CAGATATAATTAATTCAATTT
Found at i:35190076 original size:19 final size:19
Alignment explanation
Indices: 35190061--35190110 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
35190051 TTCTATTTTT
*
35190061 CAATTTAATCAATATTTGA
1 CAATTTCATCAATATTTGA
*
35190080 CAATTTCATCCATATTTGA
1 CAATTTCATCAATATTTGA
35190099 CAATTTCATCAA
1 CAATTTCATCAA
35190111 AAATCACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (19 bp):
CAATTTCATCAATATTTGA
Found at i:35205327 original size:25 final size:25
Alignment explanation
Indices: 35205290--35205359 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
35205280 TGCTCTTATA
** * *
35205290 AGCTTACTATTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCTCGAAAG
** *
35205315 AGCTTACCGTTATTTGGCTCAAAAG
1 AGCTTACCGTTATTCAGCTCGAAAG
*
35205340 AGCTTACCGTT-TACAGCTCG
1 AGCTTACCGTTATTCAGCTCG
35205360 TATGAGCATA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCTCGAAAG
Found at i:35209544 original size:17 final size:17
Alignment explanation
Indices: 35209505--35209563 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
35209495 AAAACAAATA
*
35209505 GAGGCCCAAA-CCTA-T
1 GAGGCCCAAACCCAACT
*
35209520 GTGGCCCAAACCCAACT
1 GAGGCCCAAACCCAACT
* *
35209537 GAGGCCCAAACCAAACA
1 GAGGCCCAAACCCAACT
*
35209554 GAAGCCCAAA
1 GAGGCCCAAA
35209564 GCAGATTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 24 0.67
ACGTcount: A:0.39, C:0.36, G:0.19, T:0.07
Consensus pattern (17 bp):
GAGGCCCAAACCCAACT
Found at i:35222840 original size:44 final size:44
Alignment explanation
Indices: 35222780--35223591 Score: 476
Period size: 44 Copynumber: 18.8 Consensus size: 44
35222770 TAGTGGCCGG
* *
35222780 GATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
35222824 GATCTTATCTCGCTGAAGTTGCAG-AGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
35222865 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* **
35222909 G-TCTTATC-CTCCTGAAGTTGCAGT-GACGCAGACTAAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA-ATCTCA
* * *
35222953 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* * * *
35222998 -ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATCTTA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
** * ** * *
35223041 GATCTTATCTTTCTGAAGTTACA-AAGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
35223082 G-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * **
35223126 G-TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* * * *
35223170 AATCTTATCTCCCTGAATTTACAGTGGAGCAGATTAAAATCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* *
35223215 -ATCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCTCA
** * ***
35223258 GATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
35223299 G-TCTTATCTCTCTGAAGTTTCAGTGGAGCAG-TCTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAA--AATCTCA
* * * ***
35223343 G-TCTTATCCTCCC-GAAGTTGCAGT-GAGGGAGACTGAAGATGAAA
1 GATCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
*
35223387 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-C-C-
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
35223428 GATAATTCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GAT--CT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* ** * ****
35223475 AATCTTATCTCTTTGAAGTTGCA-TAGAGCAGA-TCGCGTCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
35223516 G-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAA--GCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
** *
35223559 GATCTTATCTCCCT-AAGGAGTAGTGGAGCAGAT
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
35223592 CGAAGATGGC
Statistics
Matches: 595, Mismatches: 117, Indels: 113
0.72 0.14 0.14
Matches are distributed among these distances:
40 77 0.13
41 36 0.06
42 28 0.05
43 58 0.10
44 293 0.49
45 91 0.15
46 10 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
Found at i:35223047 original size:133 final size:127
Alignment explanation
Indices: 35222869--35223252 Score: 298
Period size: 133 Copynumber: 2.9 Consensus size: 127
35222859 CATCTAGTCT
* **
35222869 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCCTCCTGAAGTTACAAAG
*
35222934 ACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
65 A-GCAGA-T-AACAT--CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA
35222999 TCC
125 TCC
* * * * * * *
35223002 TATCTCCCTGAAGTTGCGGTGGAGCGGATTAA-AATCTTAGATCTTATCTTTCTGAAGTTACAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTATCCTCCTGAAGTTACAAA
* * * * *
35223066 GAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAA--G-CAAGT
64 GAGCAGATAACATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCGACAA-T
*
35223128 CT
126 CC
* * *
35223130 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCTTAT-CTCCCTGAATTTAC
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CAAGTCTTATCCT-CCTGAAGTTAC
** * * *
35223192 AGTGGAGCAGATTAAAATCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAA
61 A-AAGAGCAGA-TAACATC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAA
35223253 TCTCAGATCT
Statistics
Matches: 198, Mismatches: 37, Indels: 34
0.74 0.14 0.13
Matches are distributed among these distances:
127 6 0.03
128 61 0.31
129 18 0.09
130 14 0.07
131 12 0.06
132 8 0.04
133 79 0.40
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCCTCCTGAAGTTACAAAGA
GCAGATAACATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAATCC
Found at i:35223140 original size:217 final size:217
Alignment explanation
Indices: 35222781--35223567 Score: 1281
Period size: 217 Copynumber: 3.6 Consensus size: 217
35222771 AGTGGCCGGG
**
35222781 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCGCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
35222846 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
35222911 CTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
35222976 GTGGAGCAGATTAAAACCGACA
196 GTGGAGCAGATTAAAACCGACA
* * *
35222998 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATCTTAGATCTTATCTTTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* *
35223063 AAAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
35223128 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAATTTACA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
*
35223193 GTGGAGCAGATTAAAATCGACA
196 GTGGAGCAGATTAAAACCGACA
* *
35223215 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* * * *
35223280 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTTCAGTGGAGCAGTCTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* * *
35223345 CTTATCCTCCCGAAGTTGCAGTGAGGGAGACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
*
35223410 GTGGAGCAGATTAAAACCGATA
196 GTGGAGCAGATTAAAACCGACA
* * *
35223432 ATTCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAAATCTTATCTCTT-TGAAGTTG
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCT-TTCTGAAGTTG
* * * *
35223496 CATAGAGCAGATCGCGTCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGC-AG
65 CAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
35223560 ATCTTATC
130 -TCTTATC
35223568 TCCCTAAGGA
Statistics
Matches: 529, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
216 2 0.00
217 525 0.99
218 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAACCGACA
Found at i:35223232 original size:173 final size:173
Alignment explanation
Indices: 35222908--35223233 Score: 380
Period size: 173 Copynumber: 1.9 Consensus size: 173
35222898 TAAGTAAGCA
*
35222908 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
* * * *
35222973 GCAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATC
66 GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATC
* * * **
35223038 TTAGATCTTATCTTTCTGAAGTTACAAAGAGCAGATCACATCT
131 TGAAATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
* *
35223081 AGTCTTAT-CTCCCTGAAGTTGCAGTGGA-GTAGACT-AAGTAAG-CAAGTCTTATC-CTCCTGA
1 AGTCTTATCCT-CCTGAAGTTGCAGT-GACGCAGACTAAAG-AAGACAAATCTTATCTC-CCTGA
* * * *
35223141 AGTTGCAGT-GAGGCAGACTGAAGA-TGACAAATCTTATCTCCCTGAATTTACAGTGGAGCAGAT
62 AGTTGCAGTGGA-GCAGA-TGAAAACCGAC-AATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
35223204 TAAAATC-GACAATCCTATCTCCCTGAAGTT
124 TAAAATCTGA-AATCCTATCTCCCTGAAGTT
35223234 GCGGTGGAGC
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
171 3 0.02
172 38 0.29
173 86 0.67
174 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATC
TGAAATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
Found at i:35224091 original size:17 final size:17
Alignment explanation
Indices: 35224045--35224092 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
35224035 TTAATAAAAA
35224045 CAAATAGAGGCCCAAAC
1 CAAATAGAGGCCCAAAC
*
35224062 C-TAT-GAGGCCCAAAC
1 CAAATAGAGGCCCAAAC
*
35224077 CAAATAGAAGCCCAAA
1 CAAATAGAGGCCCAAA
35224093 GCAGATTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.46
16 4 0.15
17 10 0.38
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (17 bp):
CAAATAGAGGCCCAAAC
Found at i:35236884 original size:22 final size:22
Alignment explanation
Indices: 35236858--35236909 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
35236848 TGAACCATTC
35236858 CATTTACTTAC-TTTCCTTTCCA
1 CATTTACTTACTTTTCC-TTCCA
35236880 CATTTACTTACTTTTCCTTCCA
1 CATTTACTTACTTTTCCTTCCA
35236902 C--TTACTTA
1 CATTTACTTA
35236910 GCATAAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.24
22 17 0.59
23 5 0.17
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (22 bp):
CATTTACTTACTTTTCCTTCCA
Found at i:35238352 original size:12 final size:11
Alignment explanation
Indices: 35238333--35238365 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
35238323 GGTAAATTCT
35238333 TTAAAAATAAC
1 TTAAAAATAAC
35238344 TTAAAAA-ATAC
1 TTAAAAATA-AC
35238355 TTAAAAATAAC
1 TTAAAAATAAC
35238366 AACTAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (11 bp):
TTAAAAATAAC
Found at i:35238661 original size:61 final size:61
Alignment explanation
