Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 111 of 150
Found at i:34432903 original size:22 final size:23
Alignment explanation
Indices: 34432852--34432908 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 23
34432842 GACACCAAAT
* *
34432852 CCATAAA-CTCTAAATCCCTAAG
1 CCATAAACCTCTAAACCCCTAAC
*
34432874 CC-TTAACCTCT-AACCCCTAAC
1 CCATAAACCTCTAAACCCCTAAC
34432895 CCATAAACCT-TAAA
1 CCATAAACCTCTAAA
34432909 TCACAACCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.23
Consensus pattern (23 bp):
CCATAAACCTCTAAACCCCTAAC
Found at i:34432946 original size:14 final size:15
Alignment explanation
Indices: 34432927--34432959 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34432917 CTTAAGTCAA
34432927 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
34432941 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
34432956 AATC
1 AATC
34432960 TATAAGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:34433658 original size:30 final size:30
Alignment explanation
Indices: 34433624--34433686 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34433614 ACTTAACAAG
* *
34433624 CAAATGCCTCTAAAATAATAACAATATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
34433654 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
34433684 CAA
1 CAA
34433687 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:34433741 original size:22 final size:22
Alignment explanation
Indices: 34433716--34433758 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34433706 TATCCAAACA
34433716 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
34433738 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
34433759 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:34434122 original size:58 final size:60
Alignment explanation
Indices: 34434052--34434167 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
34434042 GTGATAGAAA
*
34434052 TTCTAGTAGTTAATAAACAAG-TTGTTTTA-TTTTTCTATGCAATATTAGCCGTGGGAGT
1 TTCTAGTAGTTAATAAACAAGTTTGTTTTATTTTTTCTATACAATATTAGCCGTGGGAGT
* *
34434110 TTCTAGTAGTTAATAAACAAGTTTGTTTTATTTTTTTTATACAATATTAGCCTTGGGA
1 TTCTAGTAGTTAATAAACAAGTTTGTTTTATTTTTTCTATACAATATTAGCCGTGGGA
34434168 CTAGGGAATG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
58 21 0.40
59 8 0.15
60 24 0.45
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.46
Consensus pattern (60 bp):
TTCTAGTAGTTAATAAACAAGTTTGTTTTATTTTTTCTATACAATATTAGCCGTGGGAGT
Found at i:34434861 original size:23 final size:24
Alignment explanation
Indices: 34434811--34434861 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
34434801 CTAAAATGTG
* *
34434811 ATGTGATGTGTATAAAATGTGCTA
1 ATGTGATGTATATAAAATGTGATA
* *
34434835 ATGTGAT-TATATGAAATGTGATT
1 ATGTGATGTATATAAAATGTGATA
34434858 ATGT
1 ATGT
34434862 TAGAATATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (24 bp):
ATGTGATGTATATAAAATGTGATA
Found at i:34436619 original size:19 final size:19
Alignment explanation
Indices: 34436595--34436632 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34436585 CATGTATTTG
34436595 TGTGGTATGAATGGTGGTT
1 TGTGGTATGAATGGTGGTT
* *
34436614 TGTGGTGTGATTGGTGGTT
1 TGTGGTATGAATGGTGGTT
34436633 GGTAAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.45, T:0.45
Consensus pattern (19 bp):
TGTGGTATGAATGGTGGTT
Found at i:34460613 original size:30 final size:29
Alignment explanation
Indices: 34460570--34460672 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 29
34460560 GTGAAGTGTT
*
34460570 AAATTTATTAAATTATTCAGAATTAGGATC
1 AAATTTATAAAATTATT-AGAATTAGGATC
* * *
34460600 AAATTGATAAAA-T-TTATGAATGTGAAGATT
1 AAATTTATAAAATTATTA-GAAT-T-AGGATC
* *
34460630 AAATTTATTAAATTATTTAAAATTAGGATC
1 AAATTTATAAAATTA-TTAGAATTAGGATC
*
34460660 AAATTAATAAAAT
1 AAATTTATAAAAT
34460673 ATGTAAGTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.02
28 6 0.11
29 2 0.04
30 39 0.70
31 2 0.04
32 3 0.05
33 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (29 bp):
AAATTTATAAAATTATTAGAATTAGGATC
Found at i:34460654 original size:60 final size:61
Alignment explanation
Indices: 34460539--34460672 Score: 198
Period size: 60 Copynumber: 2.2 Consensus size: 61
34460529 TTTGAATATT
* * * *
34460539 AAATTGATAGAATTTGTAAATGTGAAGTGTTAAATTTATTAAATTATTCAGAATTAGGATC
1 AAATTGATAAAATTTATAAATGTGAAGTATTAAATTTATTAAATTATTCAAAATTAGGATC
* *
34460600 AAATTGATAAAATTTATGAATGTGAAG-ATTAAATTTATTAAATTATTTAAAATTAGGATC
1 AAATTGATAAAATTTATAAATGTGAAGTATTAAATTTATTAAATTATTCAAAATTAGGATC
*
34460660 AAATTAATAAAAT
1 AAATTGATAAAAT
34460673 ATGTAAGTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
60 42 0.64
61 24 0.36
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (61 bp):
AAATTGATAAAATTTATAAATGTGAAGTATTAAATTTATTAAATTATTCAAAATTAGGATC
Found at i:34471336 original size:26 final size:27
Alignment explanation
Indices: 34471307--34471362 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
34471297 TTTTATTTAA
34471307 TATA-TATATATATTTATATACATTT-T
1 TATACTATATA-ATTTATATACATTTCT
* *
34471333 TATACTCTATAATTTATATGCATTTCT
1 TATACTATATAATTTATATACATTTCT
34471360 TAT
1 TAT
34471363 TTTCATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TATACTATATAATTTATATACATTTCT
Found at i:34471838 original size:107 final size:107
Alignment explanation
Indices: 34471650--34471847 Score: 342
Period size: 107 Copynumber: 1.9 Consensus size: 107
34471640 AGTTTTTTCT
* * *
34471650 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
*
34471715 TCTCGTTTGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
*
34471757 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGCGCTGGGTTTCGATT
1 AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
*
34471822 TCTCGTTCGACTAAATAGCCAAATAT
66 TCTCGTTCGACCAAATAGCCAAATAT
34471848 CCTCTTAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (107 bp):
AAATAAGGCAATACTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
TCTCGTTCGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
Found at i:34473343 original size:19 final size:19
Alignment explanation
Indices: 34473319--34473365 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34473309 AACGTCTCTT
*
34473319 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
34473338 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
34473357 TATGCATTA
1 TTTGCATTA
34473366 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:34476104 original size:10 final size:10
Alignment explanation
Indices: 34476091--34476125 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
34476081 AAAAAGGGGT
34476091 AAAAAAGTAA
1 AAAAAAGTAA
34476101 AAAAAAGTAA
1 AAAAAAGTAA
34476111 AAAGAAAG-AA
1 AAA-AAAGTAA
34476121 AAAAA
1 AAAAA
34476126 CCTCTACTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.08
10 18 0.75
11 4 0.17
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (10 bp):
AAAAAAGTAA
Found at i:34476579 original size:13 final size:13
Alignment explanation
Indices: 34476547--34476606 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
34476537 AACTTCACTT
*
34476547 GAAAAAAAAAGAAA
1 GAAAAAGAAA-AAA
*
34476561 CAAAAAGAAAAAA
1 GAAAAAGAAAAAA
* * *
34476574 GTAAAAGTAAAAC
1 GAAAAAGAAAAAA
*
34476587 GAAAAAGAAAAGA
1 GAAAAAGAAAAAA
34476600 GAAAAAG
1 GAAAAAG
34476607 GAGAGGCCAA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
13 28 0.78
14 8 0.22
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:34476591 original size:26 final size:25
Alignment explanation
Indices: 34476558--34476606 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
34476548 AAAAAAAAAG
*
34476558 AAACAAAAAGAAAAAAGTAAAAGTA
1 AAACAAAAAGAAAAAAGAAAAAGTA
*
34476583 AAACGAAAAAGAAAAGAGAAAAAG
1 AAAC-AAAAAGAAAAAAGAAAAAG
34476607 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (25 bp):
AAACAAAAAGAAAAAAGAAAAAGTA
Found at i:34477131 original size:108 final size:108
Alignment explanation
Indices: 34476942--34477137 Score: 286
Period size: 108 Copynumber: 1.8 Consensus size: 108
34476932 TTTGTATTCT
* *
34476942 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTACAGCTTTGCTCTCAATAAATTTCCATCTT
1 AGCAAAATTTACTATCTTGATTAATTTGTTCATTTACAGCTTTGCTCTCAAAAAATTTCCATCTT
34477007 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * ** * *
34477050 AGCAAAATTTACTGTCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTACTATCTTGATTAATTTGTTCATTTACAGCTTTGCTCTCAA-AAAATTTCCATCT
* *
34477114 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
34477138 AGCATTTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 71 0.92
109 6 0.08
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTACTATCTTGATTAATTTGTTCATTTACAGCTTTGCTCTCAAAAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:34477664 original size:44 final size:44
Alignment explanation
Indices: 34477610--34478017 Score: 385
Period size: 44 Copynumber: 9.3 Consensus size: 44
34477600 GGGATGGATT
* * *
34477610 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * *
34477654 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* *
34477698 GAAGATA-CAGATCTTGTCTTCCTATATTGGTGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * *
34477741 AAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * * *
34477785 GAAGATAGTAGGTCCTGTCTTCCTGTATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
34477829 GAAGAT-GTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
34477873 AAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * * ** * *
34477917 GAAAATAGTAGGTCCTATCTTCCTATATTGGTATAAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
*
34477961 GAAGAT-GCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* *
34478004 GAAGAAAACAGATC
1 GAAGATAGCAGATC
34478018 AATGAAGTTA
Statistics
Matches: 290, Mismatches: 67, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.00
43 90 0.31
44 178 0.61
45 21 0.07
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
Found at i:34477845 original size:131 final size:131
Alignment explanation
Indices: 34477611--34478017 Score: 688
Period size: 131 Copynumber: 3.1 Consensus size: 131
34477601 GGATGGATTG
* *
34477611 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTGTCTTC
* *
34477676 CTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTCCTATATTGGTGCGAAGTAGATC
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGCGAAGTAGATC
34477741 A
131 A
34477742 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTGTCTTC
* *
34477807 CTGTATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGAT
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGT-GCGAAGTAGAT
34477872 CA
130 CA
* *
34477874 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGTAGGTCCTATCTTC
1 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTGTCTTC
** * *
34477939 CTATATTGGTATAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGCGTGAAGTAGATC
66 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGCGAAGTAGATC
*
34478004 G
131 A
34478005 AAGAAAACAGATC
1 AAGAAAACAGATC
34478018 AATGAAGTTA
Statistics
Matches: 260, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
131 136 0.52
132 124 0.48
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (131 bp):
AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTGTCTTC
CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGCGAAGTAGATC
A
Found at i:34478204 original size:99 final size:100
Alignment explanation
Indices: 34478065--34478581 Score: 561
Period size: 99 Copynumber: 5.2 Consensus size: 100
34478055 TTAAAGCTAG
* * * * *
34478065 AACGGCGAATCTTACTT-TCCTGGC-GATGCAGTGGATCAGATTGAAGCTACAACGGTGAATCTT
1 AACGGCGAATCTCACTTCT-CTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTT
**
34478128 G-TTCCCCGACATTGCAATTAAAGAGATTGAAGCCAT
65 GCTTCCCCGACATTGCAATTAAA-AGATTGAAGCCGC
* *
34478164 AACGGTGAATCTCACTTCTCTGGCAG-TACAGTGGAGCAGATTAAAGCTACGACAGTGAATCTTG
1 AACGGCGAATCTCACTTCTCTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTG
** * *
34478228 CTTCCCTAATATTACAATTTAAAAGATTGAAGCCGC
66 CTTCCCCGACATTGCAA-TTAAAAGATTGAAGCCGC
* * * * * * * *
34478264 AACGGCAAATCTTACTT-TCCTGGC-GATGCAGTGGATCAAATTGAAGCTACAACGGCGAATCTT
1 AACGGCGAATCTCACTTCT-CTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTT
* *
34478327 G-TTCCCCGACATTACAATTAAAGAGATTGAAGCCAC
65 GCTTCCCCGACATTGCAATTAAA-AGATTGAAGCCGC
* *
34478363 AATGGCAAATCTCACTTCTCTGGCAG-TACAGTGGAGCAGATTAAAG-TACGACGGTGAATCTTG
1 AACGGCGAATCTCACTTCTCTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTG
* ** *
34478426 CTTCCCTGTTATTGTAATTAAAAAGATTGAAGCCGC
66 CTTCCCCGACATTGCAATT-AAAAGATTGAAGCCGC
* * * **
34478462 AACGGCGAATCTTACTTGC-CTGG-TGATGCAGTGGAGCAGATTAAAGCTACGACGGCAAATCTT
1 AACGGCGAATCTCACTT-CTCTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTT
*
34478525 GCTTCCCCGACATTGCAATTTAAAATATTGAAGCCGC
65 GCTTCCCCGACATTGCAA-TTAAAAGATTGAAGCCGC
*
34478562 AACGGTGAATCTCACTTCTC
1 AACGGCGAATCTCACTTCTC
34478582 CCTAAGCAGT
Statistics
Matches: 347, Mismatches: 55, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
98 21 0.06
99 179 0.52
100 140 0.40
101 7 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
AACGGCGAATCTCACTTCTCTGGCAGATACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTG
CTTCCCCGACATTGCAATTAAAAGATTGAAGCCGC
Found at i:34478376 original size:199 final size:198
Alignment explanation
Indices: 34478065--34478581 Score: 802
Period size: 199 Copynumber: 2.6 Consensus size: 198
34478055 TTAAAGCTAG
*
34478065 AACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGTGAATCTTGT
1 AACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGT
*
34478130 TCCCCGACATTGCAATTAAAGAGATTGAAGCCATAACGGTGAATCTCACTTCTCTGGCAGTACAG
66 TCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGTGAATCTCACTTCTCTGGCAGTACAG
*
34478195 TGGAGCAGATTAAAGCTACGACAGTGAATCTTGCTTCCCTAATATTACAATTTAAAAGATTGAAG
131 TGGAGCAGATTAAAG-TACGACAGTGAATCTTGCTTCCCTAATATTACAATTAAAAAGATTGAAG
34478260 CCGC
195 CCGC
* *
34478264 AACGGCAAATCTTACTTTCCTGGCGATGCAGTGGATCAAATTGAAGCTACAACGGCGAATCTTGT
1 AACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGT
* * **
34478329 TCCCCGACATTACAATTAAAGAGATTGAAGCCACAATGGCAAATCTCACTTCTCTGGCAGTACAG
66 TCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGTGAATCTCACTTCTCTGGCAGTACAG
* ** **
34478394 TGGAGCAGATTAAAGTACGACGGTGAATCTTGCTTCCCTGTTATTGTAATTAAAAAGATTGAAGC
131 TGGAGCAGATTAAAGTACGACAGTGAATCTTGCTTCCCTAATATTACAATTAAAAAGATTGAAGC
34478459 CGC
196 CGC
* * * * * *
34478462 AACGGCGAATCTTACTTGCCTGGTGATGCAGTGGAGCAGATTAAAGCTACGACGGCAAATCTTGC
1 AACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTG-
* *
34478527 TTCCCCGACATTGCAATTTAAA-ATATTGAAGCCGCAACGGTGAATCTCACTTCTC
65 TTCCCCGACATTGCAA-TTAAAGAGATTGAAGCCACAACGGTGAATCTCACTTCTC
34478582 CCTAAGCAGT
Statistics
Matches: 288, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
198 103 0.36
199 180 0.62
200 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (198 bp):
AACGGCGAATCTTACTTTCCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGCGAATCTTGT
TCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGTGAATCTCACTTCTCTGGCAGTACAG
TGGAGCAGATTAAAGTACGACAGTGAATCTTGCTTCCCTAATATTACAATTAAAAAGATTGAAGC
CGC
Found at i:34480950 original size:107 final size:107
Alignment explanation
Indices: 34480762--34480959 Score: 315
Period size: 107 Copynumber: 1.9 Consensus size: 107
34480752 AGTTTTTTCT
* * * * *
34480762 AAATAAGGCAATATTTCGCGTTTGGAAAATCAAGGAAACGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATACTTCACATTTGGAAAATCAAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
*
34480827 TCTCGTTTGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
66 TCTCGTTCGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
* *
34480869 AAATAAGGCAATACTTCACATTTGGAAAATCGAGGAAACGTGCCCTAACGCGCTGGGTTTCGATT
1 AAATAAGGCAATACTTCACATTTGGAAAATCAAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
*
34480934 TCTCGTTCGACTAAATAGCCAAATAT
66 TCTCGTTCGACCAAATAGCCAAATAT
34480960 CCTCTTAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (107 bp):
AAATAAGGCAATACTTCACATTTGGAAAATCAAGGAAACGTGCCCTAACGCGCTGGGTTTCGACT
TCTCGTTCGACCAAATAGCCAAATATTCTTTTTAAACTTTTA
Found at i:34482615 original size:17 final size:16
Alignment explanation
Indices: 34482586--34482632 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
34482576 AAACAAGTGG
34482586 AAGTGAAGA-AAGTGACC
1 AAGTGAA-ATAAGTG-CC
*
34482603 AAGTGAAATAAGTGCT
1 AAGTGAAATAAGTGCC
*
34482619 AAGAGAAATAAGTG
1 AAGTGAAATAAGTG
34482633 GTAAGCAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.49, C:0.06, G:0.28, T:0.17
Consensus pattern (16 bp):
AAGTGAAATAAGTGCC
Found at i:34482628 original size:16 final size:16
Alignment explanation
Indices: 34482607--34482637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34482597 GTGACCAAGT
34482607 GAAATAAGTGCTAAGA
1 GAAATAAGTGCTAAGA
*
34482623 GAAATAAGTGGTAAG
1 GAAATAAGTGCTAAG
34482638 CAAAGTAAGT
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:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (16 bp):
GAAATAAGTGCTAAGA
Found at i:34494624 original size:15 final size:15
Alignment explanation
Indices: 34494606--34494637 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34494596 CATATAATGT
34494606 GTATAAATATCCTAA
1 GTATAAATATCCTAA
34494621 GTATAAATATCCTAA
1 GTATAAATATCCTAA
34494636 GT
1 GT
34494638 TTGGTCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (15 bp):
GTATAAATATCCTAA
Found at i:34500745 original size:104 final size:104
Alignment explanation
Indices: 34500565--34501006 Score: 562
Period size: 104 Copynumber: 4.3 Consensus size: 104
34500555 GGCCAGTAGT
* * * * * * *
34500565 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAGACTTAAGCTTGTAGCTCCCAGATAAC
1 AGAGTTAAGCTCGCAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTCGTAACTCCCAGACAAC
* *
34500630 TAGCGGACCTACGCTCCCAGCTGATTATTTAAGGTTAGC
66 TAGCGGACCTACACTCCCAGCTGATTATTAAAGGTTAGC
* * *
34500669 AGAGTTAAGCTTGTAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTTGTAACTCCCAGACAAC
1 AGAGTTAAGCTCGCAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTCGTAACTCCCAGACAAC
*
34500734 TAGCGGACCTACACTCCCATCTGATTATT-AAGGTTAGC
66 TAGCGGACCTACACTCCCAGCTGATTATTAAAGGTTAGC
* * * *
34500772 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAAAGTTAAACTCATAACTCCTAGACAGC
1 AGAGTTAAGCTCGCAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTCGTAACTCCCAGACAAC
** ** * * *
34500837 TAGAAGACCTATGCTCCCAGTTGAGTATTAAAAGTTAGC
66 TAGCGGACCTACACTCCCAGCTGATTATTAAAGGTTAGC
* * * * * *
34500876 AGAGTTAAGCTCGCAACCTCTGGTCTTTTGAGTTAGCAGAGTTAAGCTCGCAACTCCCATACAAC
1 AGAGTTAAGCTCGCAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTCGTAACTCCCAGACAAC
* * *
34500941 TCGTGGACCTACACTTCCAGCTGATTATTAAAGGTTAGC
66 TAGCGGACCTACACTCCCAGCTGATTATTAAAGGTTAGC
* *
34500980 AGAGTTAAGCTCGCAACCCCCAATCTT
1 AGAGTTAAGCTCGCAACCTCCGATCTT
34501007 ATTTACAAAC
Statistics
Matches: 289, Mismatches: 48, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
103 89 0.31
104 200 0.69
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (104 bp):
AGAGTTAAGCTCGCAACCTCCGATCTTTTGAGTTAGCAAAGTTAAACTCGTAACTCCCAGACAAC
TAGCGGACCTACACTCCCAGCTGATTATTAAAGGTTAGC
Found at i:34500933 original size:207 final size:208
Alignment explanation
Indices: 34500565--34501006 Score: 598
Period size: 207 Copynumber: 2.1 Consensus size: 208
34500555 GGCCAGTAGT
* * ** * *
34500565 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAGACTTAAGCTTGTAGCTCCCAGATAAC
1 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAAACTTAAACTCATAACTCCCAGACAAC
** * * * * *
34500630 TAGCGGACCTACGCTCCCAGCTGATTATTTAAGGTTAGCAGAGTTAAGCTTGTAACCTCCGATCT
66 TAGAAGACCTACGCTCCCAGCTGAGTATTAAAAGTTAGCAGAGTTAAGCTCGCAACCTCCGATCT
* * *
34500695 TTTGAGTTAGCAAAGTTAAACTTGTAACTCCCAGACAACTAGCGGACCTACACTCCCATCTGATT
131 TTTGAGTTAGCAAAGTTAAACTCGCAACTCCCAGACAACTAGCGGACCTACACTCCCAGCTGATT
34500760 ATT-AAGGTTAGC
196 ATTAAAGGTTAGC
* * *
34500772 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAAAGTTAAACTCATAACTCCTAGACAGC
1 AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAAACTTAAACTCATAACTCCCAGACAAC
* * * *
34500837 TAGAAGACCTATGCTCCCAGTTGAGTATTAAAAGTTAGCAGAGTTAAGCTCGCAACCTCTGGTCT
66 TAGAAGACCTACGCTCCCAGCTGAGTATTAAAAGTTAGCAGAGTTAAGCTCGCAACCTCCGATCT
* * * * * *
34500902 TTTGAGTTAGCAGAGTTAAGCTCGCAACTCCCATACAACTCGTGGACCTACACTTCCAGCTGATT
131 TTTGAGTTAGCAAAGTTAAACTCGCAACTCCCAGACAACTAGCGGACCTACACTCCCAGCTGATT
34500967 ATTAAAGGTTAGC
196 ATTAAAGGTTAGC
* *
34500980 AGAGTTAAGCTCGCAACCCCCAATCTT
1 AGAGTTAAGCTCGCAACCTCCTATCTT
34501007 ATTTACAAAC
Statistics
Matches: 203, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
207 169 0.83
208 34 0.17
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (208 bp):
AGAGTTAAGCTCGCAACCTCCTATCTTTTGAGTTAGCAAACTTAAACTCATAACTCCCAGACAAC
TAGAAGACCTACGCTCCCAGCTGAGTATTAAAAGTTAGCAGAGTTAAGCTCGCAACCTCCGATCT
TTTGAGTTAGCAAAGTTAAACTCGCAACTCCCAGACAACTAGCGGACCTACACTCCCAGCTGATT
ATTAAAGGTTAGC
Found at i:34509715 original size:42 final size:42
Alignment explanation
Indices: 34509656--34509737 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
34509646 GGAAGTTGAA
*
34509656 AATTCTTTAATCAAAATCTTTGGACTTCAAATAATGCTAGAC
1 AATTCTTTAAACAAAATCTTTGGACTTCAAATAATGCTAGAC
*
34509698 AATTCTTTAAACAAAATCTTTGGACTTCGAATAATGCTAG
1 AATTCTTTAAACAAAATCTTTGGACTTCAAATAATGCTAG
34509738 TATTATGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (42 bp):
AATTCTTTAAACAAAATCTTTGGACTTCAAATAATGCTAGAC
Found at i:34509768 original size:14 final size:14
Alignment explanation
Indices: 34509749--34509793 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
34509739 ATTATGGAAG
34509749 TATGAAAGCTCATC
1 TATGAAAGCTCATC
*
34509763 TATGAAAGCTCATT
1 TATGAAAGCTCATC
*
34509777 TAT-AAAGATCAATC
1 TATGAAAGCTC-ATC
34509791 TAT
1 TAT
34509794 TTGAAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (14 bp):
TATGAAAGCTCATC
Found at i:34512875 original size:2 final size:2
Alignment explanation
Indices: 34512868--34512903 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34512858 ACCATTTTGC
34512868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34512904 TAATAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34515336 original size:6 final size:6
Alignment explanation
Indices: 34515317--34515367 Score: 84
Period size: 6 Copynumber: 8.3 Consensus size: 6
34515307 TCTAAATAAA
*
