Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 90 of 199
Found at i:25239284 original size:35 final size:35
Alignment explanation
Indices: 25239215--25239342 Score: 175
Period size: 35 Copynumber: 3.6 Consensus size: 35
25239205 ATTACATCGA
*
25239215 CAATCCAACCAAAACACACCAGATGCTCACAAGAGC
1 CAATCCAACCAAAACACACCA-ATGCTCATAAGAGC
* *
25239251 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* **
25239286 TAATCCTTCCAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* *
25239321 TAATCCAACCGAAACACACCAA
1 CAATCCAACCAAAACACACCAA
25239343 AACAGAGAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 64 0.77
36 19 0.23
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.13
Consensus pattern (35 bp):
CAATCCAACCAAAACACACCAATGCTCATAAGAGC
Found at i:25240683 original size:35 final size:35
Alignment explanation
Indices: 25240632--25240813 Score: 188
Period size: 35 Copynumber: 5.2 Consensus size: 35
25240622 GTTGTTACAG
* *
25240632 GTGTTGTGGCGAAATATTAAATGAGTGAAGTAATA
1 GTGTTGTGGCGGAATATTAAATGAATGAAGTAATA
* **
25240667 GTTTTGTGGCGGAATATTAAATGAATGAAGTAAGG
1 GTGTTGTGGCGGAATATTAAATGAATGAAGTAATA
*** *
25240702 GTGTTGTGGTAAAATATTAAAAT-AATGAAGTAACA
1 GTGTTGTGGCGGAATATT-AAATGAATGAAGTAATA
* *
25240737 GTGTTGTGGCGGGATATTAAATGAATGAAGT-ATCG
1 GTGTTGTGGCGGAATATTAAATGAATGAAGTAAT-A
* * * * *
25240772 GTGTTGTGGCGGTATGTTAAAAGAATGAAGTATTG
1 GTGTTGTGGCGGAATATTAAATGAATGAAGTAATA
25240807 GTGTTGT
1 GTGTTGT
25240814 AATGGGATGT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
34 5 0.04
35 112 0.92
36 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (35 bp):
GTGTTGTGGCGGAATATTAAATGAATGAAGTAATA
Found at i:25240792 original size:70 final size:70
Alignment explanation
Indices: 25240631--25240846 Score: 236
Period size: 70 Copynumber: 3.1 Consensus size: 70
25240621 GGTTGTTACA
* * *
25240631 GGTGTTGTGGCGAAATATT-AAATGAGTGAAGTAATAGTTTTGTGGCGGAATATTAAATGAATGA
1 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAATAGTGTTGTGGCGGGATATTAAATGAATGA
**
25240695 AGTAAG
65 AGTATC
** *
25240701 GGTGTTGTGGTAAAATATTAAAATAATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAATAGTGTTGTGGCGGGATATTAAATGAATGAA
25240766 GTATC
66 GTATC
** * * * * *** * * *
25240771 GGTGTTGTGGCGGTATGTTAAAAGAATGAAGTATTGGTGTTGTAATGGGATGTTAATTGAAAGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAATAGTGTTGTGGCGGGATATTAAATGAATGAA
25240836 GTATC
66 GTATC
25240841 GGTGTT
1 GGTGTT
25240847 CTAACGAAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
70 118 0.97
71 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAATAATGAAGTAATAGTGTTGTGGCGGGATATTAAATGAATGAA
GTATC
Found at i:25240824 original size:35 final size:35
Alignment explanation
Indices: 25240721--25240852 Score: 131
Period size: 35 Copynumber: 3.8 Consensus size: 35
25240711 TAAAATATTA
* * ** *
25240721 AAAT-AATGAAGTAACAGTGTTGTGGCGGGATATT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
** *
25240755 AAATGAATGAAGTATCGGTGTTGTGGCGGTATGTT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
* * *
25240790 AAAAGAATGAAGTATTGGTGTTGTAATGGGATGTT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
* * *
25240825 AATTGAAAGAAGTATCGGTGTTCTAACG
1 AAATGAATGAAGTATCGGTGTTGTAACG
25240853 AAATTTTAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 4 0.05
35 77 0.95
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (35 bp):
AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
Found at i:25250207 original size:357 final size:356
Alignment explanation
Indices: 25249490--25250139 Score: 857
Period size: 357 Copynumber: 1.8 Consensus size: 356
25249480 TTTTAATAAA
*
25249490 AGCAAATGATAAATTGACCACCTTGGAAGGAAGCCATATGGACACTTGACCTTCTAAGTTCTAAA
1 AGCAAATGATAAATTGACCACCTCGGAAGGAAG-C--ATGGACACTTGACC-TCTAAGTTCTAAA
* *
25249555 TAGGTGTATTGCCAGTAGAAGATTAGAGAGTAAATGCCATGAAGGAATTTAAATTCAAGTTTACA
62 TAGGTGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACA
* * * *
25249620 AATGAGAAAATAAGAAGCTGTAATCTTAGATTATTACATAAAATGGTAAATAGAAGATCAGCATT
127 AATGAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGAAAATAGAAGATCAGCATT
* *
25249685 CAATAAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAGTAGAATTTTGCATAGCATCAATGG
192 CAATAAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAATAGAATTTAGCATAGCATC-A--G
*
25249750 GTTATAATGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGT
254 GATATAATGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGT
** * *
25249815 AGGCTTCAATCATTGGATGAAGTGACAATTTGACATTT
319 ACACTTCAATCATTAGATGAAGCGACAATTTGACATTT
* * * *
25249853 AGCAAATGATAAATTGACCATCTCGGAATGAAG-ATGGACAGTTGA-C-CTAAGTTCTAACATTG
1 AGCAAATGATAAATTGACCACCTCGGAAGGAAGCATGGACACTTGACCTCTAAGTTCTAA-ATAG
* * * *
25249915 GTGTATTGCCAGTACAAGATTAGAGAGTAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGAT
65 GTGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACAAAT
** *
25249980 GAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGCAAACATTAGAAGATTGGGATT
130 GAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGG-AAA-A-TAGAAGATCAGCATT
* *
25250045 C-ATAAGGAATAAGTGCAAAGCTAG-ATGCTACTAGA-AATAATAGAATTTAGCATAGCA-C-GG
192 CAATAAGGAATAAGTACAAAGCTAGCA-GCTACCAGAGAA-AATAGAATTTAGCATAGCATCAGG
* * *
25250105 ATATAATGAAATTGCGGCCGCTTAAGGAGATAAGA
255 ATATAATGAAACTGCAGCCACTTAAGGAGATAAGA
25250140 CGTGGTTACA
Statistics
Matches: 255, Mismatches: 26, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
354 33 0.13
356 11 0.04
357 102 0.40
358 7 0.03
359 59 0.23
360 13 0.05
363 30 0.12
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (356 bp):
AGCAAATGATAAATTGACCACCTCGGAAGGAAGCATGGACACTTGACCTCTAAGTTCTAAATAGG
TGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACAAATG
AGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGAAAATAGAAGATCAGCATTCAAT
AAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAATAGAATTTAGCATAGCATCAGGATATAA
TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGTACACTTC
AATCATTAGATGAAGCGACAATTTGACATTT
Found at i:25251842 original size:60 final size:60
Alignment explanation
Indices: 25251730--25251905 Score: 164
Period size: 60 Copynumber: 2.9 Consensus size: 60
25251720 AAAAAATACG
* * * * * *
25251730 GGTACTTAATTGTGACAAAAAAATAAACTCAAGTACCTAATTAAACACTGAAGCT-AAACTTA
1 GGTACTTAAATGGGAC--AAAAA-AAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
* *
25251792 GGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAG-TCAAACTCA
1 GGTACTTAAATGGGACAAA-AAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
* * * *
25251852 AGTAC-CAAATTGGGAC-AAAAAAACTCAAATACCGAATTGAACATTGAAGC-CAAA
1 GGTACTTAAA-TGGGACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAA
25251906 TTCATGTATC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
58 31 0.32
59 6 0.06
60 43 0.45
61 2 0.02
62 14 0.15
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (60 bp):
GGTACTTAAATGGGACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
Found at i:25252664 original size:25 final size:25
Alignment explanation
Indices: 25252619--25252667 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
25252609 TTTGACAAGT
25252619 TTAGGTACAAATTGAGAAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAAGC
25252644 TTAGGTACCAAATT-AGGAAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAAA
25252668 ATGTCAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.20
Consensus pattern (25 bp):
TTAGGTACAAATTGAGAAAAAAAGC
Found at i:25257375 original size:88 final size:87
Alignment explanation
Indices: 25257226--25257671 Score: 421
Period size: 88 Copynumber: 5.1 Consensus size: 87
25257216 AGAGTAGATC
* * * *
25257226 GGTTAAAAATAACAGATCTTGCCTTCCTGTGCCGACAGCGAAGCAGATCGAAGACGCCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGAC-ACAGCCTTG
*
25257291 CCTCCCTGGGTTGCAGCGGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
* *
25257314 GGTTAAAAATAGCAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACATCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACA-CAGCCTTG
* * *
25257379 CCTCCCTAGGTTGCAGCAGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
* * *
25257402 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCAAAGTAGATCGAAGACTCCAGCCTTA
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGAC-ACAGCCTTG
* * * * * * *
25257467 TCTCCTTGAGTAGCTGTGGAGTA
65 CCTCCCTGGGTGGCAGCGGAGCA
* * ** * ** * * * * *
25257490 GGTTGAAAATTA-TAGATCTTATCTCCCTAAGCAG-TAGCGGAGTAGATTGAAGACACTAACCTT
1 GGTT-AAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACAC-AGCCTT
* *
25257553 GCCTCCCTTGGTGGCAG-GAGAACA
64 GCCTCCCTGGGTGGCAGCG-GAGCA
* * ** * *
25257577 GGTTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGACACTAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACAC-AGCCTTG
* * *
25257642 CCTCCCTCGGTGGTAGTGGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
25257665 GGTTAAA
1 GGTTAAA
25257672 GATTACATAT
Statistics
Matches: 288, Mismatches: 62, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
86 7 0.02
87 51 0.18
88 223 0.77
89 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (87 bp):
GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACACAGCCTTGC
CTCCCTGGGTGGCAGCGGAGCA
Found at i:25257425 original size:44 final size:42
Alignment explanation
Indices: 25257287--25257430 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 42
25257277 AGACGCCAGC
25257287 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGC-GAGCAGGTTAAAAATAGCAGAT
* * ** * ** * * * *
25257331 CTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACATCAG-C
1 CTTGCCTCCCTG-GTTG-CAGCG-AGCAGGTTAAAAATAGCAGAT
25257375 CTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGC-GAGCAGGTTAAAAATAGCAGAT
*
25257419 CTTGCCTTCCTG
1 CTTGCCTCCCTG
25257431 CGCCGACAGC
Statistics
Matches: 71, Mismatches: 23, Indels: 13
0.66 0.21 0.12
Matches are distributed among these distances:
43 19 0.27
44 34 0.48
45 18 0.25
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (42 bp):
CTTGCCTCCCTGGTTGCAGCGAGCAGGTTAAAAATAGCAGAT
Found at i:25257623 original size:175 final size:172
Alignment explanation
Indices: 25257226--25257713 Score: 528
Period size: 175 Copynumber: 2.8 Consensus size: 172
25257216 AGAGTAGATC
* * *
25257226 GGTTAAAAATAACAGATCTTGCCTTCCTGTGCCGACAGCGAAGCAGATCGAAGACGCCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGTGCCGACAGCGAAGTAGATCGAAGACACCAGCCTTG
* * * * * * ** * * *
25257291 CCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCGCCGACAGCGAA
66 CCT-CCTTGG-TGCTGTGGAGCAGGTTAAAATTA-CAGATCTTATCTCCCTAAGCAG-TAGCGGA
* * *
25257356 GCAGATCGAAGACATCAGCCTTGCCTCCCTAGGTTGCAGCAGAGCA
127 GCAGATCGAAGACATCAACCTTGCCTCCCTAGGTGGCAGCAGAACA
* * * *
25257402 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCAAAGTAGATCGAAGACTCCAGCCTTA
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGTGCCGACAGCGAAGTAGATCGAAGACACCAGCCTTG
* * *
25257467 TCTCCTTGAGTAGCTGTGGAGTAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGCGGAG
66 CCTCCTTG-GT-GCTGTGGAGCAGGTT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAG
* * * *
25257532 TAGATTGAAGACA-CTAACCTTGCCTCCCTTGGTGGCAGGAGAACA
128 CAGATCGAAGACATC-AACCTTGCCTCCCTAGGTGGCAGCAGAACA
* * * * * *
25257577 GGTTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGACACTAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGTGCCGACAGCGAAGTAGATCGAAGACACCAGCCTTG
* * * *
25257642 CCTCCCTCGGTGGTAGTGGAGCAGGTTAAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAG
66 CCT-CCTTGGTGCT-GTGGAGCAGGTTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGCGGAG
25257707 CAGATCG
128 CAGATCG
25257714 CATCCAGCCT
Statistics
Matches: 259, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
174 6 0.02
175 153 0.59
176 94 0.36
177 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (172 bp):
