Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 55 of 136
Found at i:18132335 original size:27 final size:27
Alignment explanation
Indices: 18132261--18132335 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
18132251 CGTTGTGACG
* * * *
18132261 AACTCTGAAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAATGGATA-CCTTTCTGGCA
*
18132289 AACTCTGAAATGGATGCCTTTCTGGCA
1 AACTCTGAAATGGATACCTTTCTGGCA
*
18132316 AATTCTG-AATGGATCACCTT
1 AACTCTGAAATGGAT-ACCTT
18132336 CGTGGTATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.18
27 19 0.49
28 13 0.33
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (27 bp):
AACTCTGAAATGGATACCTTTCTGGCA
Found at i:18135627 original size:49 final size:49
Alignment explanation
Indices: 18135561--18135789 Score: 192
Period size: 50 Copynumber: 4.5 Consensus size: 49
18135551 CAAAGCTATG
* * * *
18135561 TCCCAGACATAGCCTTACATGGGATGTT-TCTTGTAC-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATA
* * *
18135610 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
** ** * * *
18135660 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATTCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
** *
18135710 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAATGCCATA
18135766 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
18135790 TCTCTTTACC
Statistics
Matches: 151, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.03
49 25 0.17
50 83 0.55
53 2 0.01
55 1 0.01
56 36 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATA
Found at i:18135665 original size:50 final size:50
Alignment explanation
Indices: 18135597--18135794 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 50
18135587 TTTCTTGTAC
* * **
18135597 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
18135647 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
18135697 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
18135753 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18135795 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 83 0.66
53 2 0.02
56 41 0.33
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:18140225 original size:123 final size:123
Alignment explanation
Indices: 18140006--18140233 Score: 368
Period size: 123 Copynumber: 1.9 Consensus size: 123
18139996 GGCTGTCTAT
18140006 TTAAACCATTCTTTGGTTTAATTACACAAGGTCCTTACAGTGTTGAAGAAATTAGAGATTTGCCC
1 TTAAACCATTCTTTGGTTTAATTACACAAGGTCCTTACAGTGTTGAAGAAATTAGAGATTTGCCC
*
18140071 AAAGATTTACGATTGTTCGACTCTCAATCCTGAGTTGTGTAACACCTCAAACTCTCAG
66 AAAGATTTACGATTGCTCGACTCTCAATCCTGAGTTGTGTAACACCTCAAACTCTCAG
* * * *
18140129 TTAAACCTTTCTTTGGTTTTATTACACAAGGTCCTTGCAGTGTTGAAGAAATTAGAGATTTGCCG
1 TTAAACCATTCTTTGGTTTAATTACACAAGGTCCTTACAGTGTTGAAGAAATTAGAGATTTGCCC
* * *
18140194 GAAGATTTTCGATTGACT-GAGTCTCAATCCTGAGTTGTGT
66 AAAGATTTACGATTG-CTCGACTCTCAATCCTGAGTTGTGT
18140234 GGCATCCAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
123 95 0.99
124 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (123 bp):
TTAAACCATTCTTTGGTTTAATTACACAAGGTCCTTACAGTGTTGAAGAAATTAGAGATTTGCCC
AAAGATTTACGATTGCTCGACTCTCAATCCTGAGTTGTGTAACACCTCAAACTCTCAG
Found at i:18140269 original size:13 final size:14
Alignment explanation
Indices: 18140251--18140279 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18140241 AAAATTGCTT
18140251 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
18140264 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
18140278 AA
1 AA
18140280 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:18158230 original size:21 final size:21
Alignment explanation
Indices: 18158204--18158245 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18158194 ATTAACACAC
*
18158204 ATTTTTGGACCATCTTAGGCT
1 ATTTTTGAACCATCTTAGGCT
18158225 ATTTTTGAACCATCTTAGGCT
1 ATTTTTGAACCATCTTAGGCT
18158246 GGAAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (21 bp):
ATTTTTGAACCATCTTAGGCT
Found at i:18159312 original size:100 final size:100
Alignment explanation
Indices: 18159199--18159379 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 100
18159189 GCTTCTTAAT
18159199 TTAATAATAAGTTTGATTTA-AGGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
1 TTAATAATAAGTTTGATTTAGA-GTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
18159263 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
65 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
* * * * *
18159299 TTAATGATTAGTTTGATTTAGAGTTAATTTAGTCACTTTGAATATTTATTTAATAGAATAAATAA
1 TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
18159364 TGATTCTAAAATGAAG
66 TGATTCTAAAATGAAG
18159380 CTAAATTTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (100 bp):
TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
TGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
Found at i:18159533 original size:5 final size:5
Alignment explanation
Indices: 18159523--18159548 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18159513 TGAGCATTCG
18159523 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
18159549 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:18161026 original size:9 final size:9
Alignment explanation
Indices: 18161009--18161039 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18160999 TCGAGTTGAT
18161009 TCGAATAAC
1 TCGAATAAC
*
18161018 TCGATTAAC
1 TCGAATAAC
18161027 TCGAATAAC
1 TCGAATAAC
18161036 TCGA
1 TCGA
18161040 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:18161463 original size:13 final size:13
Alignment explanation
Indices: 18161445--18161469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18161435 AATTTGCTTG
18161445 TAATAATTTTTTT
1 TAATAATTTTTTT
18161458 TAATAATTTTTT
1 TAATAATTTTTT
18161470 GAGTAAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATAATTTTTTT
Found at i:18163404 original size:27 final size:26
Alignment explanation
Indices: 18163367--18163417 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
18163357 AATGTGAAAG
18163367 GGGGTTGCTAAGTGCTGATTTCCCCGA
1 GGGGTTGCTAAGTGCTGA-TTCCCCGA
18163394 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
18163418 TATTCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18163468 original size:103 final size:102
Alignment explanation
Indices: 18163289--18163596 Score: 562
Period size: 103 Copynumber: 3.0 Consensus size: 102
18163279 ATTGAATATA
*
18163289 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATCGGTGGTTGCTAAGTGCTGATCCCACCGTATT
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
18163354 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTTCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGA-TTCCCC
18163392 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
* *
18163457 TTAAATGTGAAAGGGGGTTGTTAAGTGTTGATTCCCTC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCC-C
*
18163495 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCTCACCGTATT
1 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
18163560 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
18163597 TATTCATTGG
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
102 6 0.03
103 192 0.97
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
Found at i:18163623 original size:76 final size:76
Alignment explanation
Indices: 18163497--18163672 Score: 343
Period size: 76 Copynumber: 2.3 Consensus size: 76
18163487 ATTCCCTCGA
*
18163497 GGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCTCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTT
18163562 AAATGTGAAAG
66 AAATGTGAAAG
18163573 GGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTT
18163638 AAATGTGAAAG
66 AAATGTGAAAG
18163649 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
18163673 CAAGGGGTTG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 99 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTT
AAATGTGAAAG
Found at i:18180294 original size:25 final size:27
Alignment explanation
Indices: 18180259--18180313 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
18180249 GAAAGTTAAA
* * *
18180259 TATACACGAATTAATTTATTCATT-TT
1 TATACACGAATAAATTAATTAATTCTT
18180285 TATA-ACGAATAAATTAATTAATTCTT
1 TATACACGAATAAATTAATTAATTCTT
18180311 TAT
1 TAT
18180314 CTTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
TATACACGAATAAATTAATTAATTCTT
Found at i:18182421 original size:65 final size:65
Alignment explanation
Indices: 18182290--18182421 Score: 162
Period size: 65 Copynumber: 2.0 Consensus size: 65
18182280 CTCATTAGAA
* * *
18182290 AAGTTGGTGTTATTTTACCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTTGCATAAAGAAT
1 AAGTTGGTGTTATTTTACCATTTTATGTTGATTTTAAATATGTTTCATTTTCTTGCATAAAAAAT
** *
18182355 AAGTTGGTGTTATTTTGGCATATTTATGTT-ATTTTAAATATGTTT-ATTTTTTTG-ATTCAAAA
1 AAGTTGGTGTTATTTTACCAT-TTTATGTTGATTTTAAATATGTTTCATTTTCTTGCA-T-AAAA
18182417 AAT
63 AAT
18182420 AA
1 AA
18182422 AAAAGTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
63 1 0.02
64 9 0.16
65 40 0.69
66 8 0.14
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.52
Consensus pattern (65 bp):
AAGTTGGTGTTATTTTACCATTTTATGTTGATTTTAAATATGTTTCATTTTCTTGCATAAAAAAT
Found at i:18186986 original size:18 final size:18
Alignment explanation
Indices: 18186952--18186986 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18186942 TTCTTTCTCA
**
18186952 TTTTCAGCAACTTCTTCT
1 TTTTCAGCAACAACTTCT
18186970 TTTTCAGCAACAACTTC
1 TTTTCAGCAACAACTTC
18186987 CTCTTCTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTTCAGCAACAACTTCT
Found at i:18186998 original size:21 final size:21
Alignment explanation
Indices: 18186959--18187009 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