34515317 TTCATT TCTCATT TTCATT TTCATT TTCATT TTCATT TTCATT TCCATT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
34515366 TT
1 TT
34515368 GAGAAAACCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.65
Consensus pattern (6 bp):
TTCATT
Found at i:34518734 original size:20 final size:20
Alignment explanation
Indices: 34518709--34518753 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34518699 TGGGTAGGAT
* *
34518709 TTGTTTTCTGGAAATCTACA
1 TTGTTTTCTGAAAATCCACA
34518729 TTGTTTTCTGAAAATCCACA
1 TTGTTTTCTGAAAATCCACA
34518749 TTGTT
1 TTGTT
34518754 ATTGAAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
TTGTTTTCTGAAAATCCACA
Found at i:34518759 original size:19 final size:20
Alignment explanation
Indices: 34518709--34518761 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34518699 TGGGTAGGAT
* * *
34518709 TTGTTTTCTGGAAATCTACA
1 TTGTTATCTGAAAATCCACA
*
34518729 TTGTTTTCTGAAAATCCACA
1 TTGTTATCTGAAAATCCACA
34518749 TTGTTAT-TGAAAA
1 TTGTTATCTGAAAA
34518762 GCGTTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
TTGTTATCTGAAAATCCACA
Found at i:34522788 original size:11 final size:11
Alignment explanation
Indices: 34522772--34522832 Score: 83
Period size: 11 Copynumber: 5.6 Consensus size: 11
34522762 AAATATTTTT
34522772 TATTTTTAAAA
1 TATTTTTAAAA
34522783 TATTTTTAAAA
1 TATTTTTAAAA
34522794 TAATTTTT-AAA
1 T-ATTTTTAAAA
34522805 -A-TTTTAAAA
1 TATTTTTAAAA
34522814 TATTTTTAAAA
1 TATTTTTAAAA
34522825 TACTTTTT
1 TA-TTTTT
34522833 TTTAATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 1 0.02
11 25 0.56
12 11 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:34522811 original size:20 final size:19
Alignment explanation
Indices: 34522772--34522825 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 19
34522762 AAATATTTTT
34522772 TATTTTTAAAATATTTTTAAAA
1 TATTTTT-AAA-A-TTTTAAAA
34522794 TAATTTTTAAAATTTTAAAA
1 T-ATTTTTAAAATTTTAAAA
34522814 TATTTTTAAAAT
1 TATTTTTAAAAT
34522826 ACTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.35
20 9 0.29
21 1 0.03
22 4 0.13
23 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTTAAAATTTTAAAA
Found at i:34531637 original size:12 final size:12
Alignment explanation
Indices: 34531620--34531647 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34531610 GGTGTTACTT
34531620 ACTAAGAAAATG
1 ACTAAGAAAATG
34531632 ACTAAGAAAATG
1 ACTAAGAAAATG
34531644 ACTA
1 ACTA
34531648 TGTGTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.18
Consensus pattern (12 bp):
ACTAAGAAAATG
Found at i:34533336 original size:29 final size:30
Alignment explanation
Indices: 34533295--34533362 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 30
34533285 TTTTAGTGGT
34533295 TTTTAAAGCATCGCCGTTTTTTGAACCACAA
1 TTTTAAA-CATCGCCGTTTTTTGAACCACAA
34533326 TTTTAAA-ATCGCCGTTTTTTGAACCACAA
1 TTTTAAACATCGCCGTTTTTTGAACCACAA
34533355 TTTTAAAC
1 TTTTAAAC
34533363 CTTTCCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 29 0.81
31 7 0.19
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (30 bp):
TTTTAAACATCGCCGTTTTTTGAACCACAA
Found at i:34537327 original size:20 final size:20
Alignment explanation
Indices: 34537302--34537339 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34537292 AAACCAAGAC
34537302 TAATTTT-TATTCTTCATAAT
1 TAATTTTATATT-TTCATAAT
34537322 TAATTTTATATTTTCATA
1 TAATTTTATATTTTCATA
34537340 CAAATTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTTATATTTTCATAAT
Found at i:34537694 original size:15 final size:17
Alignment explanation
Indices: 34537676--34537711 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
34537666 TCTCTTCTTC
34537676 TTTTCTTTCT-TTTT-T
1 TTTTCTTTCTCTTTTAT
34537691 TTTTCTTTCTCTTTTAT
1 TTTTCTTTCTCTTTTAT
34537708 TTTT
1 TTTT
34537712 TATTCGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 5 0.26
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTCTCTTTTAT
Found at i:34537710 original size:20 final size:20
Alignment explanation
Indices: 34537673--34537712 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34537663 TATTCTCTTC
*
34537673 TTCTTTTCTTTCTTTTTTTT
1 TTCTTTTCTTTCTATTTTTT
34537693 TTCTTTCTCTTT-TATTTTTT
1 TTCTTT-TCTTTCTATTTTTT
34537713 ATTCGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTTCTTTCTATTTTTT
Found at i:34540767 original size:12 final size:12
Alignment explanation
Indices: 34540729--34540859 Score: 158
Period size: 12 Copynumber: 10.5 Consensus size: 12
34540719 TCAAAAGGTG
*
34540729 ATTTCTATTTATT
1 ATTTTTATTT-TT
34540742 ATTTTTTATATTTT
1 A-TTTTTAT-TTTT
34540756 -TTATTTATTTTT
1 ATT-TTTATTTTT
* *
34540768 AAATTTTTTAATCT-
1 --A-TTTTTATTTTT
34540782 ATTTTTATTTTT
1 ATTTTTATTTTT
34540794 ATTTTTATTTTT
1 ATTTTTATTTTT
34540806 ATTTTTATTTTT
1 ATTTTTATTTTT
34540818 ATTTTTATTTTT
1 ATTTTTATTTTT
34540830 ATTTTTATTTTT
1 ATTTTTATTTTT
34540842 ATTTTTATTTTT
1 ATTTTTATTTTT
34540854 ATTTTT
1 ATTTTT
34540860 TGTAATATAT
Statistics
Matches: 105, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
11 8 0.08
12 73 0.70
13 6 0.06
14 8 0.08
15 8 0.08
16 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:34540774 original size:18 final size:17
Alignment explanation
Indices: 34540736--34540859 Score: 126
Period size: 18 Copynumber: 6.8 Consensus size: 17
34540726 GTGATTTCTA
34540736 TTTATTATT-TTTTATATT
1 TTTATT-TTATTTT-TATT
34540754 TTT-TATTTATTTTTAAATTT
1 TTTAT-TTTATTTTT--A-TT
* *
34540774 TTTAATCTATTTTTATT
1 TTTATTTTATTTTTATT
34540791 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
34540809 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
34540827 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
34540845 TTTATTTTTATTTTT
1 TTTA-TTTTATTTTT
34540860 TGTAATATAT
Statistics
Matches: 95, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.11
18 71 0.75
19 1 0.01
20 13 0.14
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:34540792 original size:6 final size:6
Alignment explanation
Indices: 34540781--34540859 Score: 158
Period size: 6 Copynumber: 13.2 Consensus size: 6
34540771 TTTTTTAATC
34540781 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
34540829 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
34540860 TGTAATATAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:34541240 original size:17 final size:16
Alignment explanation
Indices: 34541204--34541244 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
34541194 TATTTGATAA
*
34541204 ACTAAAAAATTAAGCT
1 ACTAAAAAATTAAGAT
34541220 -CTAAAAAATTAAGTAT
1 ACTAAAAAATTAAG-AT
34541236 ACTAAAAAA
1 ACTAAAAAA
34541245 ATATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 8 0.36
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (16 bp):
ACTAAAAAATTAAGAT
Found at i:34543908 original size:13 final size:13
Alignment explanation
Indices: 34543866--34543908 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
34543856 GGCTGAAAGA
34543866 TTATGAAAATATT
1 TTATGAAAATATT
* *
34543879 TTGTAGAAACTTATT
1 TTAT-GAAA-ATATT
34543894 TTATGAAAATATT
1 TTATGAAAATATT
34543907 TT
1 TT
34543909 TAGCTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 9 0.38
14 8 0.33
15 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (13 bp):
TTATGAAAATATT
Found at i:34555374 original size:32 final size:32
Alignment explanation
Indices: 34555338--34555401 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
34555328 TGCAAGGAAA
34555338 CGATGGACTAAGGGTGGAGTTGGCACTTCAAT
1 CGATGGACTAAGGGTGGAGTTGGCACTTCAAT
34555370 CGATGGACTAAGGGTGGAGTTGGCACTTCAAT
1 CGATGGACTAAGGGTGGAGTTGGCACTTCAAT
34555402 TGTTAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (32 bp):
CGATGGACTAAGGGTGGAGTTGGCACTTCAAT
Found at i:34555555 original size:24 final size:24
Alignment explanation
Indices: 34555527--34555590 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
34555517 CGAATTTGGA
34555527 TTTTAAATATTAACGGG-TATCAGG-
1 TTTTAAATATTAA-GGGCTAT-AGGC
*
34555551 TTTTAAATTTTAAGGGCTATAGGC
1 TTTTAAATATTAAGGGCTATAGGC
34555575 TTTTAAGAGTATTAAG
1 TTTTAA-A-TATTAAG
34555591 TTTTAATGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 6 0.18
24 21 0.62
25 1 0.03
26 6 0.18
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTTAAATATTAAGGGCTATAGGC
Found at i:34556165 original size:25 final size:26
Alignment explanation
Indices: 34556136--34556185 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
34556126 TATAACCATT
*
34556136 AAATATTTGTAATTAGT-ATTTTAAA
1 AAATATTTGTAATTAATGATTTTAAA
*
34556161 AAATATTTTTAATTAATGATTTTAA
1 AAATATTTGTAATTAATGATTTTAA
34556186 CACATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
AAATATTTGTAATTAATGATTTTAAA
Found at i:34564924 original size:35 final size:35
Alignment explanation
Indices: 34564878--34564962 Score: 152
Period size: 35 Copynumber: 2.4 Consensus size: 35
34564868 GTATTTTATT
34564878 AATAAAAAATCAAGCTCTGTCAAAAAATAAAATAA
1 AATAAAAAATCAAGCTCTGTCAAAAAATAAAATAA
*
34564913 AATAAAAAATCAAGCTCTGTCAACAAATAAAATAA
1 AATAAAAAATCAAGCTCTGTCAAAAAATAAAATAA
*
34564948 AATAAAAAGTCAAGC
1 AATAAAAAATCAAGC
34564963 AAATTACATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.61, C:0.13, G:0.07, T:0.19
Consensus pattern (35 bp):
AATAAAAAATCAAGCTCTGTCAAAAAATAAAATAA
Found at i:34576256 original size:13 final size:13
Alignment explanation
Indices: 34576235--34576295 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
34576225 ACATTCAAAT
*
34576235 TTTTCAAAAGCAC
1 TTTTCAAAAACAC
*
34576248 TTCTCAAAAACAC
1 TTTTCAAAAACAC
* *
34576261 TTTTCCACAACAC
1 TTTTCAAAAACAC
34576274 TTTTCAAAAACAC
1 TTTTCAAAAACAC
34576287 TTTTCAAAA
1 TTTTCAAAA
34576296 GCAATGAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:34578325 original size:24 final size:25
Alignment explanation
Indices: 34578273--34578330 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
34578263 TTTTAATAAT
* *
34578273 ATTATTTTT-AAAATTTAAACTTAC
1 ATTATTTTTAAAAATATAAACATAC
34578297 ATTATTTTTAAAAATATAAA-ATAC
1 ATTATTTTTAAAAATATAAACATAC
* *
34578321 CTTATCTTTA
1 ATTATTTTTA
34578331 GAGTCAACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTTTTAAAAATATAAACATAC
Found at i:34578811 original size:2 final size:2
Alignment explanation
Indices: 34578804--34578831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34578794 AAATACATCA
34578804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34578832 TTAGTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34579286 original size:5 final size:5
Alignment explanation
Indices: 34579276--34579308 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
34579266 AAGTCCTTGA
*
34579276 GATGT GATGT GATGT GATGT GATGT GAAGT GAT
1 GATGT GATGT GATGT GATGT GATGT GATGT GAT
34579309 TAATCCTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.36
Consensus pattern (5 bp):
GATGT
Found at i:34579656 original size:29 final size:29
Alignment explanation
Indices: 34579607--34579669 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
34579597 AGATGCACCA
34579607 AAGTGCAATAACTAAACAGAATGACA-TCG
1 AAGTGCAATAACTAAACAGAATGACACT-G
* *
34579636 AAGTGCAATATC-ATAATAGAATGACACTG
1 AAGTGCAATAACTA-AACAGAATGACACTG
34579665 AAGTG
1 AAGTG