Indices: 35238566--35238694 Score: 224
Period size: 61 Copynumber: 2.1 Consensus size: 61
35238556 GTATGCTAGG
* *
35238566 TTTCTTCTCCCCTTTTTTGTTTCAACTGAAAGACGAAGAAGATGAATGAATCATCTTTCTT
1 TTTCTTCTCCCCCTTTTTGTTTCAACTAAAAGACGAAGAAGATGAATGAATCATCTTTCTT
*
35238627 TTTCTTCTCCCCCTTTTTGTTTCGACTAAAAGACGAAGAAGATGAATGAATCATCTTTCTT
1 TTTCTTCTCCCCCTTTTTGTTTCAACTAAAAGACGAAGAAGATGAATGAATCATCTTTCTT
35238688 TTT-TTCT
1 TTTCTTCT
35238695 TTTTATCATT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
60 4 0.06
61 61 0.94
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (61 bp):
TTTCTTCTCCCCCTTTTTGTTTCAACTAAAAGACGAAGAAGATGAATGAATCATCTTTCTT
Found at i:35239596 original size:14 final size:15
Alignment explanation
Indices: 35239577--35239613 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
35239567 TCCAAGTTTG
35239577 AATGCTA-TATAACA
1 AATGCTATTATAACA
35239591 AATGCTAATTATAACA
1 AATGCT-ATTATAACA
35239607 AATGCTA
1 AATGCTA
35239614 ATTAAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (15 bp):
AATGCTATTATAACA
Found at i:35239605 original size:16 final size:16
Alignment explanation
Indices: 35239584--35239617 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35239574 TTGAATGCTA
35239584 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
35239600 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
35239616 TA
1 TA
35239618 AAATGCCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
TATAACAAATGCTAAT
Found at i:35245489 original size:49 final size:47
Alignment explanation
Indices: 35245334--35245595 Score: 364
Period size: 47 Copynumber: 5.6 Consensus size: 47
35245324 CCCTTCGGGA
* * * * * *
35245334 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35245381 CCTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35245428 CTCATCACATATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35245475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35245524 CTTATCACATATATACACTTTCACATTCATCACA-CGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35245570 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
35245596 CACAATTATC
Statistics
Matches: 191, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
46 35 0.18
47 112 0.59
49 44 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35245525 original size:96 final size:95
Alignment explanation
Indices: 35245337--35245595 Score: 364
Period size: 96 Copynumber: 2.7 Consensus size: 95
35245327 TTCGGGACTT
* * * * * * * *
35245337 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATACATT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA-T
35245400 TTCACATTCATCACATCGGCCATTAGGCCTC
65 TTCACATTCATCACATCGGCCATTAGGCCTC
* *
35245431 ATCACATATATACACATTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA-T
* *
35245496 TTCACATTCATCACATCGGCCATTCGGCCTT
65 TTCACATTCATCACATCGGCCATTAGGCCTC
35245527 ATCACATATATACACTTTCACATTCATCACA-CGGCCATTAGGCCTTATCACATATATATACA-T
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATT
35245590 TCACAT
66 TCACAT
35245596 CACAATTATC
Statistics
Matches: 148, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
93 7 0.05
94 42 0.28
95 30 0.20
96 69 0.47
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATT
TCACATTCATCACATCGGCCATTAGGCCTC
Found at i:35249327 original size:15 final size:16
Alignment explanation
Indices: 35249307--35249336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35249297 TGGTGCTTTG
35249307 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
35249322 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
35249337 AGCAGGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:35258789 original size:29 final size:29
Alignment explanation
Indices: 35258756--35258973 Score: 154
Period size: 29 Copynumber: 7.5 Consensus size: 29
35258746 CCATCAACCA
* * *
35258756 ATGAAAAGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
** * *
35258785 ATGAAAAGGGATGGTGGCGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* ** * *
35258814 ATGAAGAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* *
35258843 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGATT
* * * *
35258872 ATGAAAAGGGATAGCTTC-AGCTATTGATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * * *
35258901 ATGAAAAAGGATAGTTTC-AGCTATCAATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * *
35258930 AATGGAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTTTCGACCATCGATT
35258960 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
35258974 CTACAACTAT
Statistics
Matches: 152, Mismatches: 32, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 129 0.85
30 20 0.13
31 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGATT
Found at i:35262656 original size:30 final size:30
Alignment explanation
Indices: 35262622--35262696 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
35262612 TACCAAAAAA
*
35262622 TGGAAGCCTATGTGGCT-ATTCTCTAATAAT-
1 TGGAAGCCTTTGTGGCTGA-TCTCTAAT-ATG