18186949 TCATTTTCAG
* * *
18186959 CAACTTCTTCTTTTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
*
18186980 CAACTTCCTCTTCTGCAGCGA
1 CAACTTCCTCTTCTGCAGCAA
*
18187001 TAACTTCCT
1 CAACTTCCT
18187010 TCTTAACAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:18188221 original size:22 final size:22
Alignment explanation
Indices: 18188205--18188251 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
18188195 GAATGTGTTG
18188205 ACAGTAAGATTTCAATGCGTCA
1 ACAGTAAGATTTCAATGCGTCA
18188227 ACAGTAAGATTTCAATGCGTCA
1 ACAGTAAGATTTCAATGCGTCA
18188249 ACA
1 ACA
18188252 TTGGTACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (22 bp):
ACAGTAAGATTTCAATGCGTCA
Found at i:18198493 original size:16 final size:16
Alignment explanation
Indices: 18198468--18198512 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
18198458 ACATTTGAAG
* *
18198468 AAATTATTATTTTTGG
1 AAATTGTTATTTTTGA
* *
18198484 ATATTTTTATTTTTGA
1 AAATTGTTATTTTTGA
18198500 AAATTGTTATTTT
1 AAATTGTTATTTT
18198513 CATAATATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
AAATTGTTATTTTTGA
Found at i:18202713 original size:38 final size:37
Alignment explanation
Indices: 18202635--18202740 Score: 108
Period size: 38 Copynumber: 2.8 Consensus size: 37
18202625 CTCTACTGTT
* * * *
18202635 TTACCGAATGCATGATAATTCATGCC-ACTGATTTTG
1 TTACTGAATGCATGATAAATCATGCCTACTAATTCTG
18202671 TTACT-AATCGCATGACTAAATCATGCCTACTAATTCTG
1 TTACTGAAT-GCATGA-TAAATCATGCCTACTAATTCTG
* * *
18202709 TTACTGAATGCATGTTTTAATCATGCTTACTA
1 TTACTGAATGCATG-ATAAATCATGCCTACTA
18202741 TTTTGTGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
35 3 0.05
36 10 0.17
37 10 0.17
38 32 0.55
39 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (37 bp):
TTACTGAATGCATGATAAATCATGCCTACTAATTCTG
Found at i:18202894 original size:40 final size:40
Alignment explanation
Indices: 18202843--18202938 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
18202833 TGCAATTCTA
* * * *
18202843 GTGGTTTGTCCACATTACTGGTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
* * * * *
18202883 GTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
18202923 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
18202939 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
Found at i:18202938 original size:20 final size:20
Alignment explanation
Indices: 18202843--18202938 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 20
18202833 TGCAATTCTA
*
18202843 GTGGTTTGTCCACATTACTG
1 GTGGCTTGTCCACATTACTG
* ** * * *
18202863 GTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTG
*
18202883 GTGGCTTGTCCACATTTCTG
1 GTGGCTTGTCCACATTACTG
**** * **
18202903 GCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTG
18202923 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
18202939 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 29, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGGCTTGTCCACATTACTG
Found at i:18202939 original size:40 final size:40
Alignment explanation
Indices: 18202881--18202976 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
18202871 TCTACAATAG
*
18202881 TGGTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTAC
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
* *
18202921 TGGTGGCTTGTCCACATTTCTAGCAATTTATTTGCATTAT
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
*
18202961 TGGTAGCTTGTCCACA
1 TGGTGGCTTGTCCACA
18202977 AATTGGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (40 bp):
TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
Found at i:18208177 original size:18 final size:18
Alignment explanation
Indices: 18208156--18208199 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18208146 TCAGAGAACA
*
18208156 GAGAGAATAGAGAGAATG
1 GAGAGAATAGAGAAAATG
**
18208174 GAGAGTTTAGAGAAAATG
1 GAGAGAATAGAGAAAATG
*
18208192 GAAAGAAT
1 GAGAGAAT
18208200 TGGATTTGAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (18 bp):
GAGAGAATAGAGAAAATG
Found at i:18210061 original size:39 final size:38
Alignment explanation
Indices: 18210015--18210111 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 38
18210005 ATATAATAAT
* * * *
18210015 TATAATTACCATAATTATAATGATATTTGACTGAAAAAA
1 TATAATTACAATAATTATAATAATATTCGAC-CAAAAAA
* *
18210054 TATAATTACAATAATTATAATAATATTCGACCATAAAT
1 TATAATTACAATAATTATAATAATATTCGACCAAAAAA
18210092 TATAATTACAATAATTATAA
1 TATAATTACAATAATTATAA
18210112 CAAGGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 24 0.46
39 28 0.54
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (38 bp):
TATAATTACAATAATTATAATAATATTCGACCAAAAAA
Found at i:18215126 original size:434 final size:434
Alignment explanation
Indices: 18214318--18215188 Score: 1742
Period size: 434 Copynumber: 2.0 Consensus size: 434
18214308 CTTAGTTTGG
18214318 TGAGGTCGAGAGATAAATCGGACTAATTTGTCTAATTTGATAAAATGGTGCCCAAGAGGTAAAAT
1 TGAGGTCGAGAGATAAATCGGACTAATTTGTCTAATTTGATAAAATGGTGCCCAAGAGGTAAAAT
18214383 TGAGCTAATTTAAGAGAACTAGCGATTTAGATCCCTAATTCGAAGGTTAATTGACAACATGGAAA
66 TGAGCTAATTTAAGAGAACTAGCGATTTAGATCCCTAATTCGAAGGTTAATTGACAACATGGAAA
18214448 TCAACCAATCATTGTTTTTTATTGAATTTGTTAATTTTATAGTTTTACGTGTTTTAAATTTGTCT
131 TCAACCAATCATTGTTTTTTATTGAATTTGTTAATTTTATAGTTTTACGTGTTTTAAATTTGTCT
18214513 TTTTTAGTTTTAAGTAATTAATTAGAACAATTAACCTCAATTATGGCTTGTTGTAATATAATGCT
196 TTTTTAGTTTTAAGTAATTAATTAGAACAATTAACCTCAATTATGGCTTGTTGTAATATAATGCT
18214578 AGTAAGTAGTTAGCTAGACTCCTGTAATTGCATGTTAATTATTAAGGGATCAGTTAACCACTAAC
261 AGTAAGTAGTTAGCTAGACTCCTGTAATTGCATGTTAATTATTAAGGGATCAGTTAACCACTAAC
18214643 TCATTTGGGTTTGATCCTTGGAATACTCTAGTGTTCCATTAAACATTACAAATATTACAATTAAC
326 TCATTTGGGTTTGATCCTTGGAATACTCTAGTGTTCCATTAAACATTACAAATATTACAATTAAC
18214708 CTGTCACACTTGCAGATACGATGTTATATTTGATTACTTAGTGT
391 CTGTCACACTTGCAGATACGATGTTATATTTGATTACTTAGTGT
18214752 TGAGGTCGAGAGATAAATCGGACTAATTTGTCTAATTTGATAAAATGGTGCCCAAGAGGTAAAAT
1 TGAGGTCGAGAGATAAATCGGACTAATTTGTCTAATTTGATAAAATGGTGCCCAAGAGGTAAAAT
18214817 TGAGCTAATTTAAGAGAACTAGCGATTTAGATCCCTAATTCGAAGGTTAATTGACAACATGGAAA
66 TGAGCTAATTTAAGAGAACTAGCGATTTAGATCCCTAATTCGAAGGTTAATTGACAACATGGAAA
18214882 TCAACCAATCATTGTTTTTTATTGAATTTGTTAATTTTATAGTTTTACGTGTTTTAAATTTGTCT
131 TCAACCAATCATTGTTTTTTATTGAATTTGTTAATTTTATAGTTTTACGTGTTTTAAATTTGTCT
18214947 TTTTTAGTTTTAAGTAATTAATTAGAACAATTAACCTCAATTATGGCTTGTTGTAATATAATGCT
196 TTTTTAGTTTTAAGTAATTAATTAGAACAATTAACCTCAATTATGGCTTGTTGTAATATAATGCT
18215012 AGTAAGTAGTTAGCTAGACTCCTGTAATTGCATGTTAATTATTAAGGGATCAGTTAACCACTAAC
261 AGTAAGTAGTTAGCTAGACTCCTGTAATTGCATGTTAATTATTAAGGGATCAGTTAACCACTAAC
18215077 TCATTTGGGTTTGATCCTTGGAATACTCTAGTGTTCCATTAAACATTACAAATATTACAATTAAC
326 TCATTTGGGTTTGATCCTTGGAATACTCTAGTGTTCCATTAAACATTACAAATATTACAATTAAC
18215142 CTGTCACACTTGCAGATACGATGTTATATTTGATTACTTAGTGT
391 CTGTCACACTTGCAGATACGATGTTATATTTGATTACTTAGTGT
18215186 TGA
1 TGA
18215189 TTCCCAGACC
Statistics
Matches: 437, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
434 437 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (434 bp):
TGAGGTCGAGAGATAAATCGGACTAATTTGTCTAATTTGATAAAATGGTGCCCAAGAGGTAAAAT
TGAGCTAATTTAAGAGAACTAGCGATTTAGATCCCTAATTCGAAGGTTAATTGACAACATGGAAA
TCAACCAATCATTGTTTTTTATTGAATTTGTTAATTTTATAGTTTTACGTGTTTTAAATTTGTCT
TTTTTAGTTTTAAGTAATTAATTAGAACAATTAACCTCAATTATGGCTTGTTGTAATATAATGCT
AGTAAGTAGTTAGCTAGACTCCTGTAATTGCATGTTAATTATTAAGGGATCAGTTAACCACTAAC
TCATTTGGGTTTGATCCTTGGAATACTCTAGTGTTCCATTAAACATTACAAATATTACAATTAAC
CTGTCACACTTGCAGATACGATGTTATATTTGATTACTTAGTGT
Found at i:18216002 original size:16 final size:17
Alignment explanation
Indices: 18215965--18216014 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
18215955 CATTAATGGT
18215965 TAAAATGTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
* *
18215982 TAAAATATAAAAAGGAA
1 TAAAATGTAAAAAGAAA
18215999 -AAAATGTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
18216015 CAAGTAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
TAAAATGTAAAAAGAAA
Found at i:18216572 original size:78 final size:78
Alignment explanation
Indices: 18216475--18216631 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
18216465 CTATAAAATG
18216475 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
1 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
18216540 ACTATTATATAGA
66 ACTATTATATAGA
18216553 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
1 TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
18216618 ACTATTATATAGA
66 ACTATTATATAGA
18216631 T
1 T
18216632 CAAGAAACGG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (78 bp):
TTAAATAAAGAGTCATATTCATATATTTATACTTTATAACTATTTGAAGTTGATAATTGAATTAA
ACTATTATATAGA
Found at i:18229597 original size:24 final size:24
Alignment explanation
Indices: 18229552--18229602 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
18229542 AAGTTACAAT
*
18229552 ACAAATATTTTTAATTAAAAAGGA
1 ACAAATATTTTTAATTAAAAAGAA
* *
18229576 ACAAATAATTTTTTATT-GAAAGAA
1 ACAAAT-ATTTTTAATTAAAAAGAA
18229600 ACA
1 ACA
18229603 CTATGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (24 bp):
ACAAATATTTTTAATTAAAAAGAA
Found at i:18237149 original size:28 final size:28
Alignment explanation
Indices: 18237118--18237197 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
18237108 AATAGTACAG
18237118 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
**
18237146 TGTGGGCCTTAGCCCAATACAGTGGCAA
1 TGTGGGCCTTAGCCCAATACAGTAACAA
* *
18237174 TGTGGGCATTAGCCCATTACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
18237198 TCAGTTCAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAA
Found at i:18241612 original size:25 final size:25