34579670 TTTTAGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (29 bp):
AAGTGCAATAACTAAACAGAATGACACTG
Found at i:34582489 original size:31 final size:31
Alignment explanation
Indices: 34582423--34582503 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
34582413 TTTTAATAGT
* * *
34582423 AGAGTGACTAAAACTAACAACTTAATTGATG
1 AGAGTGACTAAAATTAACAACTTAATTAATA
* *
34582454 AGAGTGACTAAAATTGATAACTT-ATCTAATA
1 AGAGTGACTAAAATTAACAACTTAAT-TAATA
*
34582485 AGAGTAACTAAAA-TAACAA
1 AGAGTGACTAAAATTAACAA
34582504 ATTTTTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (31 bp):
AGAGTGACTAAAATTAACAACTTAATTAATA
Found at i:34583281 original size:3 final size:3
Alignment explanation
Indices: 34583273--34583336 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
34583263 TAGTTCAGCT
34583273 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
34583321 GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA G
34583337 GTGGTGCCGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34589102 original size:154 final size:153
Alignment explanation
Indices: 34588821--34589322 Score: 714
Period size: 154 Copynumber: 3.3 Consensus size: 153
34588811 ACTTCAAAAC
* *
34588821 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCATATTTTTTCCCCTAGATTTTATTACTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTT-CCCGA-ATTTTATTACTT
* * * *
34588886 TCAAAAAATTTACTATTTTCTAATTTTATTATTTTACATTATTTTAGTATATTATGTTTGAAATG
64 TCAAAAAATATACTATTTTTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATG
* * * * *
34588951 TATTAATTAATTTTATTTTTTAAAT
129 TATTAATTTAGTGTGTTTTTTATAT
*
34588976 AAATTTAGTAAAAAACCCTTATTTCGACCCTTTGTTCGTATTTATTTCCCGAATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTT-TTTCCCGAATTTTATTACTTT
*
34589041 CAAAAAATATACTATTTTTTAATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGT
65 CAAAAAATATACTATTTTTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
*
34589106 ATTAATTTAGTGTGCTTTTTATAT
130 ATTAATTTAGTGTGTTTTTTATAT
*
34589130 AAATTTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGTATTTTATTACTT
1 AAATTTAGT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTTATTACTT
*
34589195 TC-AAAAA-ATA-TA----TT-ATTTTCTTATCTTACATTATTTTAGTACATTATGTTTGAAATG
64 TCAAAAAATATACTATTTTTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATG
34589252 TATTAATTTAGTGTGTGTTTTTATAT
129 TATTAATTTAGTGTGT-TTTTTATAT
** * *
34589278 AAATTTAGTAAAAAACTTTTATTTTGGCCATTTGTTCGTATTTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTT
34589323 CTTATTTTCA
Statistics
Matches: 320, Mismatches: 23, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
146 5 0.02
147 83 0.26
148 20 0.06
152 2 0.01
153 3 0.01
154 105 0.33
155 96 0.30
156 6 0.02
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (153 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTACTTTC
AAAAAATATACTATTTTTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
TTAATTTAGTGTGTTTTTTATAT
Found at i:34589312 original size:147 final size:149
Alignment explanation
Indices: 34588821--34589322 Score: 679
Period size: 155 Copynumber: 3.3 Consensus size: 149
34588811 ACTTCAAAAC
* *
34588821 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCATA-TTTTTTCCCCTAGATTTTATTACT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGT--ATTTTATTACT
* *
34588885 TTCAAAAAATTTACTATTTTCTAATTTTATTATTTTACATTATTTTAGTATATTATGTTTGAAAT
64 TTCAAAAAA--TACTA--TT-TAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* * * * *
34588950 GTATTAATTAATTTTATTTTTTAAAT
124 GTATTAATTTAGTGTGTTTTTTATAT
* * *
34588976 AAATTTAGTAAAAAACCCTTATTTCGACCCTTTGTTCGTATTTATTTCCCGAATTTTATTACTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGTATTTTATTACTTT
*
34589041 CAAAAAATATACTATTTTTTAATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGT
66 C-AAAAA-ATACTA---TTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
*
34589106 ATTAATTTAGTGTGCTTTTTATAT
126 ATTAATTTAGTGTGTTTTTTATAT
34589130 AAATTTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGTATTTTATTACTT
1 AAATTTAGT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGTATTTTATTACTT
*
34589195 TCAAAAAATA-TA-TT-ATTTTCTTATCTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
65 TCAAAAAATACTATTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
34589257 ATTTAGTGTGTGTTTTTATAT
130 ATTTAGTGTGT-TTTTTATAT
** * *
34589278 AAATTTAGTAAAAAACTTTTATTTTGGCCATTTGTTCGTATTTTT
1 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTT
34589323 CTTATTTTCA
Statistics
Matches: 317, Mismatches: 24, Indels: 20
0.88 0.07 0.06
Matches are distributed among these distances:
147 88 0.28
148 20 0.06
152 2 0.01
153 3 0.01
154 94 0.30
155 101 0.32
156 9 0.03
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (149 bp):
AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGTATTTTATTACTTT
CAAAAAATACTATTTAATTTTCTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA
TTTAGTGTGTTTTTTATAT
Found at i:34589734 original size:13 final size:13
Alignment explanation
Indices: 34589710--34589738 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34589700 TTCTTTCTTT
34589710 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
34589723 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
34589736 TTC
1 TTC
34589739 AGCCGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTTCTTCTCC
Found at i:34589817 original size:27 final size:27
Alignment explanation
Indices: 34589768--34589829 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
34589758 ATATAAGAGG
* * *
34589768 CTGGTGCCGCCTGTGGCAGTGGCACCT
1 CTGGTGCCGCCTCTGCCACTGGCACCT
*
34589795 TTGGTGCCGCCTCTGCCACTGGCACCT
1 CTGGTGCCGCCTCTGCCACTGGCACCT
34589822 CTGGTGCC
1 CTGGTGCC
34589830 TCCTGTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.06, C:0.37, G:0.32, T:0.24
Consensus pattern (27 bp):
CTGGTGCCGCCTCTGCCACTGGCACCT
Found at i:34591440 original size:22 final size:22
Alignment explanation
Indices: 34591392--34591440 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
34591382 CATGTTTAAT
*
34591392 TTTTTTTTCATTATTAAAAATA
1 TTTTTTTTCATTACTAAAAATA
* *
34591414 CTTTTTTTCATTACCT-AACATA
1 TTTTTTTTCATTA-CTAAAAATA
34591436 TTTTT
1 TTTTT
34591441 CAATTTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTTTTTCATTACTAAAAATA
Found at i:34593078 original size:125 final size:122
Alignment explanation
Indices: 34592855--34593105 Score: 439
Period size: 125 Copynumber: 2.0 Consensus size: 122
34592845 AACCCCCAAT
34592855 AGTAAAGACATACCCTGTGAGAGATCTTTTATCAAGGTCTCCAACAAAATCAGAATCAACATACT
1 AGTAAAGACATACCCTGTGAGAGATCTTTTATCAAGGTCTCCAACAAAATCAGAATCAACATACT
*
34592920 CAATGACTCCATCTCTAGTTCTTCCAAACTGTAAGAAAATATCAGTAGTACATCGTA
66 CAATGACTCCATCTCTAGTTCTTCCAAACTGTAAGAAAATATCAGTAATACATCGTA
*
34592977 AGTAAAGACATACCCTGTGAGAGATCTTCTTTTATCAATGTCTCCAACAAAATCAGAATCAACAT
1 AGTAAAGACATACCCTGTGAGAGA---TCTTTTATCAAGGTCTCCAACAAAATCAGAATCAACAT
* *
34593042 ACTCAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAATATCAGTAATATATCGTA
63 ACTCAATGACTCCATCTCTAGTTCTTCCAAACTGTAAGAAAATATCAGTAATACATCGTA
34593102 AGTA
1 AGTA
34593106 TCTGAAAATC
Statistics
Matches: 122, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
122 24 0.20
125 98 0.80
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (122 bp):
AGTAAAGACATACCCTGTGAGAGATCTTTTATCAAGGTCTCCAACAAAATCAGAATCAACATACT
CAATGACTCCATCTCTAGTTCTTCCAAACTGTAAGAAAATATCAGTAATACATCGTA
Found at i:34605532 original size:9 final size:9
Alignment explanation
Indices: 34605518--34605571 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
34605508 ATTCACATCC
34605518 TTCTCTCAA
1 TTCTCTCAA
34605527 TTCTCTCAAA
1 TTCTCTC-AA
34605537 TTCTCTCAAA
1 TTCTCTC-AA
* *
34605547 CTGTCTCAA
1 TTCTCTCAA
*
34605556 GTCTCTCAA
1 TTCTCTCAA
*
34605565 CTCTCTC
1 TTCTCTC
34605572 GTTTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
9 22 0.56
10 17 0.44
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (9 bp):
TTCTCTCAA
Found at i:34605553 original size:12 final size:10
Alignment explanation
Indices: 34605518--34605564 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
34605508 ATTCACATCC
34605518 TTCTCTC-AA
1 TTCTCTCAAA
34605527 TTCTCTCAAA
1 TTCTCTCAAA
34605537 TTCTCTCAAA
1 TTCTCTCAAA
* *
34605547 CTGTCTC-AA
1 TTCTCTCAAA
*
34605556 GTCTCTCAA
1 TTCTCTCAA
34605565 CTCTCTCGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:34608669 original size:13 final size:14
Alignment explanation
Indices: 34608631--34608669 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
34608621 TTTATTTAGT
*
34608631 AAATATGTATTTTTA
1 AAATATATA-TTTTA
34608646 AAATATATATTTTA
1 AAATATATATTTTA
34608660 AAAT-TATATT
1 AAATATATATT
34608670 ATTTATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AAATATATATTTTA
Found at i:34611482 original size:20 final size:20
Alignment explanation
Indices: 34611444--34611482 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34611434 TATTACTCAC
*
34611444 TTTATCATTTTAAATATTTT
1 TTTATCATTTTAAAGATTTT
34611464 TTTATCA-TTTATAAGATTT
1 TTTATCATTTTA-AAGATTT
34611483 ATCACATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATCATTTTAAAGATTTT
Found at i:34617780 original size:3 final size:3
Alignment explanation
Indices: 34617750--34617850 Score: 53
Period size: 3 Copynumber: 33.3 Consensus size: 3
34617740 TTTATCCTTG
* * * *
34617750 TTA TCA TTA TTA TCA TTTA TCTA CTTA TTA TTA TGA -TA TGA TTA TTA
1 TTA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
34617797 ATA TTA ATA TTA ATA TTA ATA TTA ATA TTA ATA TTA TTA -CA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
34617844 TTG TTA T
1 TTA TTA T
34617851 AGTATTCCTT
Statistics
Matches: 69, Mismatches: 24, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
2 2 0.03
3 60 0.87
4 6 0.09
5 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:34617801 original size:6 final size:6
Alignment explanation
Indices: 34617792--34617832 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
34617782 ATGATATGAT
34617792 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
34617833 TTACATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:34629378 original size:48 final size:48
Alignment explanation
Indices: 34629325--34629417 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
34629315 ATTTTTAATA
*
34629325 AAAAAATATAAAATTTATTAAAAAT-TAGGAAAAAAAATTATAAAAGAGT
1 AAAAAATATAAAATATA-TAAAAATATA-GAAAAAAAATTATAAAAGAGT
* * *
34629374 AAAAAATGTAAACTATATAGAAATATAGAAAAAAAATTATAAAA
1 AAAAAATATAAAATATATAAAAATATAGAAAAAAAATTATAAAA
34629418 ATTTATGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
48 23 0.59
49 16 0.41
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.25
Consensus pattern (48 bp):
AAAAAATATAAAATATATAAAAATATAGAAAAAAAATTATAAAAGAGT
Found at i:34629733 original size:21 final size:21
Alignment explanation
Indices: 34629657--34629742 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
34629647 TTTTGATATA
* **
34629657 TTTTATAATTTTTACGAATTT
1 TTTTATAACTTTTAATAATTT
* *
34629678 TTTAGAAAAC-TTTAAT-ATTT
1 TTT-TATAACTTTTAATAATTT
**
34629698 TTTTATTAAAGTTTAATAATTT
1 TTTTA-TAACTTTTAATAATTT
*
34629720 TTTTATAACTTTTATTAATTT
1 TTTTATAACTTTTAATAATTT