*
35262652 TGGAAGCCTTTATGGCTGATCTCTAATATG
1 TGGAAGCCTTTGTGGCTGATCTCTAATATG
35262682 TGGAAGCCTTTGTGG
1 TGGAAGCCTTTGTGG
35262697 GCCCTTCTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.05
30 37 0.93
31 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (30 bp):
TGGAAGCCTTTGTGGCTGATCTCTAATATG
Found at i:35273346 original size:50 final size:50
Alignment explanation
Indices: 35273221--35273707 Score: 609
Period size: 50 Copynumber: 9.6 Consensus size: 50
35273211 AATAATAACA
* * * ** * * *
35273221 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** * **
35273270 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
35273320 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
35273370 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35273420 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
35273470 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
35273520 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
35273570 TGCCAACGTCATGTCCCAGACTTGGTCTTACATTGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
35273620 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
35273676 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
35273708 CTGGCTCACA
Statistics
Matches: 384, Mismatches: 46, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
48 1 0.00
49 37 0.10
50 308 0.80
53 5 0.01
56 33 0.09
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:35281147 original size:22 final size:23
Alignment explanation
Indices: 35281105--35281152 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
35281095 GAAAATTCTG
*
35281105 CCAGTAAAAATGTAGACAAATTA
1 CCAGTAAAAATGTAGACAAATCA
* *
35281128 CCAGTAAAAATG-CGATAAATCA
1 CCAGTAAAAATGTAGACAAATCA
35281150 CCA
1 CCA
35281153 TTCCCTCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (23 bp):
CCAGTAAAAATGTAGACAAATCA
Found at i:35290340 original size:25 final size:25
Alignment explanation
Indices: 35290304--35290367 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
35290294 AAAAATAAGG
*
35290304 GTGAAAATCTCCATAGAAGGAGCTT
1 GTGAAAAGCTCCATAGAAGGAGCTT
*
35290329 GTGAAAAGCTCCATGGAAGGAGCTT
1 GTGAAAAGCTCCATAGAAGGAGCTT
35290354 GTGAAAAGCTCCAT
1 GTGAAAAGCTCCAT
35290368 TTGGTCCCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (25 bp):
GTGAAAAGCTCCATAGAAGGAGCTT
Found at i:35294407 original size:41 final size:41
Alignment explanation
Indices: 35294362--35294466 Score: 138
Period size: 41 Copynumber: 2.6 Consensus size: 41
35294352 CACGTACTTT
* *
35294362 CCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTG
1 CCCCTGTTTGTACTTCGGTACCCCTAAATTACACATACGTG
* * * **
35294403 CCCCTGTTTCTAATTCGGTACCCCTGAATTACATGTACGTG
1 CCCCTGTTTGTACTTCGGTACCCCTAAATTACACATACGTG
*
35294444 CCCCTGTTTGTACTTTGGTACCC
1 CCCCTGTTTGTACTTCGGTACCC
35294467 TTGGATGCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (41 bp):
CCCCTGTTTGTACTTCGGTACCCCTAAATTACACATACGTG
Found at i:35295976 original size:28 final size:28
Alignment explanation
Indices: 35295944--35296008 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
35295934 TAATATGGGT
*
35295944 CTTAGCCCATTTCAGTAACAGTGCGGGC
1 CTTAGCCCATTTCAATAACAGTGCGGGC
*
35295972 CTTAGCCCATTTCAATAACAGTGTGGGC
1 CTTAGCCCATTTCAATAACAGTGCGGGC
*
35296000 CTTAACCCA
1 CTTAGCCCA
35296009 ATACAGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (28 bp):
CTTAGCCCATTTCAATAACAGTGCGGGC
Found at i:35296381 original size:27 final size:27
Alignment explanation
Indices: 35296354--35296600 Score: 212
Period size: 27 Copynumber: 9.1 Consensus size: 27
35296344 TATAACAGTT
* *
35296354 ATTTTAACCTAT-GGGGGTATTTCGGTT
1 ATTTTAACCT-TCGAGGGTATTTCGGTC
* * * *
35296381 ATTTTACCCTTCGGGGGTGTTTCGATC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
* * * *
35296408 ATTTTACCCTTCAAAGGTATTTCAGTC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
* * * * *
35296435 ATTTTACCCATCAAAGGTATTTTGGTC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
* * * *
35296462 ATTTTAGCCTTCGAGCGTATTTTGATC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
* *
35296489 ATTTT-ACCTTTTGAGGGTATTTCGGTT
1 ATTTTAACC-TTCGAGGGTATTTCGGTC
* *
35296516 ATTTT-ACCTTTTGAGGGTATTTCGGTT
1 ATTTTAACC-TTCGAGGGTATTTCGGTC
*
35296543 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
* *
35296570 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTAACCTTCGAGGGTATTTCGGTC
35296597 ATTT
1 ATTT
35296601 GCCCATGAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.02
27 183 0.97
28 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
ATTTTAACCTTCGAGGGTATTTCGGTC
Found at i:35296439 original size:54 final size:54
Alignment explanation
Indices: 35296369--35296600 Score: 250
Period size: 54 Copynumber: 4.3 Consensus size: 54
35296359 AACCTATGGG
* * * * *
35296369 GGTATTTCGGTTATTTTACCCTTCGGGGGTGTTTCGATCATTTTACCCTTCAAA
1 GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAA
* * * * * *
35296423 GGTATTTCAGTCATTTTACCCATCAAAGGTATTTTGGTCATTTTAGCCTTCG-A