Alignment explanation
Indices: 18241583--18241632 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18241573 CTTACTAAGC
18241583 ATTCATTACTTATATGGTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
18241608 ATTCATTACTTATATGGTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
18241633 CCTTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTCATTACTTATATGGTTTTCTTT
Found at i:18242912 original size:22 final size:22
Alignment explanation
Indices: 18242884--18242927 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18242874 GATAGTTTTG
*
18242884 AAATGTAAACTCTGGTAATGCT
1 AAATGTAAACTCTAGTAATGCT
*
18242906 AAATGTAAACTCTAGTAGTGCT
1 AAATGTAAACTCTAGTAATGCT
18242928 CTATAACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (22 bp):
AAATGTAAACTCTAGTAATGCT
Found at i:18243238 original size:34 final size:34
Alignment explanation
Indices: 18243195--18243261 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
18243185 ATGATTGGTA
18243195 CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
1 CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
18243229 CGATGCTATTCACCAAGATGACGTTTCTGGCGC
1 CGATGCTATTCACCAAGATGACGTTTCTGGCGC
18243262 ACTAGTGGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (34 bp):
CGATGCTATTCACCAAGATGACGTTTCTGGCGCG
Found at i:18244892 original size:20 final size:20
Alignment explanation
Indices: 18244864--18244914 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
18244854 ACTACGGTAT
*
18244864 CCCTATTTGCACATCCGTGC
1 CCCTGTTTGCACATCCGTGC
* *
18244884 CCCTGTTTGTACATCTGTGC
1 CCCTGTTTGCACATCCGTGC
*
18244904 CCTTGTTTGCA
1 CCCTGTTTGCA
18244915 TTTTGGTGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCTGTTTGCACATCCGTGC
Found at i:18249573 original size:16 final size:16
Alignment explanation
Indices: 18249552--18249621 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
18249542 TTTGGTTCGC
18249552 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18249568 TGTAATGGAATA-ACGG
1 TGTAATGGAATAGA-GG
*
18249584 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
18249600 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
18249616 CGTAAT
1 TGTAAT
18249622 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.02
16 47 0.96
17 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:18249690 original size:44 final size:46
Alignment explanation
Indices: 18249603--18249695 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
18249593 ATAGATGTGT
18249603 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
*
18249649 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
18249693 AAT
1 AAT
18249696 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:18249691 original size:39 final size:44
Alignment explanation
Indices: 18249603--18249708 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
18249593 ATAGATGTGT
18249603 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTT--ATGG
*
18249649 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
*
18249688 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
18249709 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
Found at i:18249943 original size:18 final size:17
Alignment explanation
Indices: 18249922--18249956 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18249912 TTATTATTAA
*
18249922 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18249940 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18249957 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18249968 original size:15 final size:16
Alignment explanation
Indices: 18249948--18249977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18249938 ATATATAATT
18249948 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
18249963 TAATAAATATTCTTA
1 TAATAAATATTCTTA
18249978 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:18255125 original size:25 final size:26
Alignment explanation
Indices: 18255090--18255140 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
18255080 ACACCAATAC
18255090 CGCAGCAAAGCTG-CAGTAACAGTAT
1 CGCAGCAAAGCTGCCAGTAACAGTAT
*
18255115 CGCAGCGAAGCTGCCAGTAACAGTAT
1 CGCAGCAAAGCTGCCAGTAACAGTAT
18255141 ATGTGGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAT
Found at i:18256303 original size:35 final size:35
Alignment explanation
Indices: 18256262--18256332 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
18256252 AGAGAAGGAT
*
18256262 ATTCGGCCAA-AGAAGAAGAAGAGAAGAGAAAG-AAG
1 ATTCGGCCAACAG-AGAAGAAAAG-AGAGAAAGTAAG
*
18256297 ATTCGGCCAACAGGGAAGAAAAGAGAGAAAGTAAG
1 ATTCGGCCAACAGAGAAGAAAAGAGAGAAAGTAAG
18256332 A
1 A
18256333 GAAGGGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 8 0.25
35 22 0.69
36 2 0.06
ACGTcount: A:0.52, C:0.10, G:0.31, T:0.07
Consensus pattern (35 bp):
ATTCGGCCAACAGAGAAGAAAAGAGAGAAAGTAAG
Found at i:18264788 original size:22 final size:22
Alignment explanation
Indices: 18264762--18264806 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18264752 TTCGCCGCCT
18264762 AAGATTCAACTTCTTCTGAGTG
1 AAGATTCAACTTCTTCTGAGTG
18264784 AAGATTCAACTTCTTCTGAGTG
1 AAGATTCAACTTCTTCTGAGTG
18264806 A
1 A
18264807 GGAGGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
AAGATTCAACTTCTTCTGAGTG
Found at i:18267884 original size:17 final size:18
Alignment explanation
Indices: 18267849--18267884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18267839 ATCAAAAGTC
*
18267849 TCCCTACAGTTTCCAGTT
1 TCCCTACAGTCTCCAGTT
18267867 TCCCTACAGTCT-CAGTT
1 TCCCTACAGTCTCCAGTT
18267884 T
1 T
18267885 ACTCTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.39
Consensus pattern (18 bp):
TCCCTACAGTCTCCAGTT
Found at i:18268904 original size:26 final size:26
Alignment explanation
Indices: 18268853--18268905 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
18268843 CCAACACACC
* *
18268853 AATATCGCAGCAAAGCTGCTAGTAAT
1 AATATCGCAGCAAAGCTGCCAATAAT
*
18268879 AATATCGCAGCGAAGCTGCCAATAAT
1 AATATCGCAGCAAAGCTGCCAATAAT
18268905 A
1 A
18268906 GTATATGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGCCAATAAT
Found at i:18270058 original size:17 final size:17
Alignment explanation
Indices: 18270036--18270069 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18270026 GAAATAATAA
18270036 GAGGAGTTTGAATCGTC
1 GAGGAGTTTGAATCGTC
18270053 GAGGAGTTTGAATCGTC
1 GAGGAGTTTGAATCGTC
18270070 AGAGAAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (17 bp):
GAGGAGTTTGAATCGTC
Found at i:18270130 original size:106 final size:106
Alignment explanation
Indices: 18269940--18270145 Score: 394
Period size: 106 Copynumber: 1.9 Consensus size: 106
18269930 ATACTCTTTA
18269940 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
1 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
*
18270005 TGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
66 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
*
18270046 AATCGTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
1 AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
18270111 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGG
66 AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGG
18270146 TAGAAATTAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (106 bp):
AATCCTCGAGGAGTTTGAATCGTCAGAGAAGAGTGATATACAACTGAGCCACAGACAATAAAGAG
AGATAGCTCTCGATCAAAAAGGAAATAATAAGAGGAGTTTG
Found at i:18274426 original size:20 final size:20
Alignment explanation
Indices: 18274383--18274426 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
18274373 ACTTTGATAT
*
18274383 CCCTGTTTGCACATCTGTGA
1 CCCTGTTTGCACATCGGTGA
* *
18274403 CCCTGTTTGCACTTCGGTGC
1 CCCTGTTTGCACATCGGTGA
18274423 CCCT
1 CCCT
18274427 AACTTCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.36, G:0.20, T:0.34
Consensus pattern (20 bp):
CCCTGTTTGCACATCGGTGA
Found at i:18276796 original size:25 final size:26
Alignment explanation
Indices: 18276754--18276804 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
18276744 AGTTGTAAAT
18276754 AAGAAAAATATCTCTAGA-AATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
* * *
18276779 AAGAATAATCTCTTTAGATAATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
18276805 TCTCTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (26 bp):
AAGAAAAATATCTCTAGATAATTTTC
Found at i:18276933 original size:16 final size:16
Alignment explanation
Indices: 18276912--18276966 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
18276902 TAATCACTAC
18276912 AATATTATATTAATCT
1 AATATTATATTAATCT
* * *
18276928 AATATTTATCTTGA-CA
1 AATA-TTATATTAATCT
*
18276944 AATATTATATTAATTT
1 AATATTATATTAATCT
18276960 AATATTA
1 AATATTA
18276967 AATCTTATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATTATATTAATCT
Found at i:18276974 original size:23 final size:23
Alignment explanation
Indices: 18276943--18277013 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 23
18276933 TTATCTTGAC
*
18276943 AAATATTATATTAATTTAATATT
1 AAATCTTATATTAATTTAATATT
**
18276966 AAATC-T-TATTAAAATAATATAAT
1 AAATCTTATATTAATTTAATAT--T
*
18276989 AAA-CTTAAATTAAATTTAATATT
1 AAATCTTATATT-AATTTAATATT
18277012 AA
1 AA
18277014 GATAATGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 12 0.32
22 2 0.05
23 12 0.32
24 3 0.08
25 8 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATCTTATATTAATTTAATATT
Found at i:18279299 original size:19 final size:19
Alignment explanation
Indices: 18279275--18279312 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18279265 AGTGTTATGA
18279275 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
18279294 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