34629741 TT
1 TT
34629743 ATTTTTTTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.02
20 9 0.18
21 28 0.56
22 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATAACTTTTAATAATTT
Found at i:34629917 original size:23 final size:23
Alignment explanation
Indices: 34629874--34629918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34629864 ACCCAAGTAA
* *
34629874 TTAAAAAAAACTTAATTACTTTT
1 TTAAAAAAAAATTAATAACTTTT
*
34629897 TTAAAAAAAAATTGATAACTTT
1 TTAAAAAAAAATTAATAACTTT
34629919 ATTGCCGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (23 bp):
TTAAAAAAAAATTAATAACTTTT
Found at i:34648564 original size:23 final size:22
Alignment explanation
Indices: 34648520--34648568 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
34648510 AATAAAGTAT
34648520 TTGAGAGAATTGATGAATAGGA
1 TTGAGAGAATTGATGAATAGGA
34648542 TTGAGAGAATTAAGA-GAATAGGA
1 TTGAGAGAATT--GATGAATAGGA
34648565 TTGA
1 TTGA
34648569 ATGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 11 0.44
23 12 0.48
24 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTGATGAATAGGA
Found at i:34648661 original size:19 final size:18
Alignment explanation
Indices: 34648613--34648661 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
34648603 AAATTAACCA
34648613 TTGGAAAAATAAGTAATCG
1 TTGGAAAAA-AAGTAATCG
*
34648632 TT-GAAAGAAAAGGTTATCG
1 TTGGAAA-AAAA-GTAATCG
34648651 TTGGAAAAAAA
1 TTGGAAAAAAA
34648662 AAAGGTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.23
19 16 0.62
20 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.24
Consensus pattern (18 bp):
TTGGAAAAAAAGTAATCG
Found at i:34651895 original size:15 final size:16
Alignment explanation
Indices: 34651870--34651903 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34651860 TGAGAAGTTT
34651870 TTTTTTGTTAAAAAGG
1 TTTTTTGTTAAAAAGG
*
34651886 TTTTTT-TTAAGAAGG
1 TTTTTTGTTAAAAAGG
34651901 TTT
1 TTT
34651904 GGAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (16 bp):
TTTTTTGTTAAAAAGG
Found at i:34652920 original size:98 final size:98
Alignment explanation
Indices: 34652797--34652991 Score: 318
Period size: 98 Copynumber: 2.0 Consensus size: 98
34652787 AAAAATCATG
* *
34652797 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTAGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
*
34652862 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCCTTTAAAGTA
* * * *
34652895 AAGGAAATATTTCGATTTTGAGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
*
34652960 AAATCTTGGATGAGTGGATGTTCCTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCCTTTAAAGT
34652992 TTTATTGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCCTTTAAAGTA
Found at i:34653411 original size:7 final size:7
Alignment explanation
Indices: 34653399--34653429 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
34653389 AAGAGGAAGA
34653399 AATAAAG
1 AATAAAG
34653406 AATAAAG
1 AATAAAG
34653413 AATAAAG
1 AATAAAG
34653420 AATAAAG
1 AATAAAG
34653427 AAT
1 AAT
34653430 TTGAGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (7 bp):
AATAAAG
Found at i:34654921 original size:134 final size:134
Alignment explanation
Indices: 34654675--34654988 Score: 396
Period size: 134 Copynumber: 2.3 Consensus size: 134
34654665 AACTGTTCAT
* * * * * *
34654675 GATCGTAAATCAACAAGTTTTAATAATATCAGTCGTGATCATAATTCTGCAAACCGTTTGAATGA
1 GATCATAAATCAACAAGTTTTAATAATACCAGTCGTGATCGTAAATCAGCAAACCGTTTGAATAA
* * * * *
34654740 AGTTGTGGTCGTAAATCAGTAAACTCAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAG
66 AGTTGCGATCGTAAATCAGTAAACTCAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAAA
34654805 TTGC
131 TTGC
* * * * **
34654809 GATCTTAAATCAAAAAGCTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTTTTTGAATAA
1 GATCATAAATCAACAAGTTTTAATAATACCAGTCGTGATCGTAAATCAGCAAACCGTTTGAATAA
* * * *
34654874 AGTTGCGATTGTAAATTAG-AGAACTCAAAATGAACTGTTCATAATCGTAAATCAGTGAACTTAA
66 AGTTGCGATCGTAAATCAGTA-AACTCAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAA
*
34654938 ATTGT
130 ATTGC
* *
34654943 GATCATAAATCAACAAGTTTTAATAATACCAGTTGTGATTGTAAAT
1 GATCATAAATCAACAAGTTTTAATAATACCAGTCGTGATCGTAAAT
34654989 TGACGAACTA
Statistics
Matches: 153, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 1 0.01
134 152 0.99
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (134 bp):
GATCATAAATCAACAAGTTTTAATAATACCAGTCGTGATCGTAAATCAGCAAACCGTTTGAATAA
AGTTGCGATCGTAAATCAGTAAACTCAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAAA
TTGC
Found at i:34655020 original size:99 final size:99
Alignment explanation
Indices: 34654874--34655096 Score: 313
Period size: 99 Copynumber: 2.3 Consensus size: 99
34654864 TTTTGAATAA
* * * *
34654874 AGTTGCGATTGTAAATTAGAGAACTCAAAATGAACTGTTCATAATCGTAAATCAGTGAACTTAAA
1 AGTTGTGATTGTAAATTAGAGAACTAAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAAA
*
34654939 TTGTGATCATAAATCAACAAGTTTTAATAATACC
66 TTGTGATCATAAATCAACAAGCTTTAATAATACC
* * *
34654973 AGTTGTGATTGTAAATT-GACGAACTAAAAATAAATTGTTCGTGATCGTAAATCAATGAACTTAA
1 AGTTGTGATTGTAAATTAGA-GAACTAAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAA
* *
34655037 GTTGTGATTATAAATCAACAAGCTTTAATAATACC
65 ATTGTGATCATAAATCAACAAGCTTTAATAATACC
* * *
34655072 AGTCGTGATTGTAAATCAGTGAACT
1 AGTTGTGATTGTAAATTAGAGAACT
34655097 GTTTGAATGG
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
98 2 0.02
99 106 0.97
100 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (99 bp):
AGTTGTGATTGTAAATTAGAGAACTAAAAATAAACTGTTCATAATCGTAAATCAATGAACTTAAA
TTGTGATCATAAATCAACAAGCTTTAATAATACC
Found at i:34655054 original size:233 final size:232
Alignment explanation
Indices: 34654761--34655205 Score: 651
Period size: 233 Copynumber: 1.9 Consensus size: 232
34654751 TAAATCAGTA
*
34654761 AACTCAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAGTTGCGATCTTAAATCAAAAAG
1 AACTAAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAGTTGCGATCTTAAATCAAAAAG
* ** *
34654826 CTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTTTTTGAATAAAGTTGCGATTGTAAATT
66 CTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTGTTTGAATAAAGTTGCGACCGTAAATC
* * *
34654891 AGAGAACTCAAAATGAACTGTTCATAATCGTAAATCAGTGAACTTAAATTGTGATCA-TAAATCA
131 AGAGAACTCAAAATGAACTATTCATAATCGTAAATCAATGAACTT-AAGTGTGAT-ATTAAATCA
*
34654955 ACAAGTTTTAATAATACCAGTTGTGATTGTAAATTGACG
194 ACAAGCTTTAATAATACCAGTTGTGATTGTAAATTGACG
* * *
34654994 AACTAAAAATAAATTGTTCGTGATCGTAAATCAATGAACTTAAGTTGTGAT-TATAAATCAACAA
1 AACTAAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAGTTGCGATCT-TAAATCAAAAA
* * ** *
34655058 GCTTTAATAATACCAGTCGTGATTGTAAATCAGTGAACTGTTTGAATGGAGTTGTGACCGTAAAT
65 GCTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTGTTTGAATAAAGTTGCGACCGTAAAT
* * * * *
34655123 CAGTGAACTCAAAATGAATTATTCATGATCGTAAATCAATTAACTTAAGTGTGATATTAAATTAA
130 CAGAGAACTCAAAATGAACTATTCATAATCGTAAATCAATGAACTTAAGTGTGATATTAAATCAA
34655188 CAAGCTTTAATAATACCA
195 CAAGCTTTAATAATACCA
34655206 TTCATAATCA
Statistics
Matches: 188, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
231 1 0.01
232 33 0.18
233 154 0.82
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (232 bp):
AACTAAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAGTTGCGATCTTAAATCAAAAAG
CTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTGTTTGAATAAAGTTGCGACCGTAAATC
AGAGAACTCAAAATGAACTATTCATAATCGTAAATCAATGAACTTAAGTGTGATATTAAATCAAC
AAGCTTTAATAATACCAGTTGTGATTGTAAATTGACG
Found at i:34655152 original size:134 final size:134
Alignment explanation
Indices: 34654993--34655622 Score: 710
Period size: 134 Copynumber: 4.7 Consensus size: 134
34654983 GTAAATTGAC
* * * * * *
34654993 GAACTAAAAATAAATTGTTCGTGATCGTAAATCAATGAACTTAAGTTGTGATTATAAATCAACAA
1 GAACTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTATAAATCAGCAA
* ** *
34655058 GCTTTAATAATACCAGTCGTGATTGTAAATCAGTGAACTGTTTGAATGGAGTTGTGACCGTAAAT
66 GCTTTAATAATACCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTGCAATCGTAAAT
34655123 CAGT
131 CAGT
* * * * *
34655127 GAACTCAAAATGAATTATTCATGATCGTAAATCAATTAACTTAAG-TGTGA-TATTAAATTAACA
1 GAACTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTA-TAAATCAGCA
* * * ** *
34655190 AGCTTTAATAATACCATTCATAATCATAAATCAGCGAACTGTTTGAATGGAGTTGCAATTGTAAA
65 AGCTTTAATAATACCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTGCAATCGTAAA
*
34655255 TC-GA
130 TCAGT
* * * * ** *
34655259 CAAGCTCAAAATTAACTGTTAATGGTCGTAAATCAATAAACTTAAGTTGTGATCGTAAATCAGTA
1 GAA-CTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTATAAATCAGCA
* * * * * *
34655324 AGCTTTAATAATACTAGTTGTGATTGTAAATCAGTGAACTTTTTGAATGGAGTTGCGATTGTAAA
65 AGCTTTAATAATACCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTGCAATCGTAAA
** *
34655389 TTGGC
130 TCAGT
* * * * *
34655394 GAACTCAAAATGAACTGTTTATGATCATAAATTAATAAACCTAAGCTGTGA-TAGTAAATCAGCA
1 GAACTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTA-TAAATCAGCA
* * * * * *
34655458 AGCTTTAATAATTCTAGTCGTGATTGTAAATCAGCGAATTGTTTGAATGGAGATGCAATCATGAA
65 AGCTTTAATAATACCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTGCAATCGTAAA
34655523 TCAGT
130 TCAGT
* * * *
34655528 GAACTCATAATGAACTGGTCATGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAA
1 GAACTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTATAAATCAGCAA
* *
34655593 GCTTTAATAATACCAGTTGTGATCGTAAAT
66 GCTTTAATAATACCAGTCGTGATTGTAAAT
34655623 ACCCGAACTC
Statistics
Matches: 411, Mismatches: 78, Indels: 14
0.82 0.16 0.03
Matches are distributed among these distances:
132 5 0.01
133 107 0.26
134 295 0.72
135 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (134 bp):
GAACTCAAAATGAACTGTTCATGATCGTAAATCAATAAACTTAAGTTGTGATTATAAATCAGCAA
GCTTTAATAATACCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTGCAATCGTAAAT
CAGT
Found at i:34655353 original size:366 final size:367
Alignment explanation
Indices: 34654680--34655354 Score: 949
Period size: 366 Copynumber: 1.8 Consensus size: 367
34654670 TTCATGATCG
* * * *
34654680 TAAATCAACAAGTTTTAATAATATCAGTCGTGATCATAATTCTGCAAACCGTTTGAATGAAGTTG
1 TAAATCAACAAGCTTTAATAATACCAGTCGTGATCATAAATCAGCAAACCGTTTGAATGAAGTTG
** *
34654745 TGGTCGTAAATCAGTAAACTCAAAATAAATTGTTCATGATCGTAAATCAATGAACTTAAGTTGCG
66 TGACCGTAAATCAGTAAACTCAAAATAAATTATTCATGATCGTAAATCAATGAACTTAAGTTGCG
* * * * *
34654810 ATCTTAAATCAAAAAGCTTTAATAATACCAGTCGTGATCGTAAATCAGCGAACTTTTTGAATAAA
131 ATATTAAATCAAAAAGCTTTAATAATACCAGTCATAATCATAAATCAGCGAACTGTTTGAATAAA
* * * * *
34654875 GTTGCGATTGTAAATTAGAGAACTCAAAATGAACTGTTCATAATCGTAAATCAGTGAACTTAAAT
196 GTTGCAATTGTAAATTAGACAACTCAAAATGAACTGTTAATAATCGTAAATCAATAAACTTAAAT
*
34654940 TGTGATCATAAATCAACAAGTTTTAATAATACCAGTTGTGATTGTAAATTGACGAACTAAAAATA
261 TGTGATCATAAATCAACAAGCTTTAATAATACCAGTTGTGATTGTAAATTGACGAACTAAAAATA
34655005 AATTGTTCGTGATCGTAAATCAATGAACTTAAGTTGTGATTA
326 AATTGTTCGTGATCGTAAATCAATGAACTTAAGTTGTGATTA
** ** * *
34655047 TAAATCAACAAGCTTTAATAATACCAGTCGTGATTGTAAATCAGTGAACTGTTTGAATGGAGTTG
1 TAAATCAACAAGCTTTAATAATACCAGTCGTGATCATAAATCAGCAAACCGTTTGAATGAAGTTG
* * * *
34655112 TGACCGTAAATCAGTGAACTCAAAATGAATTATTCATGATCGTAAATCAATTAACTTAAG-TGTG
66 TGACCGTAAATCAGTAAACTCAAAATAAATTATTCATGATCGTAAATCAATGAACTTAAGTTGCG
* * * **