1 GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAA
* * * * * * * *
35296476 GCGTATTTTGATCATTTTACCTTTTGAGGGTATTTCGGTTATTTTACCTTTTGAG
1 G-GTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAA
* *
35296531 GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAG
1 GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAA
*
35296585 GGTATTTCGATCATTT
1 GGTATTTCGGTCATTT
35296601 GCCCATGAAT
Statistics
Matches: 141, Mismatches: 35, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
53 2 0.01
54 138 0.98
55 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (54 bp):
GGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAA
Found at i:35296467 original size:81 final size:80
Alignment explanation
Indices: 35296369--35296600 Score: 275
Period size: 81 Copynumber: 2.9 Consensus size: 80
35296359 AACCTATGGG
* * * *
35296369 GGTATTTCGGTTATTTTACCCTTCGGGGGTGTTTCGATCATTTTACCCTTCAAAGGTATTTCAGT
1 GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC-GT
35296434 CATTTTACCCATCAAA
65 CATTTTACCCATCAAA
* * * * * * *
35296450 GGTATTTTGGTCATTTTAGCCTTCGAGCGTATTTTGATCATTTTACCTTTTGAGGGTATTTCGGT
1 GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC-GT
* ** ** *
35296515 TATTTTACCTTTTGAG
65 CATTTTACCCATCAAA
*
35296531 GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGAT
1 GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG-T
35296596 CATTT
65 CATTT
35296601 GCCCATGAAT
Statistics
Matches: 123, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 1 0.01
81 122 0.99
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (80 bp):
GGTATTTCGGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGTC
ATTTTACCCATCAAA
Found at i:35297303 original size:5 final size:5
Alignment explanation
Indices: 35297276--35297331 Score: 67
Period size: 5 Copynumber: 11.0 Consensus size: 5
35297266 GCACTGGAAT
* * * *
35297276 GAAGA GAAAAA GAAGA GATGA GAAGA GAAGA GAGGA GAAGA GATGA GAAGA
1 GAAGA G-AAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA
35297327 GAAGA
1 GAAGA
35297332 TTCAGCAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 38 0.90
6 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.39, T:0.04
Consensus pattern (5 bp):
GAAGA
Found at i:35297631 original size:17 final size:14
Alignment explanation
Indices: 35297593--35297626 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
35297583 CCCCAAACGG
35297593 CACAACTCTCCTCA
1 CACAACTCTCCTCA
35297607 CACAACTCTCCTCA
1 CACAACTCTCCTCA
35297621 CACAAC
1 CACAAC
35297627 AACTCCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (14 bp):
CACAACTCTCCTCA
Found at i:35314116 original size:52 final size:50
Alignment explanation
Indices: 35314010--35314172 Score: 188
Period size: 50 Copynumber: 3.2 Consensus size: 50
35314000 ATGATGCTTA
* * * * *
35314010 AATGCATGATTTAA-TTAAGATGCAAAC-TAAATGAACA-AATGAGTTACTT
1 AATGCATGACTTAATTTATGATGCAAACTTAACT-AACATGA-GAGTTACAT
* *
35314059 AATGCATGACTTAATTTAATGATGGAGACTTAAACTAACATGAGAGTTACAT
1 AATGCATGACTTAATTT-ATGATGCAAACTT-AACTAACATGAGAGTTACAT
* *
35314111 AATGCATGTCATAATTTATGATGCAAACTTAACTAACATGAGAGTTACAT
1 AATGCATGACTTAATTTATGATGCAAACTTAACTAACATGAGAGTTACAT
35314161 AATGCATGACTT
1 AATGCATGACTT
35314173 TATTAAACGC
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
49 13 0.14
50 32 0.33
51 19 0.20
52 28 0.29
53 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (50 bp):
AATGCATGACTTAATTTATGATGCAAACTTAACTAACATGAGAGTTACAT
Found at i:35315632 original size:41 final size:41
Alignment explanation
Indices: 35315587--35315695 Score: 173
Period size: 41 Copynumber: 2.7 Consensus size: 41
35315577 GTGCTCTTGG
* * *
35315587 TTGTACTTTGGTACCCCTAAATTGCACATATGTGCCCCTGT
1 TTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTAT
*
35315628 TTGTACTTCGGTACCCCTGAATTGCACTTATGTGCCCCTAT
1 TTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTAT
*
35315669 TTGTACTTCGGTACCCATGAATTGCAC
1 TTGTACTTCGGTACCCCTGAATTGCAC
35315696 GTAGAAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (41 bp):
TTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTAT
Found at i:35315646 original size:20 final size:20
Alignment explanation
Indices: 35315621--35315684 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
35315611 CACATATGTG
35315621 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * ** *
35315641 CCCCTGAATTGCACTTATGTG
1 CCCCTG-TTTGTACTTCGGTA
*
35315662 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
35315682 CCC
1 CCC
35315685 ATGAATTGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.14, C:0.33, G:0.17, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:35315665 original size:21 final size:21
Alignment explanation
Indices: 35315600--35315666 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
35315590 TACTTTGGTA
* *
35315600 CCCCTAAATTGCACATATGTG
1 CCCCTGAATTGCACTTATGTG
* * ** *
35315621 CCCCTG-TTTGTACTTCGGTA
1 CCCCTGAATTGCACTTATGTG