18279313 TCCATCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
ATATGTTATTAAGTGGATG
Found at i:18289265 original size:31 final size:31
Alignment explanation
Indices: 18289227--18289297 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
18289217 ATTAAAATTT
18289227 AAAACCCAAATTAAGGGCCTTATTACAAAAC
1 AAAACCCAAATTAAGGGCCTTATTACAAAAC
18289258 AAAACCCAAATTAAGGGCCTTATTACAAAAC
1 AAAACCCAAATTAAGGGCCTTATTACAAAAC
18289289 AAAACCCAA
1 AAAACCCAA
18289298 CTTATAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.24, G:0.08, T:0.17
Consensus pattern (31 bp):
AAAACCCAAATTAAGGGCCTTATTACAAAAC
Found at i:18292010 original size:27 final size:27
Alignment explanation
Indices: 18291945--18292238 Score: 297
Period size: 27 Copynumber: 10.9 Consensus size: 27
18291935 ATCTAAACCA
* *
18291945 AAATACCCTCATAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACT-G
****
18291972 AAATTTTGCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
18291999 AAATACCCCCATATGGTAAAATGA-TAG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * **
18292026 AAATACCCTCATAAGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
* *
18292053 AAATACCCCTATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
18292080 AAATACCCCCAAAAGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * *
18292107 AAATACCTCCATAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
18292134 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
18292161 AAATACCCTCACAGGGTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACTG
** *
18292188 AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
*
18292215 AAATACCCCTATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
18292239 TTGTTATACC
Statistics
Matches: 224, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 221 0.99
28 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:18292044 original size:54 final size:54
Alignment explanation
Indices: 18291945--18292239 Score: 344
Period size: 54 Copynumber: 5.5 Consensus size: 54
18291935 ATCTAAACCA
* *** *
18291945 AAATACCCTCATAGGGTAAAATGATCA-AAATTTTGC-CATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAT-AGAAA-TACCCTCATAGGGTAAAATGACCG
* * *
18291999 AAATACCCCCATATGGTAAAATGATAGAAATACCCTCATAAGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * * * * *
18292053 AAATACCCCTATAGGGTAAAATGATTGAAATACCCCCAAAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * **
18292107 AAATACCTCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
* * *
18292161 AAATACCCTCACAGGGTAAAATGACTA-AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGA-TAGAAATACCCTCATAGGGTAAAATGACCG
*
18292215 AAATACCCCTATAGGGTAAAATGAT
1 AAATACCCCCATAGGGTAAAATGAT
18292240 TGTTATACCC
Statistics
Matches: 204, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.02
54 200 0.98
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGATAGAAATACCCTCATAGGGTAAAATGACCG
Found at i:18292082 original size:81 final size:81
Alignment explanation
Indices: 18291945--18292238 Score: 371
Period size: 81 Copynumber: 3.6 Consensus size: 81
18291935 ATCTAAACCA
* * ***
18291945 AAATACCCTCATAGGGTAAAATGATCAAAATTTTGCC-ATAGGGTAAAATGACTGAAATACCCCC
1 AAATACCCTCATAAGGTAAAATGACCAAAA-TACCCCTATAGGGTAAAATGACTGAAATACCCCC
* *
18292009 ATATGGTAAAATGATAG
65 AAAAGGTAAAATGATAG
*
18292026 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGATTGAAATACCCCCA
1 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCA
*
18292091 AAAGGTAAAATGATCG
66 AAAGGTAAAATGATAG
* * *
18292107 AAATA-CCTCCATAAGGTAAAATGACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCT
1 AAATACCCT-CATAAGGTAAAATGACCAAAATACCCCT-ATAGGGTAAAATGACTGAAATACCCC
* *
18292170 CACAGGGTAAAATGACTA-
64 CAAAAGGTAAAATGA-TAG
* * *
18292188 AAATACCCTTATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGA
1 AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGA
18292239 TTGTTATACC
Statistics
Matches: 189, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
80 10 0.05
81 171 0.90
82 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (81 bp):
AAATACCCTCATAAGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCA
AAAGGTAAAATGATAG
Found at i:18292513 original size:26 final size:26
Alignment explanation
Indices: 18292478--18292552 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
18292468 ACATATATTG
*
18292478 TTACTCGCAGCTTTGCTGCGATACTGA
1 TTACTGGCAGCTTTGCTGCGATACT-A
* * *
18292505 -TACTGGCAGCTCTACTGC-AGTGCTA
1 TTACTGGCAGCTTTGCTGCGA-TACTA
*
18292530 TTATTGGCAGCTTTGCTGCGATA
1 TTACTGGCAGCTTTGCTGCGATA
18292553 TTGGTGTGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATACTA
Found at i:18292705 original size:28 final size:28
Alignment explanation
Indices: 18292654--18292829 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
18292644 TATTGCACTG
* *
18292654 CACT-ATTACTGTATTAGGCCAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
*
18292682 CACTGATTCTGTGTTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
* *
18292710 CACTGATTCTGTATTAGGCTGAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
18292738 CACTGATTCTGTATTGGGTTAA-GCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
18292765 CACTGATTATGTATTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
*
18292793 GACT-ATTACTGTATTGGGCTAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
18292821 CACTG-TTCT
1 CACTGATTCT
18292830 ATCACTGAGT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
27 30 0.23
28 97 0.75
29 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (28 bp):
CACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:18292818 original size:83 final size:82
Alignment explanation
Indices: 18292677--18292829 Score: 236
Period size: 83 Copynumber: 1.9 Consensus size: 82
18292667 TTAGGCCAAG
* * *
18292677 GCCCACACTGATTCTGTGTTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTGAGGCCCACACT
1 GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTAAGGCCCACACT
18292742 GATTCTGTATTGGGTTAA
66 G-TTCTGTATTGGGTTAA
* *
18292760 GCCCACACTGATTATGTATTGGGCTAAGGCCCAGACT-ATTACTGTATTGGGCTAAGGCCCACAC
1 GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATT-CTGTATTAGGCTAAGGCCCACAC
18292824 TGTTCT
65 TGTTCT
18292830 ATCACTGAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 7 0.11
83 57 0.89
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (82 bp):
GCCCACACTGATTATGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGGCTAAGGCCCACACT
GTTCTGTATTGGGTTAA
Found at i:18294028 original size:16 final size:16
Alignment explanation
Indices: 18294007--18294037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18293997 TTATGCATGC
*
18294007 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
18294023 AAAATACAAAAGACA
1 AAAATACAAAAGACA
18294038 TAATAGTAAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:18294395 original size:28 final size:28
Alignment explanation
Indices: 18294364--18294446 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
18294354 ATGAAAGGGC
* * *
18294364 GCCTTTGTGGATATCTTTGGATAAGGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
* *
18294392 GCCTTTGTGGCTATTTTTGGAAAATGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
18294420 GCCTTTGTGGCTATATTT-GAAAAGGAA
1 GCCTTTGTGGCTATATTTGGAAAAGGAA
18294447 TGGCTTCGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 8 0.16
28 41 0.84
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (28 bp):
GCCTTTGTGGCTATATTTGGAAAAGGAA
Found at i:18294457 original size:28 final size:28
Alignment explanation
Indices: 18294364--18294458 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
18294354 ATGAAAGGGC
* * * *
18294364 GCCTTTGTGGATATCTTTGGATAAGGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
* * *
18294392 GCCTTTGTGGCTATTTTTGGAAAATGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
*
18294420 GCCTTTGTGGCTATATTT-GAAAAGGAA
1 GCCTTCGTGGCTATATTTGGAAAAGGAA
*
18294447 TGGCTTCGTGGC
1 -GCCTTCGTGGC
18294459 ACCATCTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.14
28 50 0.86
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (28 bp):
GCCTTCGTGGCTATATTTGGAAAAGGAA
Found at i:18297462 original size:29 final size:29
Alignment explanation
Indices: 18297430--18297571 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
18297420 GGCTATCGAT
18297430 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
**
18297459 TATGAAAAGGGATGGTGGGGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
18297488 TATGAAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
** *
18297517 TAATGAAAAGGGATGGTTTCGACTATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATC-AAC
* * *
18297547 TATAAAAAGGGACGGTTACGACCAT
1 TATGAAAAGGGATGGTGACGACCAT
18297572 TATTTAGTAC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
29 73 0.75
30 23 0.24
31 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:18297555 original size:59 final size:58
Alignment explanation
Indices: 18297422--18297571 Score: 185
Period size: 59 Copynumber: 2.6 Consensus size: 58
18297412 ATAGCTTTGG
* *
18297422 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGGGA
1 CTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGCGA
* * * **
18297480 CCATC-AACTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGA
1 CTATCGAA-TATGAAAAGGGATGGTGACGACCATCAACT-ATGAAAAGGGATGGTGGCGA
* * *
18297539 CTATCGAATATAAAAAGGGACGGTTACGACCAT
1 CTATCGAATATGAAAAGGGATGGTGACGACCAT
18297572 TATTTAGTAC
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 32 0.41
59 43 0.55
60 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (58 bp):
CTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGGCGA
Found at i:18301745 original size:18 final size:18
Alignment explanation
Indices: 18301710--18301745 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18301700 ACACGGGTGT
*
18301710 AGGAAGAAGAAGATGAAA
1 AGGAAGAAGAAGAAGAAA
*
18301728 AGGAAGAAGATGAAGAAA
1 AGGAAGAAGAAGAAGAAA
18301746 GAAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (18 bp):
AGGAAGAAGAAGAAGAAA
Found at i:18310642 original size:3 final size:3
Alignment explanation
Indices: 18310634--18310688 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
18310624 GGTTGAAGCT
18310634 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18310682 TAA TAA T
1 TAA TAA T
18310689 TATTATTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18310693 original size:3 final size:3
Alignment explanation
Indices: 18310687--18310714 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18310677 AATAATAATA
18310687 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18310715 AGCTTCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18318147 original size:34 final size:34
Alignment explanation
Indices: 18318095--18318162 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18318085 ACATTTTTAA
* *
18318095 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
18318128 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
18318163 TTAACTATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:18321934 original size:26 final size:26
Alignment explanation
Indices: 18321880--18321934 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
18321870 ATTTTTTATT
* ** **
18321880 AATTTGATCTTTATTTTTTAAAATTA
1 AATTTGACCTTTAACTTTTAAAAGAA
18321906 AATTTGACCTTTAACTTTTAAAAGAA
1 AATTTGACCTTTAACTTTTAAAAGAA
18321932 AAT
1 AAT
18321935 GTTAAACTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (26 bp):
AATTTGACCTTTAACTTTTAAAAGAA
Found at i:18322867 original size:196 final size:195
Alignment explanation
Indices: 18322534--18322925 Score: 739
Period size: 196 Copynumber: 2.0 Consensus size: 195
18322524 ATGTATTTGT
**
18322534 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCGGGTTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
18322599 AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
66 AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
18322664 ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
131 ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
18322729 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTGTAGTGTTTAATTCAAGTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTT-TAGTGTTTAATTCAAGTTT
*
18322794 TAGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGA
65 TAGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAA
*
18322859 AATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
130 AATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATA
18322924 A
195 A
18322925 A
1 A
18322926 TACTAAATTT
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
195 45 0.23
196 147 0.77
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (195 bp):
AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCAAA
ATTAAATCACATCCATCAGACTATAACTGACAAGCTAAACACAAAATTAAACAAATTCACAATAA
Found at i:18325049 original size:128 final size:129
Alignment explanation
Indices: 18324894--18325153 Score: 513
Period size: 128 Copynumber: 2.0 Consensus size: 129
18324884 TTGATTTATT
18324894 AAAATAATAATTTTGGTCTACAAAATTCGAGAAAACGGGCTCAGGAGTCGGTTACGCACGAGGAA
1 AAAATAATAATTTTGGTCTACAAAATTCGAGAAAACGGGCTCAGGAGTCGGTTACGCACGAGGAA
18324959 GGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAATTGATTAATTAACATCCTAATATCG
66 GGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAATTGATTAATTAACATCCTAATATCG
18325023 AAAATAATAA-TTTGGTCTACAAAATTCGAGAAAACGGGCTCAGGAGTCGGTTACGCACGAGGAA
1 AAAATAATAATTTTGGTCTACAAAATTCGAGAAAACGGGCTCAGGAGTCGGTTACGCACGAGGAA
18325087 GGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAATTGATTAATTAACATCCTAATATCG
66 GGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAATTGATTAATTAACATCCTAATATCG
18325151 AAA
1 AAA
18325154 TTTTGAAAAG
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 121 0.92
129 10 0.08
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (129 bp):
AAAATAATAATTTTGGTCTACAAAATTCGAGAAAACGGGCTCAGGAGTCGGTTACGCACGAGGAA
GGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAATTGATTAATTAACATCCTAATATCG
Found at i:18327536 original size:43 final size:43
Alignment explanation
Indices: 18327488--18327623 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
18327478 TTATTTTTAT
*
18327488 AAACGCCGCTAAA-AGTCATGACCTTTAACGGCGCTTCTACCAC
1 AAACGCCGCTAAAGA-ACATGACCTTTAACGGCGCTTCTACCAC
* * *
18327531 AAACGCCGCGAAAGAACATGACCTTTAGCGGCGATTCTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
* * ** *
18327574 AAACGCCCCTAAAGAACATGATCTTTAACGATGCTTATACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
18327617 AAACGCC
1 AAACGCC
18327624 ACTATAAGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 79 0.99
44 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTACCAC
Found at i:18333402 original size:14 final size:14
Alignment explanation
Indices: 18333383--18333566 Score: 117
Period size: 14 Copynumber: 12.9 Consensus size: 14
18333373 CTAGTTAATC
18333383 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
18333397 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
18333410 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
*
18333426 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* *
18333439 AATAACCTCTAAACCT
1 TA-AACC-CTAAACCA
* *
18333455 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
*
18333469 TAAACCATAAACCA
1 TAAACCCTAAACCA
* *
18333483 TAAACCATAACCCA
1 TAAACCCTAAACCA
*
18333497 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
18333512 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
18333524 TGGTAACACCTAAACCT
1 T--AAAC-CCTAAACCA
*
18333541 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
18333555 TATACCCTAAAC
1 TAAACCCTAAAC
18333567 TATAGTGATA
Statistics
Matches: 132, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
12 2 0.02
13 16 0.12
14 63 0.48
15 42 0.32
16 8 0.06
17 1 0.01
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:18333417 original size:8 final size:7
Alignment explanation
Indices: 18333382--18333522 Score: 65
Period size: 7 Copynumber: 19.7 Consensus size: 7
18333372 ACTAGTTAAT
18333382 CTAAACC
1 CTAAACC
18333389 CTAAACC
1 CTAAACC
*
18333396 ATAAA-C
1 CTAAACC
18333402 CTAAACC
1 CTAAACC
18333409 CTAAAACC
1 CT-AAACC
18333417 CTAAAACC
1 CT-AAACC
*
18333425 ATAAACC
1 CTAAACC
*
18333432 CTTAA-C
1 CTAAACC
**
18333438 AAATAACC
1 CTA-AACC
18333446 TCTAAACC
1 -CTAAACC
*
18333454 TTAAACC
1 CTAAACC
*
18333461 C-CAACC
1 CTAAACC
*
18333467 TTTAAACC
1 -CTAAACC
*
18333475 ATAAACC
1 CTAAACC
*
18333482 ATAAACC
1 CTAAACC
*
18333489 AT-AACC
1 CTAAACC
18333495 CATAAACC
1 C-TAAACC
*
18333503 CATAATCC
1 C-TAAACC
*
18333511 ATAAACC
1 CTAAACC
*
18333518 TTAAA
1 CTAAA
18333523 ATGGTAACAC
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
6 14 0.13
7 55 0.53
8 34 0.33
9 1 0.01
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:18333505 original size:22 final size:21
Alignment explanation
Indices: 18333473--18333514 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
18333463 AACCTTTAAA
18333473 CCATAAACCATAAACCATAAC
1 CCATAAACCATAAACCATAAC
*
18333494 CCATAAACCCATAATCCATAA
1 CCATAAA-CCATAAACCATAA
18333515 ACCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAC
Found at i:18333566 original size:86 final size:86
Alignment explanation
Indices: 18333383--18333566 Score: 193
Period size: 86 Copynumber: 2.1 Consensus size: 86
18333373 CTAGTTAATC
18333383 TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
1 TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
* *
18333448 TAAACCTTAAACCCCAACCTT
66 TAAACCTTAAACCCAAACCTA
* * *
18333469 TAAACCATAAACCATAAACC-ATAACCC-ATAAACCC-ATAATCCATAAA-CCTTAA-AATGGTA
1 TAAACCCTAAACCATAAACCTA-AACCCTA-AAACCCTA-AAACCATAAACCCTTAACAA--ATA
*
18333529 ACAC-CTAAACCTTAAACTCTAAACC-A
61 AC-CTCTAAACCTTAAAC-CCAAACCTA
*
18333555 TATACCCTAAAC
1 TAAACCCTAAAC
18333567 TATAGTGATA
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
84 2 0.02
85 9 0.11
86 66 0.80
87 6 0.07
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (86 bp):
TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
TAAACCTTAAACCCAAACCTA
Found at i:18333973 original size:114 final size:113
Alignment explanation
Indices: 18333758--18334104 Score: 498
Period size: 114 Copynumber: 3.0 Consensus size: 113
18333748 CTGAGTATTA
* * * * *
18333758 GCGGCGCTTTTCCCAAAAACGTCGCTAAAGCCCTAAGCATTAGCCGCACTTTCTTAAAAACGCCA
1 GCGGCGC-TTTCCCAAAAACGACGCTAAAG-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
* *
18333823 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTATGTTTTTTT
64 CTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
18333873 GCGGCGCTTTCCCAAAAACGACGCTAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGACGCTAAAGCC-TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* *
18333938 TAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTT
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
* * * * *
18333987 GCGGCGCCTCCCCAAAAACGCCGCTAAAGACCTGAGCATTACCGGCGCTTTCTTAAAAACGCTGC
1 GCGGCGCTTTCCCAAAAACGACGCTAAAG-CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
18334052 TAAATCCCTGAGAGCTCAGAAAACGACGTCGTTGGGCTTAAG-TTTTTT
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
18334100 GCGGC
1 GCGGC
18334105 TATTTTCAGC
Statistics
Matches: 212, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