34655176 ATATTAAATTAACAAGCTTTAATAATACCATTCATAATCATAAATCAGCGAACTGTTTGAATGGA
131 ATATTAAATCAAAAAGCTTTAATAATACCAGTCATAATCATAAATCAGCGAACTGTTTGAATAAA
* * ** *
34655241 GTTGCAATTGTAAA-TCGACAAGCTCAAAATTAACTGTTAATGGTCGTAAATCAATAAACTTAAG
196 GTTGCAATTGTAAATTAGACAA-CTCAAAATGAACTGTTAATAATCGTAAATCAATAAACTTAAA
* ** *
34655305 TTGTGATCGTAAATCAGTAAGCTTTAATAATACTAGTTGTGATTGTAAAT
260 TTGTGATCATAAATCAACAAGCTTTAATAATACCAGTTGTGATTGTAAAT
34655355 CAGTGAACTT
Statistics
Matches: 265, Mismatches: 42, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
365 5 0.02
366 151 0.57
367 109 0.41
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (367 bp):
TAAATCAACAAGCTTTAATAATACCAGTCGTGATCATAAATCAGCAAACCGTTTGAATGAAGTTG
TGACCGTAAATCAGTAAACTCAAAATAAATTATTCATGATCGTAAATCAATGAACTTAAGTTGCG
ATATTAAATCAAAAAGCTTTAATAATACCAGTCATAATCATAAATCAGCGAACTGTTTGAATAAA
GTTGCAATTGTAAATTAGACAACTCAAAATGAACTGTTAATAATCGTAAATCAATAAACTTAAAT
TGTGATCATAAATCAACAAGCTTTAATAATACCAGTTGTGATTGTAAATTGACGAACTAAAAATA
AATTGTTCGTGATCGTAAATCAATGAACTTAAGTTGTGATTA
Found at i:34655578 original size:268 final size:267
Alignment explanation
Indices: 34655014--34655622 Score: 797
Period size: 268 Copynumber: 2.3 Consensus size: 267
34655004 AAATTGTTCG
* * *
34655014 TGATCGTAAATCAATGAACTTAAGTTGTGATTATAAATCAACAAGCTTTAATAATACCAGTCGTG
1 TGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAAGCTTTAATAATACCAGTTGTG
* * *
34655079 ATTGTAAATCAGTGAACTGTTTGAATGGAGTTGTGACCGTAAATCAGTGAACTCAAAATGAATTA
66 ATTGTAAATCAGTGAACTGTTTGAATGGAGTTGCGACCGTAAATCAGCGAACTCAAAATGAACTA
* * * * * *
34655144 TTCATGATCGTAAATCAATTAACTTAAGTGTGATATTAAATTAACAAGCTTTAATAATACCATTC
131 TTCATGATCATAAATCAATAAACCTAAGTGTGATAGTAAATCAACAAGCTTTAATAATACCAGTC
* ** *
34655209 ATAATCATAAATCAGCGAACTGTTTGAATGGAGTTGCAATTGTAAATCGACAAGCTCAAAATTAA
196 ATAATCATAAATCAGCGAACTGTTTGAATGGAGATGCAATCATAAATCGACAAGCTCAAAATGAA
*
34655274 CTGTTAA
261 CTGGTAA
* * * * *
34655281 TGGTCGTAAATCAATAAACTTAAGTTGTGATCGTAAATCAGTAAGCTTTAATAATACTAGTTGTG
1 TGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAAGCTTTAATAATACCAGTTGTG
* ** ** *
34655346 ATTGTAAATCAGTGAACTTTTTGAATGGAGTTGCGATTGTAAATTGGCGAACTCAAAATGAACTG
66 ATTGTAAATCAGTGAACTGTTTGAATGGAGTTGCGACCGTAAATCAGCGAACTCAAAATGAACTA
* * * * *
34655411 TTTATGATCATAAATTAATAAACCTAAGCTGTGATAGTAAATCAGCAAGCTTTAATAATTCTAGT
131 TTCATGATCATAAATCAATAAACCTAAG-TGTGATAGTAAATCAACAAGCTTTAATAATACCAGT
* * ** * * ** *
34655476 CGTGATTGTAAATCAGCGAATTGTTTGAATGGAGATGCAATCATGAATCAGTGAA-CTCATAATG
195 CATAATCATAAATCAGCGAACTGTTTGAATGGAGATGCAATCATAAATC-GACAAGCTCAAAATG
*
34655540 AACTGGTCA
259 AACTGGTAA
34655549 TGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAAGCTTTAATAATACCAGTTGTG
1 TGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAAGCTTTAATAATACCAGTTGTG
*
34655614 ATCGTAAAT
66 ATTGTAAAT
34655623 ACCCGAACTC
Statistics
Matches: 291, Mismatches: 49, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
267 136 0.47
268 152 0.52
269 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (267 bp):
TGATCGTAAATCAATGAACTTAAGTTGTGATTGTAAATCAGCAAGCTTTAATAATACCAGTTGTG
ATTGTAAATCAGTGAACTGTTTGAATGGAGTTGCGACCGTAAATCAGCGAACTCAAAATGAACTA
TTCATGATCATAAATCAATAAACCTAAGTGTGATAGTAAATCAACAAGCTTTAATAATACCAGTC
ATAATCATAAATCAGCGAACTGTTTGAATGGAGATGCAATCATAAATCGACAAGCTCAAAATGAA
CTGGTAA
Found at i:34665980 original size:41 final size:41
Alignment explanation
Indices: 34665923--34666031 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
34665913 TTTAACATAT
*
34665923 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
34665964 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
34666005 TCACTGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
34666032 AAGTCCGAAT
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:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:34666062 original size:41 final size:41
Alignment explanation
Indices: 34666017--34666163 Score: 217
Period size: 41 Copynumber: 3.6 Consensus size: 41
34666007 ACTGGCACTT
* * *
34666017 AGCCTGCTAGACTTAAAGTCCG-AATCATTTCACCGGTCTTA
1 AGCCTGCTAGACATAAAGTCTGAAAT-AATTCACCGGTCTTA
* *
34666058 AGCCTGCTAGACATAATGTCTGAAATAATTCACCGGTATTA
1 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGTCTTA
34666099 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGG-CATTA
1 AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGTC-TTA
34666140 AGCCTGCTAGACATAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTCTGAA
34666164 TACCACGGAT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
41 94 0.97
42 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGTCTTA
Found at i:34666380 original size:2 final size:2
Alignment explanation
Indices: 34666373--34666405 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34666363 ATTCGGGTAT
34666373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34666406 CAATAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34666837 original size:196 final size:193
Alignment explanation
Indices: 34666496--34666904 Score: 658
Period size: 196 Copynumber: 2.1 Consensus size: 193
34666486 AATTCAATAC
*
34666496 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACTCAGCATATAT
1 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAGC--A-AT
* * *
34666561 ATATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTATCTTATAAGACTCAAATATAC
63 ATATATTCAGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATAC
*
34666626 ATTGACTAACACATATATATATATACAATTCATATATTTTATTTTAACTTATAAAATTCAAAACA
128 ATTGACTAACAC----ATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACA
34666691 TATAT
189 TATAT
*
34666696 ATACATTTGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAGC-ATATA
1 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAGCAATATA
* * * *
34666760 TATTCAGCTAAATATATATCGAATTTCTGGAATTTATTTTAACTTATAAAACTTAAATATACATT
66 TATTCAGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATACATT
34666825 GACTAACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATAT
131 GACTAACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATAT
34666888 ATACATTCGGCTAACAT
1 ATACATTCGGCTAACAT
34666905 TTTTATACAA
Statistics
Matches: 198, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
192 69 0.35
196 72 0.36
200 57 0.29
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (193 bp):
ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAGCAATATA
TATTCAGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAATATACATT
GACTAACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATAT
Found at i:34667898 original size:13 final size:13
Alignment explanation
Indices: 34667880--34667904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34667870 ACAAACGATA
34667880 AAATTTTCACACG
1 AAATTTTCACACG
34667893 AAATTTTCACAC
1 AAATTTTCACAC
34667905 AAGTAAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:34677151 original size:84 final size:84
Alignment explanation
Indices: 34677006--34677311 Score: 290
Period size: 84 Copynumber: 3.6 Consensus size: 84
34676996 TCATTGTAAC
* * * *
34677006 AGGCTTAGTAGTGGTAGGA-AGCAGACTGGTTGCAAGAATCTGAGTGGTTGCATGCTAGTTTAGG
1 AGGCTTAGTAGTGGTAGGAGA-CAAACTGGTTGCAAGAATTTGAGTGGTTGCTTGCTGGTTTAGG
* *
34677070 GTCTTAATTATTGATGCATG
65 GCCTTAATTGTTGATGCATG
* * * * *
34677090 AGGCTTAGTAGTGGTAGGAGACAAACTGGTTGTAGGAGTTTGGGTGGTTGCTTACTGGTTTAGGG
1 AGGCTTAGTAGTGGTAGGAGACAAACTGGTTGCAAGAATTTGAGTGGTTGCTTGCTGGTTTAGGG
* * *
34677155 CCTTAGTGGTTGATGCAAG
66 CCTTAATTGTTGATGCATG
* * * * **** ** * * *
34677174 AAGCTTAATGGTGGTAGGAGGCCGGTTGGTTTTAGGAGTTTGAGTGATTGCTTGCTGGTTTAGGG
1 AGGCTTAGTAGTGGTAGGAGACAAACTGGTTGCAAGAATTTGAGTGGTTGCTTGCTGGTTTAGGG
* * *
34677239 CCTCAATTGTTGCTACATG
66 CCTTAATTGTTGATGCATG
* * **
34677258 AGGCTTAGTGGTGGTAGGAGGCAATTTGGTTGCAAGAATTTGAGTGGTTGCTTG
1 AGGCTTAGTAGTGGTAGGAGACAAACTGGTTGCAAGAATTTGAGTGGTTGCTTG
34677312 TTGGCTTGTT
Statistics
Matches: 179, Mismatches: 42, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
84 178 0.99
85 1 0.01
ACGTcount: A:0.21, C:0.10, G:0.36, T:0.33
Consensus pattern (84 bp):
AGGCTTAGTAGTGGTAGGAGACAAACTGGTTGCAAGAATTTGAGTGGTTGCTTGCTGGTTTAGGG
CCTTAATTGTTGATGCATG
Found at i:34678385 original size:20 final size:20
Alignment explanation
Indices: 34678360--34678398 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34678350 AAGTAGTGTT
34678360 TAAGACTAGTGCCAATTGCG
1 TAAGACTAGTGCCAATTGCG
34678380 TAAGACTAGTGCCAATTGC
1 TAAGACTAGTGCCAATTGC
34678399 TTTAGGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TAAGACTAGTGCCAATTGCG
Found at i:34679573 original size:13 final size:13
Alignment explanation
Indices: 34679555--34679585 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34679545 TAAAATTATA
*
34679555 AAAAAATATTTTT
1 AAAAAATATCTTT
34679568 AAAAAATATCTTT
1 AAAAAATATCTTT
34679581 AAAAA
1 AAAAA
34679586 CTTTTATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAAATATCTTT
Found at i:34679730 original size:37 final size:37
Alignment explanation
Indices: 34679666--34679781 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
34679656 TTACAAAACT
* * * * *
34679666 TTTGTAGAGAATCTTCACTCTTAATCTCCGTCTTTTC
1 TTTGCAGAGAATCTTTACTGTTGATCTCCATCTTTTC
*
34679703 TTTGCAGATAATCTTTACTGTTGATCTCCATCTTTTC
1 TTTGCAGAGAATCTTTACTGTTGATCTCCATCTTTTC
* * *
34679740 TTTGCATAGAATCTTTATTGTTGATCTCCATTTTTTC
1 TTTGCAGAGAATCTTTACTGTTGATCTCCATCTTTTC
34679777 TTTGC
1 TTTGC
34679782 TTGTCTTGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (37 bp):
TTTGCAGAGAATCTTTACTGTTGATCTCCATCTTTTC
Found at i:34679869 original size:37 final size:37
Alignment explanation
Indices: 34679783--34679869 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
34679773 TTTCTTTGCT
* *
34679783 TGTCTTGGCTTTGCAAGGAACCACCTCAGTTCATTTC
1 TGTCTTTGCTTTGCAAGGAACCACCTCAGTTCATCTC
* * * * *
34679820 TATCTTTACTTTGCAAGGAATCACCCTTA-TTTATCTC
1 TGTCTTTGCTTTGCAAGGAACCA-CCTCAGTTCATCTC
34679857 TGTCTTTGCTTTG
1 TGTCTTTGCTTTG
34679870 TTGCAAAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (37 bp):
TGTCTTTGCTTTGCAAGGAACCACCTCAGTTCATCTC
Found at i:34686029 original size:13 final size:13
Alignment explanation
Indices: 34685960--34686019 Score: 84
Period size: 13 Copynumber: 4.5 Consensus size: 13
34685950 TCATACATCT
34685960 ATTTCCATATAACC
1 ATTT-CATATAACC
*
34685974 AATTCATATAACC
1 ATTTCATATAACC
* *
34685987 ATTTCATGTAATC
1 ATTTCATATAACC
34686000 ATTTCATATAACC
1 ATTTCATATAACC
34686013 ATTTCAT
1 ATTTCAT
34686020 TCACACATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 37 0.93
14 3 0.08
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.40
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:34686029 original size:39 final size:41
Alignment explanation
Indices: 34685960--34686044 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 41
34685950 TCATACATCT
*
34685960 ATTTCCATATAACCAATTCATATAACCATTT-CATGTAATC
1 ATTTCCATATAACCAATTCATATAACCATTTACACGTAATC
* *
34686000 ATTT-CATATAACCATTTCAT-TCACACATTTAACACGTAATC
1 ATTTCCATATAACCAATTCATATAAC-CATTT-ACACGTAATC
34686041 ATTT
1 ATTT
34686045 TGTATATCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.08
39 20 0.51
40 4 0.10
41 12 0.31
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.39