35315641 CCCCTGAATTGCACTTATGTG
1 CCCCTGAATTGCACTTATGTG
35315662 CCCCT
1 CCCCT
35315667 ATTTGTACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (21 bp):
CCCCTGAATTGCACTTATGTG
Found at i:35323208 original size:12 final size:13
Alignment explanation
Indices: 35323191--35323219 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35323181 CTCATACATG
35323191 AATAAATAAA-GC
1 AATAAATAAATGC
35323203 AATAAATAAATGC
1 AATAAATAAATGC
35323216 AATA
1 AATA
35323220 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:35324617 original size:14 final size:14
Alignment explanation
Indices: 35324600--35324631 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35324590 TGGTTTGGAG
35324600 TTTAAGGTTTAAGA
1 TTTAAGGTTTAAGA
*
35324614 TTTAAGGTTTATGA
1 TTTAAGGTTTAAGA
35324628 TTTA
1 TTTA
35324632 GTGTTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:35324731 original size:15 final size:15
Alignment explanation
Indices: 35324711--35324770 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
35324701 TAAGGTTTAT
*
35324711 GGTTTAAAGTTTAGG
1 GGTTTAGAGTTTAGG
* *
35324726 GGTTTAGGGATTAGG
1 GGTTTAGAGTTTAGG
** *
35324741 GG-TTATTGTTTA-T
1 GGTTTAGAGTTTAGG
35324754 GGTTTAGAGTTTAGG
1 GGTTTAGAGTTTAGG
35324769 GG
1 GG
35324771 AGTTACTATT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
13 2 0.06
14 15 0.45
15 16 0.48
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (15 bp):
GGTTTAGAGTTTAGG
Found at i:35324810 original size:15 final size:15
Alignment explanation
Indices: 35324786--35324815 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35324776 CTATTTTAGA
*
35324786 GTTTATGGATTATGG
1 GTTTAGGGATTATGG
35324801 GTTTAGGGATTATGG
1 GTTTAGGGATTATGG
35324816 ATTATAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GTTTAGGGATTATGG
Found at i:35324911 original size:7 final size:7
Alignment explanation
Indices: 35324662--35324912 Score: 65
Period size: 7 Copynumber: 35.0 Consensus size: 7
35324652 TTACAGTGTA
*
35324662 GGTTTAT
1 GGTTTAG
35324669 GGTTTAG
1 GGTTTAG
*
35324676 TGTTTAG
1 GGTTTAG
* *
35324683 TGTTTTG
1 GGTTTAG
*
35324690 GGTTTAA
1 GGTTTAG
* * *
35324697 TGATTAA
1 GGTTTAG
*
35324704 GGTTTAT
1 GGTTTAG
*
35324711 GGTTTAA
1 GGTTTAG
*
35324718 AGTTTAGG
1 GGTTTA-G
35324726 GGTTTAG
1 GGTTTAG
*
35324733 GGATTAG
1 GGTTTAG
* *
35324740 GGGTTAT
1 GGTTTAG
* *
35324747 TGTTTAT
1 GGTTTAG
35324754 GGTTTAG
1 GGTTTAG
*
35324761 AGTTTAGG
1 GGTTTA-G
* *
35324769 GGAGTTACT
1 GG-TTTA-G
**
35324778 ATTTTAG
1 GGTTTAG
* *
35324785 AGTTTAT
1 GGTTTAG
*
35324792 GGATTATG
1 GGTTTA-G
35324800 GGTTTAG
1 GGTTTAG
* *
35324807 GGATTAT
1 GGTTTAG
* *
35324814 GGATTAT
1 GGTTTAG
* **
35324821 AGTTTTT
1 GGTTTAG
*
35324828 GATTTAAG
1 GGTTT-AG
35324836 GG-TTAG
1 GGTTTAG
*
35324842 GGTTTAA
1 GGTTTAG
* *
35324849 GATCTAG
1 GGTTTAG
*
35324856 GGGTTAGG
1 GGTTTA-G
35324864 GGTTTAG
1 GGTTTAG
*
35324871 GGTTTTG
1 GGTTTAG
*
35324878 GGTTTTG
1 GGTTTAG
*
35324885 GGTTAAG
1 GGTTTAG
35324892 GG-TTAG
1 GGTTTAG
35324898 GGTTTTAG
1 GG-TTTAG
35324906 GGTTTAG
1 GGTTTAG
35324913 ATTAATTAGT
Statistics
Matches: 176, Mismatches: 59, Indels: 18
0.70 0.23 0.07
Matches are distributed among these distances:
6 9 0.05
7 136 0.77
8 28 0.16
9 3 0.02
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:35325240 original size:19 final size:20
Alignment explanation
Indices: 35325211--35325250 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
35325201 AAATTATAAC
35325211 AAATAAAAAATGAAATACAA
1 AAATAAAAAATGAAATACAA
35325231 AAAT-AAAAATGAAATACAA
1 AAATAAAAAATGAAATACAA
35325250 A
1 A
35325251 GACTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAAAAAATGAAATACAA
Found at i:35325604 original size:125 final size:125
Alignment explanation
Indices: 35325391--35325726 Score: 460
Period size: 125 Copynumber: 2.7 Consensus size: 125
35325381 GTTTATGAGA
* * * *
35325391 AAAACACCGCAAAAGGAAAGCAATAGCGGCATTTGGACCAAAAAATGCCACAACTATGTATTAAA
1 AAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTGGACCAAAAAACGCCGCAACTATGTATTAAA
* **
35325456 ATTTCTTAAAACGGTGCAATTTCACTACAAGAATTTAATGTTTTAGTGGCGTTTTTGCTG
66 ATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCGTTTTTGCTG
* * ** *
35325516 AAAATGCCGCAAAAGGTAAGTAATAGCGGTGTTTGCACCAAAAAACGCCGCAACTATGTATTAAA
1 AAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTGGACCAAAAAACGCCGCAACTATGTATTAAA
* * *
35325581 ATTTCTCAAAACGGTGCCGTTTCACTATAGGAATTTAATTTTTTAGTGGCGTTTTTGCTG
66 ATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCGTTTTTGCTG
* * * *
35325641 AAAACGCCGCAAAAGGTAAGCAATAACGACATTTGGACCGAAAAATACG--GTAATTATGTATTA
1 AAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTGGACC-AAAAA-ACGCCGCAACTATGTATTA
*
35325704 AAATTTCTCAAAACGGCGCCGTT
64 AAATTTCTCAAAACGGTGCCGTT
35325727 GCAATACTAT
Statistics
Matches: 184, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
125 176 0.96
126 5 0.03
127 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (125 bp):