113 13 0.06
114 190 0.90
115 9 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCCCAAAAACGACGCTAAAGCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
AAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
Found at i:18335614 original size:2 final size:2
Alignment explanation
Indices: 18335607--18335635 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18335597 TTCTTGTGAT
18335607 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18335636 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18337368 original size:17 final size:17
Alignment explanation
Indices: 18337329--18337360 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18337319 AGAAGTTGGG
18337329 ATAATTATACATTTAAA
1 ATAATTATACATTTAAA
18337346 ATAATTATA-ATTTAA
1 ATAATTATACATTTAA
18337361 TAGAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATTATACATTTAAA
Found at i:18337375 original size:43 final size:45
Alignment explanation
Indices: 18337318--18337407 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 45
18337308 TTAAGTAAAC
*
18337318 TAGAAGTTGGGATAATTA-TACA-TTT-AAAATAATTATAATTTAA
1 TAGAAATTGGGATAATTATTACACTTTAAAAAT-ATTATAATTTAA
*
18337361 TAGAAATTGTGATAATTATTACACTTTTAAAAATATTATAATTTAA
1 TAGAAATTGGGATAATTATTACAC-TTTAAAAATATTATAATTTAA
18337407 T
1 T
18337408 TTACAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
43 16 0.39
44 4 0.10
46 16 0.39
47 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (45 bp):
TAGAAATTGGGATAATTATTACACTTTAAAAATATTATAATTTAA
Found at i:18337401 original size:46 final size:43
Alignment explanation
Indices: 18337318--18337407 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 43
18337308 TTAAGTAAAC
*
18337318 TAGAAGTTGGGATAATTATACATTTAAAATAATTATAATTTAA
1 TAGAAATTGGGATAATTATACATTTAAAATAATTATAATTTAA
*
18337361 TAGAAATTGTGATAATTATTACACTTTTAAAA-ATATTATAATTTAA
1 TAGAAATTGGGATAATTA-TACA--TTTAAAATA-ATTATAATTTAA
18337407 T
1 T
18337408 TTACAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
43 16 0.39
44 4 0.10
45 1 0.02
46 20 0.49
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (43 bp):
TAGAAATTGGGATAATTATACATTTAAAATAATTATAATTTAA
Found at i:18339374 original size:42 final size:42
Alignment explanation
Indices: 18339305--18339385 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
18339295 ATTCGGATGC
* * *
18339305 CACAGGGCCTGGATACATGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGGCCTGGATACACGCCCATGTCCTTGCCCATGTGGCT
*
18339347 CACACGGCCTAGG-TACACGCCTATGTCCTTGCCCATGTG
1 CACACGGCCT-GGATACACGCCCATGTCCTTGCCCATGTG
18339386 ATTTTAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.16, C:0.35, G:0.26, T:0.23
Consensus pattern (42 bp):
CACACGGCCTGGATACACGCCCATGTCCTTGCCCATGTGGCT
Found at i:18339524 original size:36 final size:36
Alignment explanation
Indices: 18339457--18339525 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
18339447 GGCTCACACG
*
18339457 GCCTGGGCACACGCCCATATCCCTTGTCGTGTGAAC
1 GCCTGGGCACACGCCCATATCCCTTGCCGTGTGAAC
* *
18339493 GCCTGGGCATACGCCCATGT-CCTTGGCCGTGTG
1 GCCTGGGCACACGCCCATATCCCTT-GCCGTGTG
18339526 GTCCTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.13, C:0.35, G:0.29, T:0.23
Consensus pattern (36 bp):
GCCTGGGCACACGCCCATATCCCTTGCCGTGTGAAC
Found at i:18346355 original size:62 final size:62
Alignment explanation
Indices: 18346280--18346402 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
18346270 GACCGTGCAA
* *
18346280 TCCTAAATCATAAACAGTAAGTTACACT-GCTTAGACATACGCCCAAGTCCTTGACCGTGTGG
1 TCCTAAATCATAAACAGTAAGTTACA-TGGCTTAGACACACGCCCAAGTCCTTAACCGTGTGG
** * * * *
18346342 TCCTAAATCATAAATTGTGAGTTACATGGCTTGGACACATGCCCATGTCCTTAACCGTGTG
1 TCCTAAATCATAAACAGTAAGTTACATGGCTTAGACACACGCCCAAGTCCTTAACCGTGTG
18346403 AACCCTGTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 1 0.02
62 51 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (62 bp):
TCCTAAATCATAAACAGTAAGTTACATGGCTTAGACACACGCCCAAGTCCTTAACCGTGTGG
Found at i:18347025 original size:10 final size:10
Alignment explanation
Indices: 18347010--18347038 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
18347000 GATAAATATA
18347010 AAAAGAAAAT
1 AAAAGAAAAT
18347020 AAAAGAAAAT
1 AAAAGAAAAT
18347030 AAAAGAAAA
1 AAAAGAAAA
18347039 AGGAAAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (10 bp):
AAAAGAAAAT
Found at i:18352604 original size:143 final size:144
Alignment explanation
Indices: 18352336--18352622 Score: 567
Period size: 143 Copynumber: 2.0 Consensus size: 144
18352326 TCTATTTTTA
18352336 CTGATATGGTTGAGAAAAATTTGGAAGTTTTTATGGACGATTTTTCAGTATTCAGAGATACTTAC
1 CTGATATGGTTGAGAAAAATTTGGAAGTTTTTATGGACGATTTTTCAGTATTCAGAGATACTTAC
18352401 GATGATTGCTTAGCCAATCTGAATAAGGTACTAAGGCGATGCGAAGAAACGAATCTCGTACTCAA
66 GATGATTGCTTAGCCAATCTGAATAAGGTACTAAGGCGATGCGAAGAAACGAATCTCGTACTCAA
18352466 CTGGGAAAAGTGCC
131 CTGGGAAAAGTGCC
18352480 CTGATATGG-TGAGAAAAATTTGGAAGTTTTTATGGACGATTTTTCAGTATTCAGAGATACTTAC
1 CTGATATGGTTGAGAAAAATTTGGAAGTTTTTATGGACGATTTTTCAGTATTCAGAGATACTTAC
18352544 GATGATTGCTTAGCCAATCTGAATAAGGTACTAAGGCGATGCGAAGAAACGAATCTCGTACTCAA
66 GATGATTGCTTAGCCAATCTGAATAAGGTACTAAGGCGATGCGAAGAAACGAATCTCGTACTCAA
18352609 CTGGGAAAAGTGCC
131 CTGGGAAAAGTGCC
18352623 ATTTTATGGT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 134 0.94
144 9 0.06
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (144 bp):
CTGATATGGTTGAGAAAAATTTGGAAGTTTTTATGGACGATTTTTCAGTATTCAGAGATACTTAC
GATGATTGCTTAGCCAATCTGAATAAGGTACTAAGGCGATGCGAAGAAACGAATCTCGTACTCAA
CTGGGAAAAGTGCC
Found at i:18358761 original size:27 final size:27
Alignment explanation
Indices: 18358722--18358807 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
18358712 GCATCACTTT
* *
18358722 CATTTCATGGATTGCCACAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
**
18358749 CATTTCATAGATTGTTATAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
* *
18358776 CTTTTCATAGATTTCCATAAAGGCTTC
1 CATTTCATAGATTGCCATAAAGGCTTC
18358803 CATTT
1 CATTT
18358808 TCTAGTGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (27 bp):
CATTTCATAGATTGCCATAAAGGCTTC
Found at i:18361817 original size:8 final size:8
Alignment explanation
Indices: 18361800--18361835 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
18361790 AATAGGATTG
*
18361800 AATTGTAA
1 AATTTTAA
*
18361808 AATTTCAA
1 AATTTTAA
18361816 AATTTTAA
1 AATTTTAA
18361824 AATTTTAA
1 AATTTTAA
18361832 AATT
1 AATT
18361836 GGTATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (8 bp):
AATTTTAA
Found at i:18362391 original size:16 final size:16
Alignment explanation
Indices: 18362370--18362401 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18362360 CATTTATAAC
18362370 ACCTTATAATAATGAT
1 ACCTTATAATAATGAT
18362386 ACCTTATAATAATGAT
1 ACCTTATAATAATGAT
18362402 TCAATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ACCTTATAATAATGAT
Found at i:18365005 original size:5 final size:5
Alignment explanation
Indices: 18364995--18365042 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
18364985 TTGAAGTTTT
* *
18364995 ATCGA ATCGA ATCGA GT-GA GATAGA ATTCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA -ATCGA A-TCGA ATCGA ATCGA ATCGA AT
18365043 ATATTTGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.05
5 29 0.78
6 6 0.16
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:18377002 original size:40 final size:40
Alignment explanation
Indices: 18376958--18377242 Score: 256
Period size: 40 Copynumber: 7.2 Consensus size: 40
18376948 ACTTGTTGTT
* **
18376958 TGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
*
18376998 TGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* * * *
18377038 TGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* **
18377078 TGAATGCACATTCATGCCACTAT-TTT-TACTTCAATACCCC
1 TGAATGCACATTCGTGCC-CT-TGTTTGTACTTCGGTACCCC
* * * * *
18377118 TAAATGTACGTTCGTGCCCTTGTTTATACTTCGGTACCCT
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
* ** *
18377158 TGAATGCACATAT-GTGCTTCTT-TTTGTACTTCCATACCCT
1 TGAATGCACAT-TCGTGC-CCTTGTTTGTACTTCGGTACCCC
* * * * * **
18377198 TAAATGCACATACATGCCC-TGTTTATACTTTGGTAAACC
1 TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
18377237 TGAATG
1 TGAATG
18377243 AAATAGTATA
Statistics
Matches: 200, Mismatches: 37, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.01
39 22 0.11
40 167 0.83
41 8 0.04
42 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (40 bp):
TGAATGCACATTCGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:18377019 original size:20 final size:20
Alignment explanation
Indices: 18376958--18377059 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 20
18376948 ACTTGTTGTT
*
18376958 TGAATGCACATTCGTGCCCT
1 TGAATGCACATTCGTGCCCC
* * * * *
18376978 TG-TTCGTACTTTAGTACCCC
1 TGAAT-GCACATTCGTGCCCC
18376998 TGAATGCACATTCGTGCCCC
1 TGAATGCACATTCGTGCCCC
** * *
18377018 TGTTTGTAC-TTCGGTACCCC
1 TGAATGCACATTC-GTGCCCC
*
18377038 TGAATGCACATTCATGCCCC
1 TGAATGCACATTCGTGCCCC
18377058 TG
1 TG
18377060 TTTTTACTTC
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
19 4 0.07
20 50 0.86
21 4 0.07
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.32
Consensus pattern (20 bp):
TGAATGCACATTCGTGCCCC
Found at i:18377108 original size:80 final size:80
Alignment explanation
Indices: 18376958--18377232 Score: 284
Period size: 80 Copynumber: 3.5 Consensus size: 80
18376948 ACTTGTTGTT
** ** * * * *
18376958 TGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCCTGAATGCACATTCGTGCCCCTGTTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
**
18377023 GTACTTCGGTACCCC
66 GTACTTCAATACCCC