Consensus pattern (41 bp):
ATTTCCATATAACCAATTCATATAACCATTTACACGTAATC
Found at i:34699472 original size:32 final size:32
Alignment explanation
Indices: 34699419--34699481 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
34699409 AAATTATAAC
* * *
34699419 TATTCAAGTGATATTACTTGAATAGTTATGTT
1 TATTCAAGAGATATTAATTGAATAATTATGTT
*
34699451 TATTTAAGAGATATTAATTGAATAATTATGT
1 TATTCAAGAGATATTAATTGAATAATTATGT
34699482 CTCTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (32 bp):
TATTCAAGAGATATTAATTGAATAATTATGTT
Found at i:34703041 original size:22 final size:22
Alignment explanation
Indices: 34703011--34703052 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
34703001 AACAGTTCAA
34703011 TATTAAAAAAATAAAA-AAAAGG
1 TATT-AAAAAATAAAATAAAAGG
*
34703033 TATTTAAAAATAAAATAAAA
1 TATTAAAAAATAAAATAAAA
34703053 TAATACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
TATTAAAAAATAAAATAAAAGG
Found at i:34706635 original size:23 final size:23
Alignment explanation
Indices: 34706607--34706654 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
34706597 TTCTTGATTA
34706607 ATGGCTC-CCCGAAGCTTCCCGAT
1 ATGGCTCGCCCGAA-CTTCCCGAT
**
34706630 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCCCGAACTTCCCGAT
34706653 AT
1 AT
34706655 ATGGCTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.27
Consensus pattern (23 bp):
ATGGCTCGCCCGAACTTCCCGAT
Found at i:34706683 original size:25 final size:24
Alignment explanation
Indices: 34706619--34706683 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
34706609 GGCTCCCCGA
* *
34706619 AGCTTCCCGAT-ATGGCTCGCTTG
1 AGCTTCCCGATAATGGCTAGCTGG
* *
34706642 AACTTCCCGATATATGGCTATCTGG
1 AGCTTCCCGATA-ATGGCTAGCTGG
34706667 AGCTTCCCGATTAATGG
1 AGCTTCCCGA-TAATGG
34706684 TTTTTTGGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.29
25 22 0.65
26 2 0.06
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (24 bp):
AGCTTCCCGATAATGGCTAGCTGG
Found at i:34706791 original size:25 final size:25
Alignment explanation
Indices: 34706740--34706803 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
34706730 AGCTCTTATG
**
34706740 AGCTTCCCGTTATACAGCTAGGGTA
1 AGCTTCCCGTTATACAGCTAGCATA
34706765 AGCTTCCCGTTATACAGCTCA-CATA
1 AGCTTCCCGTTATACAGCT-AGCATA
34706790 AGC-TCCCTGTTATA
1 AGCTTCCC-GTTATA
34706804 TGGCTCGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 4 0.11
25 30 0.86
26 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTATACAGCTAGCATA
Found at i:34707646 original size:19 final size:21
Alignment explanation
Indices: 34707612--34707657 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
34707602 ATGCATAAGA
34707612 CTTGGATTTGGCTTGGTTTAAATGT
1 CTTGGA-TTGGCTT-G--TAAATGT
34707637 CTTGGATTGGCTTGTAAATGT
1 CTTGGATTGGCTTGTAAATGT
34707658 GATAAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 1 0.05
24 7 0.33
25 6 0.29
ACGTcount: A:0.17, C:0.09, G:0.28, T:0.46
Consensus pattern (21 bp):
CTTGGATTGGCTTGTAAATGT
Found at i:34721780 original size:43 final size:42
Alignment explanation
Indices: 34721715--34721818 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 42
34721705 AAAAAAACAT
* *
34721715 AATAAAAT--AAAAT-AAAAGATATAAATTTAGAAAATAAAA
1 AATAAAATAAAAAATAAAAATATATAAATATAGAAAATAAAA
*
34721754 GAT-AAATAAAGAAACTAAAAATATATAAATATAGAAAATAAAA
1 AATAAAATAAA-AAA-TAAAAATATATAAATATAGAAAATAAAA
34721797 AATAAAATAAAAAATAAAAATA
1 AATAAAATAAAAAATAAAAATA
34721819 GGGCTTGGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
38 4 0.07
39 2 0.04
40 1 0.02
41 3 0.05
42 9 0.16
43 29 0.53
44 7 0.13
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (42 bp):
AATAAAATAAAAAATAAAAATATATAAATATAGAAAATAAAA
Found at i:34721800 original size:7 final size:7
Alignment explanation
Indices: 34721757--34721816 Score: 52
Period size: 7 Copynumber: 8.3 Consensus size: 7
34721747 AATAAAAGAT
34721757 AAATAAA
1 AAATAAA
34721764 GAAACTAAA
1 -AAA-TAAA
34721773 AATATATAA
1 AA-ATA-AA
* *
34721782 ATATAGA
1 AAATAAA
34721789 AAATAAA
1 AAATAAA
34721796 AAAT--A
1 AAATAAA
34721801 AAATAAA
1 AAATAAA
34721808 AAATAAA
1 AAATAAA
34721815 AA
1 AA
34721817 TAGGGCTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.12
7 20 0.47
8 10 0.23
9 8 0.19
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:34729787 original size:22 final size:22
Alignment explanation
Indices: 34729759--34729802 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34729749 GAAAGCCGTG
34729759 TTTGTAACTTTGGGGCACAAAT
1 TTTGTAACTTTGGGGCACAAAT
34729781 TTTGTAACTTTGGGGCACAAAT
1 TTTGTAACTTTGGGGCACAAAT
34729803 GAAGCGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
TTTGTAACTTTGGGGCACAAAT
Found at i:34731255 original size:14 final size:13
Alignment explanation
Indices: 34731225--34731270 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
34731215 AAATTATTAA
34731225 TTAAGTTTAATAAT
1 TTAA-TTTAATAAT
*
34731239 TTAATTTAATAGCT
1 TTAATTTAATA-AT
34731253 TTAATTTAA-AAT
1 TTAATTTAATAAT
34731265 TTAATT
1 TTAATT
34731271 ATAAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 8 0.28
14 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (13 bp):
TTAATTTAATAAT
Found at i:34731277 original size:13 final size:12
Alignment explanation
Indices: 34731225--34731277 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
34731215 AAATTATTAA
34731225 TTAAGTTTAATAAT
1 TTAA-TTTAA-AAT
*
34731239 TTAATTTAATAGCT
1 TTAATTTAA-A-AT
34731253 TTAATTTAAAAT
1 TTAATTTAAAAT
34731265 TTAATTATAAAAT
1 TTAATT-TAAAAT
34731278 AATCAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 7 0.20
13 14 0.40
14 14 0.40
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (12 bp):
TTAATTTAAAAT
Found at i:34731790 original size:18 final size:18
Alignment explanation
Indices: 34731743--34731791 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
34731733 AATTTTTATA
*
34731743 AAAATAATATAAAAATTAT
1 AAAATAA-ATAAAAATAAT
*
34731762 -AAATATGATAAAAATAAT
1 AAAATA-AATAAAAATAAT
34731780 AAAATAAATAAA
1 AAAATAAATAAA
34731792 TATTTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATAAATAAAAATAAT
Found at i:34736025 original size:10 final size:10
Alignment explanation
Indices: 34736010--34736046 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
34736000 GGTGCTGCCG
34736010 GAAAAAGAGA
1 GAAAAAGAGA
34736020 GAAAAAGAGA
1 GAAAAAGAGA
*
34736030 GAAAGAGAAGA
1 GAAAAAG-AGA
34736041 GAAAAA
1 GAAAAA
34736047 AAAGGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:34741543 original size:318 final size:318
Alignment explanation
Indices: 34741134--34741814 Score: 1120
Period size: 318 Copynumber: 2.2 Consensus size: 318
34741124 TGTTCGTATT
34741134 TTTCAGTGCATTATGTTTGAAATTTATTAATTTA----GTTTTTTAAATTAATTTAGTGTAAAAA
1 TTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAA
34741195 AAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTCCCCAAATTTTATTACTTTCAATAAAAATA
66 AAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTCCCCAAATTTTATTACTTTCAATAAAAATA
*
34741260 TATTATTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
131 TATTACTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
* * *
34741325 TTATTTTTTAATTTTTAAAAAAATTAGTAAAAGACTCTTACTTCGGCCATTTGTTCGTATTTTTT
196 TCATTTCTGAATTTTTAAAAAAATTAGTAAAAGACTCTTACTTCGGCCATTTGTTCGTA-TTTTT
* * *
34741390 TCTCTGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTGCATTA
260 TCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATGA
* *
34741449 TTTCAGTGCATTATTTTTGAATTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGT-AAAA
1 TTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAA
***** *
34741513 AAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTTTTGAATTTTATTACTTTTAATAAAAATA
66 AAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTCCCCAAATTTTATTACTTTCAATAAAAATA
34741578 TATTACTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
131 TATTACTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
* * *
34741643 TCATTTCTGAATTTTTAAAAAATTTAGTAAAATACTCTTATTTCGGCCATTTGTTCGTATTTTTT
196 TCATTTCTGAATTTTTAAAAAAATTAGTAAAAGACTCTTACTTCGGCCATTTGTTCGTATTTTTT
* *
34741708 CTCCGCTTTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATTATTTTACATGA
261 CTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATGA
* *
34741766 TTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAAT
1 TTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAAT
34741815 ATACCATTTT
Statistics
Matches: 338, Mismatches: 24, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
315 32 0.09
317 104 0.31
318 180 0.53
319 22 0.07
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (318 bp):
TTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAA
AAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTCCCCAAATTTTATTACTTTCAATAAAAATA
TATTACTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
TCATTTCTGAATTTTTAAAAAAATTAGTAAAAGACTCTTACTTCGGCCATTTGTTCGTATTTTTT
CTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATGA
Found at i:34741611 original size:160 final size:151
Alignment explanation
Indices: 34741130--34741815 Score: 509
Period size: 160 Copynumber: 4.4 Consensus size: 151
34741120 CATTTGTTCG
* * * *
34741130 TATT-TTTCAGTGCATTATGTTTGAAATTTATTAATTTA---GTTTTTTAAATTAATTTAGTGTA
1 TATTATTTCAGTACATTATTTTTGAATTTTATTAATTTATGTGTTTTTTAAATAAATTTA--GT-
* * ** *
34741191 AAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTCCCCAAATTTTATTACTTTCAATAAA
63 --AAAAAACCCTTATTCCGGCCATTTGCTCGTATT-TTTTTCCGAATTTTATTACTTT--A-AAA
* * *
34741256 AATAT-ATTATTTTTGTATTTTATTATTTTA
122 AATATCATAATTTCT-AATTTTATTATTTTA
* * *
34741286 TATTATTTCAGTACATT-TTGTTTGAAATATTTGTATTAA-TTATTTTTTAATTTTTAAA-AAAA
1 TATTATTTCAGTACATTATT-TTTG--A-ATTT-TATTAATTTA-TGTGT--TTTTTAAATAAAT
* * * *
34741348 TTAGTAAAAGACTCTTACTT-CGGCCATTTGTTCGTATTTTTTTCTCTGCATTTTATTACTTTAA
58 TTAGTAAAAAACCCTTA-TTCCGGCCATTTGCTCGTATTTTTTTC-C-GAATTTTATTACTTTAA
* *
34741412 AAAATATCATAATTTCTAATTTTATAATTTTG
120 AAAATATCATAATTTCTAATTTTATTATTTTA
* * *
34741444 CATTATTTCAGTGCATTATTTTTGAATTTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGT
1 TATTATTTCAGTACATTATTTTTGAATTTTATTAATTTA-TGTGTTTTTTAAATAAATTTA--GT
* * **
34741509 AAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTTTTGAATTTTATTACTTTTAATAAA
63 --AAAAAACCCTTATTCCGGCCATTTGCTCGTATT-TTTTTCCGAATTTTATTAC-TTT-A-AAA
* *
34741574 AATAT-ATTACTTT-TGTATTTTATTATTTTA
122 AATATCA-TAATTTCT-AATTTTATTATTTTA
* *
34741604 TATTATTTCAGTACATT-TTGTTTGAAATATTTGTATTAATCATT-TCTGAATTTTTAAA-AAAT
1 TATTATTTCAGTACATTATT-TTTG--A-ATTT-TATTAAT--TTATGTG-TTTTTTAAATAAAT
* * * * **
34741666 TTAGTAAAATACTCTTATTTCGGCCATTTGTTCGTATTTTTTCTCCGCTTTTTATTACTTTAAAA
58 TTAGTAAAAAACCCTTATTCCGGCCATTTGCTCGTATTTTTT-TCCGAATTTTATTACTTTAAAA
34741731 AATATCATAATTTCTAATTTTATTATTTTA
122 AATATCATAATTTCTAATTTTATTATTTTA
* * * * *
34741761 CATGATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATA
1 TATTATTTCAGTACATTATTTTTGAATTTTATTAATTTA-TGTGTTTTTTAAATA
34741816 TACCATTTTT
Statistics
Matches: 422, Mismatches: 63, Indels: 93
0.73 0.11 0.16
Matches are distributed among these distances:
151 2 0.00
152 8 0.02
153 19 0.05
154 14 0.03
155 11 0.03