AAAACGCCGCAAAAGGTAAGCAATAGCGGCATTTGGACCAAAAAACGCCGCAACTATGTATTAAA
ATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCGTTTTTGCTG
Found at i:35326995 original size:14 final size:14
Alignment explanation
Indices: 35326976--35327002 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35326966 GAGCTGTGAA
35326976 TCTATTTGTTTTAC
1 TCTATTTGTTTTAC
35326990 TCTATTTGTTTTA
1 TCTATTTGTTTTA
35327003 AATGGAAGAC
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:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (14 bp):
TCTATTTGTTTTAC
Found at i:35328332 original size:18 final size:18
Alignment explanation
Indices: 35328311--35328392 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
35328301 AAAATAATAT
35328311 ATAATTTACATAACTTAC
1 ATAATTTACATAACTTAC
* * ** *
35328329 ATAA-ATATATGTCATATC
1 ATAATTTACATAACTTA-C
* *
35328347 AAAATTTACATAACTTAT
1 ATAATTTACATAACTTAC
*
35328365 ATAATTTACATAACTCAC
1 ATAATTTACATAACTTAC
*
35328383 ATAACTTACA
1 ATAATTTACA
35328393 CAGACGTGGT
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 7 0.15
18 32 0.70
19 7 0.15
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAATTTACATAACTTAC
Found at i:35328377 original size:9 final size:9
Alignment explanation
Indices: 35328352--35328392 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
35328342 ATATCAAAAT
35328352 TTACATAAC
1 TTACATAAC
* *
35328361 TTATATAAT
1 TTACATAAC
35328370 TTACATAAC
1 TTACATAAC
*
35328379 TCACATAAC
1 TTACATAAC
35328388 TTACA
1 TTACA
35328393 CAGACGTGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:35329754 original size:9 final size:9
Alignment explanation
Indices: 35329715--35329820 Score: 76
Period size: 9 Copynumber: 11.8 Consensus size: 9
35329705 CCTTTAATCT
35329715 TAACTTA-A
1 TAACTTACA
*
35329723 TAACTTATA
1 TAACTTACA
*
35329732 TATATCATATCA
1 TA-A-CTTA-CA
35329744 TAACTTACA
1 TAACTTACA
*
35329753 TAACTCACA
1 TAACTTACA
*
35329762 TAACTCACA
1 TAACTTACA
35329771 TAACTTACA
1 TAACTTACA
35329780 TAA--TACA
1 TAACTTACA
* *
35329787 TAA-ATATA
1 TAACTTACA
* *
35329795 TATCATATCA
1 TAACTTA-CA
35329805 TAACTTACA
1 TAACTTACA
35329814 TAACTTA
1 TAACTTA
35329821 ATTATACTTG
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 45 0.56
10 10 0.12
11 4 0.05
12 3 0.04
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TAACTTACA
Found at i:35331554 original size:12 final size:12
Alignment explanation
Indices: 35331537--35331562 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35331527 AAGATCGAGG
35331537 GATGAATTTGAT
1 GATGAATTTGAT
35331549 GATGAATTTGAT
1 GATGAATTTGAT
35331561 GA
1 GA
35331563 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (12 bp):
GATGAATTTGAT
Found at i:35335121 original size:43 final size:43
Alignment explanation
Indices: 35335060--35335168 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 43
35335050 TAACCGGTGC
***
35335060 TTGTGA-AAAAGGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGT
1 TTGTGATAAAA-GCGCCGCTAAAGGTCATGTTCTTTAGAAACGT
35335103 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAAACGT
1 TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAAACGT
* *
35335146 TTGTGATAAAAGCACCACTAAAG
1 TTGTGATAAAAGCGCCGCTAAAG
35335169 AATATGGCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 56 0.93
44 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
TTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAAACGT
Found at i:35335181 original size:43 final size:43
Alignment explanation
Indices: 35335100--35335182 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
35335090 TCTTTAGCGG
* * * **
35335100 CGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGAAA
1 CGTTTGTGATAAAAGCACCACTAAAGATCATGGCCTTTAGAAA
35335143 CGTTTGTGATAAAAGCACCACTAAAGAAT-ATGGCCTTTAG
1 CGTTTGTGATAAAAGCACCACTAAAG-ATCATGGCCTTTAG
35335183 CGGCACTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (43 bp):
CGTTTGTGATAAAAGCACCACTAAAGATCATGGCCTTTAGAAA
Found at i:35335271 original size:39 final size:39
Alignment explanation
Indices: 35335228--35335305 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
35335218 AAAGTTGTAC
* *
35335228 AAAACTTGTACAAAACCTTAGTTCGCATTTGTTTATTTT
1 AAAACTTGTACAAAACCTTAGTTCACATGTGTTTATTTT
*
35335267 AAAACTTGTACAAAACCTTAGTTCACGTGTGTTTATTTT
1 AAAACTTGTACAAAACCTTAGTTCACATGTGTTTATTTT
35335306 CAATCGAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (39 bp):
AAAACTTGTACAAAACCTTAGTTCACATGTGTTTATTTT
Found at i:35336303 original size:54 final size:53
Alignment explanation
Indices: 35336219--35336350 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 53
35336209 ACAAACAGTC
* * * *
35336219 ATTTTACCCTATGAGGGTATTTTGGAAATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCT-TTAGGGTATTTCGGAAATTTTACCCTTCCAGGGTATTTCAATA
*
35336273 ATTTTACCCTTTATGGGTATTTCGGTAATTTTACCCTTCCAGGGTATTTCAATA
1 ATTTTACCCTTTA-GGGTATTTCGGAAATTTTACCCTTCCAGGGTATTTCAATA
* *
35336327 ATTTTAACCTTTGGCGGTATTTCG