GGTTAAAAATAGCAGATCTTGCCTTCCTGTGCCGACAGCGAAGTAGATCGAAGACACCAGCCTTG
CCTCCTTGGTGCTGTGGAGCAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
ATCGAAGACATCAACCTTGCCTCCCTAGGTGGCAGCAGAACA
Found at i:25257773 original size:44 final size:44
Alignment explanation
Indices: 25257724--25257821 Score: 169
Period size: 44 Copynumber: 2.2 Consensus size: 44
25257714 CATCCAGCCT
* *
25257724 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
*
25257768 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCT
1 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
25257812 TATCTCCCTG
1 TATCTCCCTG
25257822 AAGTTACAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
Found at i:25257860 original size:44 final size:43
Alignment explanation
Indices: 25257807--25257914 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
25257797 GAAGATTGAG
* *
25257807 AATCTTATCTCCCTGAAGTTACAGTGGAGTAG-ATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTACAATGGAG-AGAATTAAAACCAA
* * *
25257850 TAATCCTATCTCCCTGAAGTTTCAATGGAGCGAATTAAAACCAA
1 -AATCTTATCTCCCTGAAGTTACAATGGAGAGAATTAAAACCAA
*
25257894 AGATCTTATCTCTCTGAAGTT
1 A-ATCTTATCTCCCTGAAGTT
25257915 GCAGATAGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.04
44 53 0.96
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTACAATGGAGAGAATTAAAACCAA
Found at i:25258037 original size:44 final size:43
Alignment explanation
Indices: 25257940--25258039 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
25257930 CATCTGGTCT
* * * *
25257940 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGAAAATCT
1 TATCTCCCTAAAATTGCAGTGGAGCAAACTGAG-AAGAAAATCC
* *
25257984 TATCCCCCTAAAATTGCAGTGGAGCAAACTGA-ATGAATAAGTCC
1 TATCTCCCTAAAATTGCAGTGGAGCAAACTGAGAAGAA-AA-TCC
25258028 TATCTCCCTAAA
1 TATCTCCCTAAA
25258040 GTTGTAGTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 41 0.87
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAAATTGCAGTGGAGCAAACTGAGAAGAAAATCC
Found at i:25259485 original size:14 final size:15
Alignment explanation
Indices: 25259451--25259485 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25259441 TAAATCCATT
25259451 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
25259466 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
25259480 TTTATA
1 TTTATA
25259486 CAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:25263899 original size:2 final size:2
Alignment explanation
Indices: 25263886--25263916 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25263876 CAAAGTTCCT
*
25263886 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25263917 TATCAACTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:25267952 original size:6 final size:6
Alignment explanation
Indices: 25267943--25267969 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25267933 AGAAGGACAA
25267943 GGACTC GGACTC GGACTC GGACTC GGA
1 GGACTC GGACTC GGACTC GGACTC GGA
25267970 TTCAAGCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.37, T:0.15
Consensus pattern (6 bp):
GGACTC
Found at i:25269873 original size:13 final size:13
Alignment explanation
Indices: 25269857--25269881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25269847 TTGAATTTTA
25269857 ATTTTTAAATTTC
1 ATTTTTAAATTTC
25269870 ATTTTTAAATTT
1 ATTTTTAAATTT
25269882 TAGGCTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTAAATTTC
Found at i:25280334 original size:2 final size:2
Alignment explanation
Indices: 25280327--25280383 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
25280317 TCTATTCCCT
25280327 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
25280369 TT TC TT TC TT TC TC T
1 TC TC TC TC TC TC TC T
25280384 GTAAAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:25290794 original size:30 final size:30
Alignment explanation
Indices: 25290748--25290930 Score: 241
Period size: 30 Copynumber: 6.2 Consensus size: 30
25290738 GTATATGTTT
* *
25290748 TATATATTTCCGAATTGATTTGTATATGAA