156 8 0.02
157 73 0.17
158 71 0.17
159 32 0.08
160 114 0.27
161 21 0.05
162 3 0.01
163 6 0.01
164 17 0.04
165 13 0.03
166 10 0.02
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTATTTCAGTACATTATTTTTGAATTTTATTAATTTATGTGTTTTTTAAATAAATTTAGTAAA
AAACCCTTATTCCGGCCATTTGCTCGTATTTTTTTCCGAATTTTATTACTTTAAAAAATATCATA
ATTTCTAATTTTATTATTTTA
Found at i:34742203 original size:41 final size:41
Alignment explanation
Indices: 34742124--34742282 Score: 172
Period size: 41 Copynumber: 4.0 Consensus size: 41
34742114 AAAAATTACC
* *
34742124 TTTTTTTTTCCT-TCCTTCCCTCTTC-TT-CTTCTTCTTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTT-TTTCT
*
34742163 TTTTTTTTTCATCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
* *
34742204 TTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTC--TTTC-
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
* * *
34742242 --TTTCTTTCCTCTCCTTTCGTTTTCTTTCTTTCTTTCTTCT
1 TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTT-TTCT
34742282 T
1 T
34742283 CCTTCCCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
36 27 0.26
38 1 0.01
39 18 0.18
40 11 0.11
41 39 0.38
42 6 0.06
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (41 bp):
TTTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
Found at i:34742223 original size:31 final size:32
Alignment explanation
Indices: 34742188--34742286 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 32
34742178 CTTTCCTTTT
34742188 CTTTCCTTCTTTTTCTTTCTTT-TTTCTTCTC
1 CTTTCCTTCTTTTTCTTTCTTTCTTTCTTCTC
*
34742219 CTTTCCTT-TTCTTTCCTTCTTTCTTTCTT-TC
1 CTTTCCTTCTT-TTTCTTTCTTTCTTTCTTCTC
* *
34742250 CTCTCCTTTCGTTTTCTTTCTTTCTTTCTTCTTC
1 CTTTCC-TTCTTTTTCTTTCTTTCTTTCTTC-TC
34742284 CTT
1 CTT
34742287 CCCTCTCCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 2 0.04
31 25 0.44
32 25 0.44
33 1 0.02
34 4 0.07
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (32 bp):
CTTTCCTTCTTTTTCTTTCTTTCTTTCTTCTC
Found at i:34742255 original size:36 final size:35
Alignment explanation
Indices: 34742200--34742279 Score: 124
Period size: 36 Copynumber: 2.3 Consensus size: 35
34742190 TTCCTTCTTT
*
34742200 TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTCTTTTTTCCTCTCCTTTCCTTTTCTTTCC
* *
34742235 TTCTTTCTTTCTTTCCTCTCCTTTCGTTTTCTTTCT
1 TTCTTTCTTT-TTTCCTCTCCTTTCCTTTTCTTTCC
34742271 TTCTTTCTT
1 TTCTTTCTT
34742280 CTTCCTTCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 10 0.24
36 31 0.76
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (35 bp):
TTCTTTCTTTTTTCCTCTCCTTTCCTTTTCTTTCC
Found at i:34742266 original size:28 final size:28
Alignment explanation
Indices: 34742203--34742286 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
34742193 CTTCTTTTTC
* *
34742203 TTTCTTT-TTTCTTCTCCTTTCCTTTTCTT
1 TTTCTTTCTTTCTT-TCCTCTCC-TTTCGT
34742232 TCCTTCTTTCTTTCTTTCCTCTCCTTTCGT
1 T--TTCTTTCTTTCTTTCCTCTCCTTTCGT
*
34742262 TTTCTTTCTTTCTTTCTTCTTCCTT
1 TTTCTTTCTTTCTTTCCTC-TCCTT
34742287 CCCTCTCCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 17 0.35
29 6 0.12
30 6 0.12
31 13 0.27
32 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (28 bp):
TTTCTTTCTTTCTTTCCTCTCCTTTCGT
Found at i:34748728 original size:72 final size:73
Alignment explanation
Indices: 34748599--34748770 Score: 240
Period size: 73 Copynumber: 2.4 Consensus size: 73
34748589 AAAATAAGCA
** * * **
34748599 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACTTTGTTTTTC-GAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCTT
34748663 TCGGGGAT
66 TCGGGGAT
* *
34748671 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACATAACCCCAACGACTCCG-TTTTCTGAGCT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCT
*
34748735 TTTGGGGAT
65 TTCGGGGAT
34748744 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
34748771 TAATGCTCAG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 29 0.33
73 59 0.67
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (73 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAACCCCAACGACTCCGTTTTTCTGAGCTT
TCGGGGAT
Found at i:34748986 original size:114 final size:114
Alignment explanation
Indices: 34748670--34749436 Score: 1124
Period size: 114 Copynumber: 6.7 Consensus size: 114
34748660 CTTTCGGGGA
* * * *
34748670 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAAACATAACCCCAACGACTCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
34748735 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*** * ** ** * *
34748784 TTTAGCAATGTTTCTGAGAAAGCGCTTCAAAAAAAAAATAAGCCCAACGACGTCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* *
34748849 TTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGTC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
34748899 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
34748964 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCAGCTAATGTTCAGGTC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* **
34749013 TTTAGCGGCGTTTTTGAGAACGCGTTGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
34749078 TTCGGGGATTTAGCAGTGTTTTT-AGTAAAGCGCCGCTAATGCTCAGGTC
66 TTCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGC
* * * *
34749127 TTTATCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
34749192 TTCGGGGATTTAGCGGCGTTTCT-AGTAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGC
*
34749241 TTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
34749306 TTCGGGGATTTAACGGCGTTTTTAAGAAAGAGCCGCCAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
34749355 TTTAGCGGCGTTTTTGAGAATGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
34749420 TTCAGGGATGTAGCGGC
66 TTCGGGGATTTAGCGGC
34749437 AAAAGATTCT
Statistics
Matches: 588, Mismatches: 62, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
113 2 0.00
114 484 0.82
115 102 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:34749502 original size:41 final size:42
Alignment explanation
Indices: 34749445--34749525 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
34749435 GCAAAAGATT
*
34749445 CTGGGGGCTTTGGCGGCGTTTTTGAAAAAGCGCCG-TTAATG
1 CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAATG
* *
34749486 CTGGGGGCTTTAGCGGCGTTTTTGGAAAATCGCCGCTTAA
1 CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAA
34749526 AATATTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 32 0.89
42 4 0.11
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.30
Consensus pattern (42 bp):
CTGGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTTAATG
Found at i:34750089 original size:21 final size:20
Alignment explanation
Indices: 34750055--34750095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
34750045 TATGGATTTA
*
34750055 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
34750075 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
34750096 AAGGGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:34750900 original size:137 final size:137
Alignment explanation
Indices: 34750751--34751020 Score: 488
Period size: 137 Copynumber: 2.0 Consensus size: 137
34750741 AAATTTTAGC
* *
34750751 ATAGCAAAACGGCTTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTATAAAAAACG-
1 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATAAAAAACGT
34750815 CTGCAAAAGATAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATTTATAA
66 C-GCAAAAGATAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATTTATAA
34750880 AAAACAAA
130 AAAACAAA
*
34750888 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATGAAAAACGT
1 ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATAAAAAACGT
*
34750953 CGCAAAAGATAAGCAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
66 CGCAAAAGATAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
34751018 AAA
131 AAA
34751021 ATAAAAAAAA
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 127 0.99
138 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (137 bp):
ATAGCAAAACGGCATCATTTTGTTCAAAATGAAATAATATTTTGCGGAGTTTTTATAAAAAACGT
CGCAAAAGATAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
AAACAAA
Found at i:34751121 original size:109 final size:109
Alignment explanation
Indices: 34750985--34751197 Score: 340
Period size: 110 Copynumber: 2.0 Consensus size: 109
34750975 CGTTTTTTAT
34750985 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAA-ATAAAAAAAAAAATTTTAGCAT-GCAAA
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACA-AAAAAAAAAAATTTTAGCATAGCAAA
* *
34751048 ACGGCGTCATTTTGTTCAAAATGAAATAGCAGTGTTTTTATAAAA
65 ACGACGTCATTTTGTTCAAAATGAAATAGCAGCGTTTTTATAAAA
* **
34751093 AAAAACGCCGCAAAAAAATAAATCAATTTATAAAAAACAAAATAAAAATTTTTTAGCATAGCAAA
1 AAAAACGCCGC-AAAAAATAAATCAATTTATAAAAAACAAAAAAAAAAAATTTTAGCATAGCAAA
*
34751158 ACGACGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTA
65 ACGACGTCATTTTGTTCAAAATGAAATAGCAGCGTTTTTA
34751198 AAATAAATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
108 11 0.11
109 42 0.44
110 43 0.45
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.26
Consensus pattern (109 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAAAAAAAAAATTTTAGCATAGCAAAA
CGACGTCATTTTGTTCAAAATGAAATAGCAGCGTTTTTATAAAA
Found at i:34751202 original size:90 final size:90
Alignment explanation
Indices: 34751107--34751273 Score: 300
Period size: 90 Copynumber: 1.9 Consensus size: 90
34751097 ACGCCGCAAA
*
34751107 AAAATAAATCAATTTATAAAAAACAAAATAA-AAATTTTTTAGCATAGCAAAACGACGTCATTTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAGAAA-TTTTTAGAATAGCAAAACGACGTCATTTT
34751171 GTTCAAAATGAAATAGCGGCGTTTTT
65 GTTCAAAATGAAATAGCGGCGTTTTT
*
34751197 AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGGCGTCATTTTG
1 AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGACGTCATTTTG
34751262 TTCAAAATGAAA
66 TTCAAAATGAAA
34751274 AATTCTTTGT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
90 71 0.96
91 3 0.04
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (90 bp):
AAAATAAATCAATTTATAAAAAACAAAATAAGAAATTTTTAGAATAGCAAAACGACGTCATTTTG
TTCAAAATGAAATAGCGGCGTTTTT
Found at i:34754841 original size:43 final size:42
Alignment explanation
Indices: 34754740--34755044 Score: 344
Period size: 43 Copynumber: 7.2 Consensus size: 42
34754730 TGTTTTTAGT
* * * * *
34754740 GGCGTTTTTGCAAGAAGCGTCGCTAAAGGT-TTGTTCTATAGT
1 GGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
34754782 GGCGTTTTTGATAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
34754825 GGCGTTTGTAGAAAAAGCGCCACTAAAGGTCTTGATCTATAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
34754868 GGCGTTTGTGGGAAAATCACCGCTAAAGGTCTTGAGCTATAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
34754911 GGCGTTTGTTGTAAAA-CGCCGCTAAAGATCCTGATCTATAAC
1 GGCGTTTG-TGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
34754953 GGCGTTTATGGAAAAGCGCAGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
34754995 GGTGTTTGTGAGGAAAGCGCCGCTAAAGGTCTTGGTCTATAGC
1 GGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
34755038 GGCGTTT
1 GGCGTTT
34755045 ATTTCCAAAA
Statistics
Matches: 226, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
41 7 0.03
42 85 0.38
43 131 0.58
44 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Done.