1 ATTTTACCCTTTAG-GGTATTTCG
35336351 ATCATTTAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 3 0.04
54 66 0.96
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTTTAGGGTATTTCGGAAATTTTACCCTTCCAGGGTATTTCAATA
Found at i:35336322 original size:27 final size:26
Alignment explanation
Indices: 35336219--35336357 Score: 138
Period size: 27 Copynumber: 5.2 Consensus size: 26
35336209 ACAAACAGTC
*
35336219 ATTTTACCCTATGAGGGTATTTTGGA-A
1 ATTTTACCCT-TGAGGGTA-TTTCGATA
35336246 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTT-GAGGGTATTTCGATA
* *
35336273 ATTTTACCCTTTATGGGTATTTCGGTA
1 ATTTTACCCTTGA-GGGTATTTCGATA
* *
35336300 ATTTTACCCTTCCAGGGTATTTCAATA
1 ATTTTACCCTT-GAGGGTATTTCGATA
* *
35336327 ATTTTAACCTTTG-GCGGTATTTCGATC
1 ATTTT-ACCCTTGAG-GGTATTTCGATA
35336354 ATTT
1 ATTT
35336358 AACAATCTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
26 8 0.08
27 82 0.85
28 6 0.06
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTGAGGGTATTTCGATA
Found at i:35342764 original size:50 final size:49
Alignment explanation
Indices: 35342659--35342836 Score: 140
Period size: 50 Copynumber: 3.4 Consensus size: 49
35342649 GAATGCGATC
* * **
35342659 CCATGTAAGACCATGTCTGGGACATGTCATTGGTATCATTGAGATTATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATAGG---CACCGAG---ATGAGAGGT
* ** * *
35342714 CCAATGTAAGACCATGTTTGGGACATGGTGTTGGCACTGAGATGAGAGGT
1 CC-ATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAGGT
** * **
35342764 CTCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACT
1 C-CATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAGGT
*
35342814 CCTATGTAAGACCATATCTGGGA
1 CC-ATGTAAGACCATGTCTGGGA
35342837 TATGAAATTG
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 65 0.64
51 1 0.01
53 6 0.06
55 2 0.02
56 27 0.26
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAGGT
Found at i:35342883 original size:49 final size:49
Alignment explanation
Indices: 35342769--35342889 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 49
35342759 GAGGTCTCCC
** * *
35342769 GTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACTCCTAT
1 GTAAGACCATGTCTGGGACATGAAATAGGCA-CGATAAGAGAACTCCCAT
* * *
35342819 GTAAGACCATATCTGGGATATGAAATTGGCA-GTATAAGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGAAATAGGCACG-ATAAGAGAAC-TCCCAT
35342868 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
35342890 GCTTTTGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.07
49 30 0.50
50 26 0.43
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGAAATAGGCACGATAAGAGAACTCCCAT
Found at i:35350245 original size:50 final size:50
Alignment explanation
Indices: 35350187--35350318 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
35350177 AATTTAAATT
* *
35350187 ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
** * * *
35350237 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
* **
35350287 ATGAAAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGA
35350319 TTTGGAATTG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
Found at i:35351264 original size:21 final size:21
Alignment explanation
Indices: 35351239--35351278 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35351229 CTGACTTTAT
*
35351239 AAAATCATTAAGACTTGTACA
1 AAAATAATTAAGACTTGTACA
* *
35351260 AAAATAATTATGAGTTGTA
1 AAAATAATTAAGACTTGTA
35351279 ATTTATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAGACTTGTACA
Found at i:35353816 original size:28 final size:28
Alignment explanation
Indices: 35353776--35353888 Score: 167
Period size: 28 Copynumber: 4.0 Consensus size: 28
35353766 CAGTATAGTT
35353776 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
* *
35353804 TGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
35353832 TGGGCCTTAGCCCAATACAA-AACCAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTG
*
35353860 TGGGCCTTATCCCAATA-AAGTAACAGTG
1 TGGGCCTTAGCCCAATACAA-TAACAGTG
35353888 T
1 T
35353889 AGTGCAATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
27 4 0.05
28 71 0.92
29 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAGTG
Found at i:35353830 original size:61 final size:59
Alignment explanation
Indices: 35353735--35353891 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 59
35353725 CAGCATGCTG
* * * *
35353735 TAACAGTCTGGGCCTGAGCCCTAT-TCAGTGACAGTATAGTTTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATAT-AGTAACAGT-TAG-TTGGGCCTTAGCCCAATACAA
35353796 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAG-T-G-TGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
* *
35353852 -AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTGTAGT
1 TAA-CAGTGTGGGCCTTAGCCCAATATAGTAACAGT-TAGT
35353892 GCAATAATGC
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
55 2 0.02
56 49 0.58
58 2 0.02
59 2 0.02
61 28 0.33
62 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (59 bp):
TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
Done.