* * *
18377038 TGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
*
18377103 TTACTTCAATACCCC
66 GTACTTCAATACCCC
* * * * ** *
18377118 TAAATGTACGTTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATAT-GTGCTTCTTTT
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACAT-TCATGCCACTATT
* *
18377182 TGTACTTCCATACCCT
65 TGTACTTCAATACCCC
* * * *
18377198 TAAATGCACATACATGCCC-TGTTTATACTTTGGTA
1 TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTA
18377233 AACCTGAATG
Statistics
Matches: 163, Mismatches: 31, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
79 15 0.09
80 147 0.90
81 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (80 bp):
TGAATGCACATTCGTGCCCTTGTTTATACTTCGGTACCCTTGAATGCACATTCATGCCACTATTT
GTACTTCAATACCCC
Found at i:18377188 original size:120 final size:120
Alignment explanation
Indices: 18376957--18377217 Score: 305
Period size: 120 Copynumber: 2.2 Consensus size: 120
18376947 TACTTGTTGT
* * * *
18376957 TTGAATGCACATTCGTGCCCTTGTTCGTACTTTAGTACCCCTGAATGCACATTCGTGCCCCTGTT
1 TTGAATGCACATTCATGCCCTTGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTGTT
* **
18377022 TGTACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCGGTACCC
66 TATACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCCATACCC
* * * *
18377077 TTGAATGCACATTCATGCCACTAT-TT-TTACTTCAATACCCCTAAATGTACGTTCGTGCCCTTG
1 TTGAATGCACATTCATGCC-CT-TGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTG
* * **
18377140 TTTATACTTCGGTACCCTTGAATGCACATAT-GTGCTTCT-TTTTGTACTTCCATACCC
64 TTTATACTTCGGTACCCCTGAATGCACAT-TCATGCCCCTGTTTT-TACTTCCATACCC
* *
18377197 TTAAATGCACATACATGCCCT
1 TTGAATGCACATTCATGCCCT
18377218 GTTTATACTT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
119 6 0.05
120 108 0.90
121 5 0.04
122 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (120 bp):
TTGAATGCACATTCATGCCCTTGTTCGTACTTCAATACCCCTAAATGCACATTCGTGCCCCTGTT
TATACTTCGGTACCCCTGAATGCACATTCATGCCCCTGTTTTTACTTCCATACCC
Found at i:18387638 original size:40 final size:40
Alignment explanation
Indices: 18387505--18387871 Score: 380
Period size: 40 Copynumber: 9.2 Consensus size: 40
18387495 ATACTTGTTG
* * *
18387505 CCTGAATGCACATCCGTGCCCCTGTTTGTAC-TTAGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * *
18387544 CCTAAATGCACATTCGTGCCCCTATTTGTAGTTCGGTAGCC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTA-CC
* * *
18387585 CCTGAATGCACATTCGTGCCTCTGTTTTTACTTTGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * *
18387625 CCTGAATGCACATTCGTGCCCCTATTTATAGTTCGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* *
18387665 CTCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACC
1 C-CTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* *
18387706 CCTAAATGCACATTCGTGCCACTATTTGTACTTTGGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * * * *
18387746 CTTGAATGCACATTTGTGCCTCTTTTTGTACTTTAGTACC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
* * * * * *
18387786 CTTAAATGCACATAT-GCGCTCCTATTTGTACTTCGATACC
1 CCTGAATGCACAT-TCGTGCCCCTATTTGTACTTTGGTACC
* * * * * *
18387826 CTTGAACGCACATACGTG-CCCTGTTTATACTTTGGTAAC
1 CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
*
18387865 CTTGAAT
1 CCTGAAT
18387872 CAAATATTAT
Statistics
Matches: 274, Mismatches: 49, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
39 48 0.18
40 154 0.56
41 72 0.26
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (40 bp):
CCTGAATGCACATTCGTGCCCCTATTTGTACTTTGGTACC
Found at i:18387650 original size:81 final size:80
Alignment explanation
Indices: 18387505--18387862 Score: 452
Period size: 81 Copynumber: 4.5 Consensus size: 80
18387495 ATACTTGTTG
* *
18387505 CCTGAATGCACATCCGTGCCCCTGTTTGTAC-TTAGTACCCCTAAATGCACATTCGTGCCCCTAT
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
*
18387569 TTGTAGTTCGGTAGCC
66 TTGTACTTCGGTA-CC
* * *
18387585 CCTGAATGCACATTCGTGCCTCTGTTTTTACTTTGGTACCCCTGAATGCACATTCGTGCCCCTAT
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
* *
18387650 TTATAGTTCGGTACC
66 TTGTACTTCGGTACC
* *
18387665 CTCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATTCGTGCCACTA
1 C-CTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTA
*
18387730 TTTGTACTTTGGTACC
65 TTTGTACTTCGGTACC
* * * * * * * *
18387746 CTTGAATGCACATTTGTGCCTCTTTTTGTACTTTAGTACCCTTAAATGCACATAT-GCGCTCCTA
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACAT-TCGTGCCCCTA
*
18387810 TTTGTACTTCGATACC
65 TTTGTACTTCGGTACC
* * * *
18387826 CTTGAACGCACATACGTG-CCCTGTTTATACTTTGGTA
1 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTA
18387863 ACCTTGAATC
Statistics
Matches: 242, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
79 15 0.06
80 111 0.46
81 116 0.48
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (80 bp):
CCTGAATGCACATTCGTGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACATTCGTGCCCCTAT
TTGTACTTCGGTACC
Found at i:18388663 original size:11 final size:11
Alignment explanation
Indices: 18388647--18388671 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18388637 GACATGATAG
18388647 AAATACAGTAT
1 AAATACAGTAT
18388658 AAATACAGTAT
1 AAATACAGTAT
18388669 AAA
1 AAA
18388672 AATTTCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATACAGTAT
Found at i:18389793 original size:25 final size:25
Alignment explanation
Indices: 18389765--18389825 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
18389755 TTCAGGTCAT
18389765 ATGAGCTTACCAATACTCAGCTCGC
1 ATGAGCTTACCAATACTCAGCTCGC
* * * * *
18389790 ATGACCTTATCATTATTCAGCTCGG
1 ATGAGCTTACCAATACTCAGCTCGC
*
18389815 AGGAGCTTACC
1 ATGAGCTTACC
18389826 GTTTATAGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (25 bp):
ATGAGCTTACCAATACTCAGCTCGC
Found at i:18394637 original size:95 final size:94
Alignment explanation
Indices: 18394459--18394643 Score: 217
Period size: 95 Copynumber: 2.0 Consensus size: 94
18394449 TCGAGTTATG
* * * * *
18394459 AATCAGACATTAACCATTACAAGATGTTGCTCACACGGGTTTTGAAGAAGCTGCAACACATACAA
1 AATCAGACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACAA
18394524 AATCTTAACCATCAGTAAGGTATCCTATA
66 AATCTTAACCATCAGTAAGGTATCCTATA
* * * * * * *
18394553 AATCAGGACACTAACCAGTACACGATGCTGCTCGCACGAGTTGTGAGGAATCTGCAATATATGCA
1 AATCA-GACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACA
* ** *
18394618 AGATCTTTGCCATCGGTAAGGTATCC
65 AAATCTTAACCATCAGTAAGGTATCC
18394644 ACCACCGGTA
Statistics
Matches: 74, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
94 5 0.07
95 69 0.93
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (94 bp):
AATCAGACACTAACCAGTACAAGATGCTGCTCACACGAGTTGTGAAGAAGCTGCAACACATACAA
AATCTTAACCATCAGTAAGGTATCCTATA
Found at i:18402413 original size:57 final size:56
Alignment explanation
Indices: 18402346--18402456 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 56
18402336 AATAGGAAAG
* *
18402346 ATTTGTAAATG-ATTATGGTTTTCTCCAGAA-TGAAAATAAAAATAGAGAAATGAAATC
1 ATTTGGAAATGAATT-TGGTTTTCTCCA-AACTGAAAATAAAAAT-GAAAAATGAAATC
*
18402403 ATTTGGAAATGAATTTGGTTTTCTCTAAACTGAAAATAAAAATGAAAAATGAAA
1 ATTTGGAAATGAATTTGGTTTTCTCCAAACTGAAAATAAAAATGAAAAATGAAA
18402457 AATGAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 12 0.24
57 34 0.69
58 3 0.06
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (56 bp):
ATTTGGAAATGAATTTGGTTTTCTCCAAACTGAAAATAAAAATGAAAAATGAAATC
Found at i:18402452 original size:7 final size:7
Alignment explanation
Indices: 18402435--18402465 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
18402425 CTCTAAACTG
18402435 AAAAT-A
1 AAAATGA
18402441 AAAATGA
1 AAAATGA
18402448 AAAATGA
1 AAAATGA
18402455 AAAATGA
1 AAAATGA
18402462 AAAA
1 AAAA
18402466 ACAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAATGA
Found at i:18402459 original size:14 final size:13
Alignment explanation
Indices: 18402435--18402486 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
18402425 CTCTAAACTG
18402435 AAAATAAAAATGA
1 AAAATAAAAATGA
18402448 AAAATGAAAAATGA
1 AAAAT-AAAAATGA
*
18402462 AAAA-ACAAAA-GC
1 AAAATA-AAAATGA
*
18402474 AAAATGAAAATGA
1 AAAATAAAAATGA
18402487 CCTGAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 12 0.38
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAATAAAAATGA
Found at i:18402462 original size:26 final size:26
Alignment explanation
Indices: 18402433--18402483 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18402423 TTCTCTAAAC
*
18402433 TGAAAATAA-AAATGAAAAATGAAAAA
1 TGAAAA-AACAAAAGAAAAATGAAAAA
*
18402459 TGAAAAAACAAAAGCAAAATGAAAA
1 TGAAAAAACAAAAGAAAAATGAAAA
18402484 TGACCTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (26 bp):
TGAAAAAACAAAAGAAAAATGAAAAA
Found at i:18408677 original size:23 final size:23
Alignment explanation
Indices: 18408646--18408696 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
18408636 ACCTACTTTC
*
18408646 TTACTGTAGTAATTTTTAGGG-TA
1 TTACAGTAGTAATTTTT-GGGATA
18408669 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTTGGGATA
18408692 TTACA
1 TTACA
18408697 TTTCTCTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGGGATA
Found at i:18409974 original size:12 final size:11
Alignment explanation
Indices: 18409952--18409977 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18409942 TACATTGTTC
18409952 TTTTCTTTTTT
1 TTTTCTTTTTT
18409963 TTTTCTTTTTT
1 TTTTCTTTTTT
18409974 TTTT
1 TTTT
18409978 GTGCCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:18410287 original size:19 final size:20
Alignment explanation
Indices: 18410245--18410287 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18410235 TCAAGCTTTC
*
18410245 TATTCACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
18410265 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
18410283 TATTC
1 TATTC
18410288 CACAATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:18411054 original size:25 final size:25
Alignment explanation
Indices: 18410979--18411101 Score: 99
Period size: 22 Copynumber: 5.4 Consensus size: 25
18410969 CAGTATTAAA
* *
18410979 CAGAGAGCACTAAAGTG-TTAT-A-
1 CAGAGAGCACTAATGTGCTAATAAT
*
18411001 CAGAGAGCACAAATGTGCT-A-AA-
1 CAGAGAGCACTAATGTGCTAATAAT
*
18411023 CAGAGAGCACTAATGTGATAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
*
18411048 CAGAGAG--C--A--TGCTAGTAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
18411067 CAGAGAGCACTGACGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
18411092 CAGAGAGCAC
1 CAGAGAGCAC
18411102 GCTAAACTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
19 15 0.18
21 2 0.02
22 34 0.41
23 4 0.05
24 2 0.02
25 26 0.31
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:18416069 original size:39 final size:39
Alignment explanation
Indices: 18415977--18416088 Score: 120
Period size: 39 Copynumber: 2.9 Consensus size: 39
18415967 ACACACCATA
*
18415977 TTGTGGCCAAGCCATTG-A-ATTGCAGTCAAGCTACACG
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
* * * * * *
18416014 CTATGGTCAAGGCACTGAATATTGTAGTCAAGCTACATG
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
* **
18416053 TTGTGACCAAGCCACTGAATATTGCAAACAAGCTAC
1 TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTAC
18416089 CAAATACGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
37 12 0.21
38 1 0.02
39 45 0.78
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
TTGTGGCCAAGCCACTGAATATTGCAGTCAAGCTACACG
Found at i:18419318 original size:26 final size:26
Alignment explanation
Indices: 18419267--18419318 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18419257 ACCAATATCA
* *
18419267 CAGCATAGCTGCCAATAGTAATAATG
1 CAGCAGAGCTGCCAATAGTAAGAATG
* *
18419293 CAGCAGAGCTGCCAGTAGTCAGAATG
1 CAGCAGAGCTGCCAATAGTAAGAATG
18419319 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGCAGAGCTGCCAATAGTAAGAATG
Found at i:18419355 original size:22 final size:22
Alignment explanation
Indices: 18419312--18419376 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
18419302 TGCCAGTAGT
* *
18419312 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
18419334 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
18419356 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
18419377 GTATAGTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:18419441 original size:32 final size:32
Alignment explanation
Indices: 18419396--18419602 Score: 191
Period size: 32 Copynumber: 6.5 Consensus size: 32
18419386 TGTGATTGGG
*
18419396 ACAAAGCCATCAGTAGCAGTGATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * ** * *
18419428 ACACAGCCATCAGTAACGGCAACATGATCGGT
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
18419460 ACAAAGCCATCAATAGCAGAGATATGATCGGT
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
18419492 ACACAGCCATCAGTAATAGTGAAATGATCGTC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * *
18419524 ACACAGGCATCGGTAACAGTAATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * *
18419556 ATAAAGCCATCAGTAACGGT-ACTATGACCGGC
1 ACAAAGCCATCAGTAACAGTGA-TATGATCGGC
*
18419588 ATAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
18419603 GCATCGCAGC
Statistics
Matches: 140, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
31 1 0.01
32 139 0.99
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (32 bp):
ACAAAGCCATCAGTAACAGTGATATGATCGGC
Found at i:18419477 original size:64 final size:63
Alignment explanation
Indices: 18419396--18419605 Score: 226
Period size: 64 Copynumber: 3.3 Consensus size: 63
18419386 TGTGATTGGG
18419396 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGCAACATGATCGGT
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG-AACATGATCGGT
* * * *
18419460 ACAAAGCCATCAATAGCAGAGATATGATCGGTACACAGCCATCAGTAATAGTGAA-ATGATC-GT
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAA-CG-GAACATGATCGGT
* * * * * * * * * *
18419523 CACACAGGCATCGGTAACAGTAATATGATCGGCATAAAGCCATCAGTAACGGTACTATGACCGGC
1 -ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGAAC-ATGATCGGT
*
18419588 ATAAAGCCATCAGTAGCA
1 ACAAAGCCATCAGTAGCA
18419606 TCGCAGCAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.02
63 3 0.03
64 107 0.91
65 4 0.03
66 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (63 bp):
ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGAACATGATCGGT
Found at i:18419582 original size:96 final size:96
Alignment explanation
Indices: 18419396--18419602 Score: 229
Period size: 96 Copynumber: 2.2 Consensus size: 96
18419386 TGTGATTGGG
* * * *
18419396 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGCAACATGATCGGTA
1 ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
* * *
18419461 CAAAGCCATCAATAGCAGAGATATGATCGGT
66 CAAAGCCATCAATAACAGAGATATGACCGGC
* * * * * * *
18419492 ACACAGCCATCAGTAATAGTGAAATGATCGTCACACAGGCATCGGTAACAGTAATATGATCGGCA
1 ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
* *
18419557 TAAAGCCATCAGTAAC-G-GTACTATGACCGGC
66 CAAAGCCATCAATAACAGAG-A-TATGACCGGC
*
18419588 ATAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
18419603 GCATCGCAGC
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
94 1 0.01
95 2 0.02
96 88 0.97
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (96 bp):
ACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGCAACATGATCGGCA
CAAAGCCATCAATAACAGAGATATGACCGGC
Found at i:18419677 original size:27 final size:27
Alignment explanation
Indices: 18419646--18419709 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
18419636 AACAAAGTTG
* *
18419646 CCAGTAATAGT-ATATGTGGCCCAGCCA
1 CCAGTAACAGTGAT-TGTGGCACAGCCA
*
18419673 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCACAGCCA
18419700 CCAGT-ACAGT
1 CCAGTAACAGT
18419710 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCACAGCCA
Found at i:18419806 original size:24 final size:23
Alignment explanation
Indices: 18419774--18419832 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
18419764 CCATGCTCAG
18419774 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
* *
18419798 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAAACA
18419822 AATCAGTCATT
1 AATCAGTCATT
18419833 TAACCATAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:18419935 original size:27 final size:27
Alignment explanation
Indices: 18419896--18420061 Score: 165
Period size: 27 Copynumber: 6.2 Consensus size: 27
18419886 TCACCAGGGC
18419896 ATTACAGTCATTTTACCCTACAGGGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * * *
18419923 ATTACAATTATTTTACCCTACAAGGAT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * * *
18419950 ATTACGGTCATTTTATCCTATAGAGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
* * *
18419977 ATTACGGTCATTTTACCTTACAGGGTT
1 ATTACAGTCATTTTACCCTACAGGGGT
* *
18420004 ATTA-AGATTATTTTACCCT-CAGGGGC
1 ATTACAG-TCATTTTACCCTACAGGGGT
* * *
18420030 ATTACGGTTATTTTACCTTACAGGGGT
1 ATTACAGTCATTTTACCCTACAGGGGT
18420057 ATTAC
1 ATTAC
18420062 CTTACAGTCG
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
26 21 0.19
27 90 0.81
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTACAGGGGT
Found at i:18419960 original size:54 final size:54
Alignment explanation
Indices: 18419896--18420061 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
18419886 TCACCAGGGC
* ** * *
18419896 ATTACAGTCATTTTACCCTACAGGGGTATTACAATTATTTTACCCTACAAGGAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
* * * * *
18419950 ATTACGGTCATTTTATCCTATAGAGGTATTACGGTCATTTTACCTTACAGGGTT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
* * * * *
18420004 ATTAAGATTATTTTACCCT-CAGGGGCATTACGGTTATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
18420057 ATTAC
1 ATTAC
18420062 CTTACAGTCG
Statistics
Matches: 92, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 33 0.36
54 59 0.64
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGAT
Found at i:18426432 original size:31 final size:27
Alignment explanation
Indices: 18426401--18426454 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18426391 GGACTGGATA
18426401 GATAGCATATTAGTGTTTCAATCGGTT
1 GATAGCATATTAGTGTTTCAATCGGTT
18426428 GATAGCATATTAGTGTTTCAATCGGTT
1 GATAGCATATTAGTGTTTCAATCGGTT
18426455 TCCTAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (27 bp):
GATAGCATATTAGTGTTTCAATCGGTT
Found at i:18434351 original size:13 final size:14
Alignment explanation
Indices: 18434333--18434362 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18434323 CTACTCTTGA
18434333 AAAGAAAAAAA-AG
1 AAAGAAAAAAAGAG
18434346 AAAGAAAAAAAGAG
1 AAAGAAAAAAAGAG
18434360 AAA
1 AAA
18434363 TAAGAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGAG
Found at i:18442981 original size:19 final size:19
Alignment explanation
Indices: 18442959--18442996 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18442949 TCAATCATCC
18442959 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
18442978 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
18442997 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:18444864 original size:19 final size:21
Alignment explanation
Indices: 18444836--18444874 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
18444826 ATTCACACCT
*
18444836 CAAGATTAAA-AA-ATAAAAG
1 CAAGACTAAATAAGATAAAAG
18444855 CAAGACTAAATAAGATAAAA
1 CAAGACTAAATAAGATAAAA
18444875 TTTAACCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (21 bp):
CAAGACTAAATAAGATAAAAG
Done.