1 TATACATTGCCGAATTGATTTGTATATGAA
** *
25290778 TATACATTTTCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGAA
*
25290808 TATACATCGCCGAATTGATTTGTATATGGAA
1 TATACATTGCCGAATTGATTTGTATAT-GAA
*
25290839 -ATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGAA
*
25290868 TATACATTGCTGAATTGATTTGTATATGAA
1 TATACATTGCCGAATTGATTTGTATATGAA
*
25290898 TATACATTGTCG--TTGATTTGTATATG--
1 TATACATTGCCGAATTGATTTGTATATGAA
25290924 TATACAT
1 TATACAT
25290931 ATATATTGTT
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.05
28 14 0.10
29 2 0.01
30 113 0.82
31 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGAA
Found at i:25290834 original size:60 final size:60
Alignment explanation
Indices: 25290757--25290930 Score: 268
Period size: 60 Copynumber: 3.0 Consensus size: 60
25290747 TTATATATTT
*
25290757 CCGAATTGATTTGTATATGAATATACATTTTCGAATTGATTTGTATATGGATATACATCG
1 CCGAATTGATTTGTATATGAATATACATTGTCGAATTGATTTGTATATGGATATACATCG
* *
25290817 CCGAATTGATTTGTATATGGAA-ATACATTGCCGAATTGATTTGTATATGGATATACATTG
1 CCGAATTGATTTGTATAT-GAATATACATTGTCGAATTGATTTGTATATGGATATACATCG
*
25290877 CTGAATTGATTTGTATATGAATATACATTGTCG--TTGATTTGTATAT-G-TATACAT
1 CCGAATTGATTTGTATATGAATATACATTGTCGAATTGATTTGTATATGGATATACAT
25290931 ATATATTGTT
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
56 7 0.07
57 1 0.01
58 13 0.12
59 3 0.03
60 80 0.75
61 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (60 bp):
CCGAATTGATTTGTATATGAATATACATTGTCGAATTGATTTGTATATGGATATACATCG
Found at i:25290948 original size:34 final size:30
Alignment explanation
Indices: 25290759--25290951 Score: 214
Period size: 30 Copynumber: 6.4 Consensus size: 30
25290749 ATATATTTCC
25290759 GAATTGATTTGTATATGAATATACATT-TT
1 GAATTGATTTGTATATGAATATACATTGTT
* * **
25290788 CGAATTGATTTGTATATGGATATACATCGCC
1 -GAATTGATTTGTATATGAATATACATTGTT
**
25290819 GAATTGATTTGTATATGGAA-ATACATTGCC
1 GAATTGATTTGTATAT-GAATATACATTGTT
* *
25290849 GAATTGATTTGTATATGGATATACATTGCT
1 GAATTGATTTGTATATGAATATACATTGTT
*
25290879 GAATTGATTTGTATATGAATATACATTGTC
1 GAATTGATTTGTATATGAATATACATTGTT
*
25290909 G--TTGATTTGTATATGTATACATATATATTGTT
1 GAATTGATTTGTATATG---A-ATATACATTGTT
25290941 GAATTGATTTG
1 GAATTGATTTG
25290952 AGCATTGGAT
Statistics
Matches: 141, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
28 14 0.10
29 2 0.01
30 103 0.73
31 3 0.02
32 11 0.08
34 8 0.06
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (30 bp):
GAATTGATTTGTATATGAATATACATTGTT
Found at i:25291123 original size:41 final size:40
Alignment explanation
Indices: 25291072--25291151 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
25291062 AAGGTGTGAT
* * *
25291072 TTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATATGA
1 TTCGTATAAGACCATGCCTAGGACAGTGGCATCG-ATATGA
* *
25291113 TTCGTATAAGACCCTGCCTGGGACAGTGGCATCGATATG
1 TTCGTATAAGACCATGCCTAGGACAGTGGCATCGATATG
25291152 TGTTAACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
TTCGTATAAGACCATGCCTAGGACAGTGGCATCGATATGA
Found at i:25293480 original size:32 final size:32
Alignment explanation
Indices: 25293413--25293485 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
25293403 TAACAGTTGG
* * *
25293413 AACTGAATT-TTAAAATATAAAAAACTAGATG
1 AACTAAATTCTTAAAATATAAAAAACTAAATA
* *
25293444 AACTATATTCTTAAAATA-AATAAAATTAAATA
1 AACTAAATTCTTAAAATATAA-AAAACTAAATA
25293476 AACTAAATTC
1 AACTAAATTC
25293486 CAAATTTACG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 9 0.26
32 25 0.74
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (32 bp):
AACTAAATTCTTAAAATATAAAAAACTAAATA
Found at i:25295581 original size:19 final size:18
Alignment explanation
Indices: 25295557--25295616 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
25295547 TTTAACAAAA
25295557 TTTTTAAAACTTTATAAAT
1 TTTTTAAAACTTT-TAAAT
* *
25295576 TTTTTATAACTTTTATGAT
1 TTTTTAAAACTTTTA-AAT
*
25295595 TTTTTAATAATTTTTAAAT
1 TTTTTAA-AACTTTTAAAT
25295614 TTT
1 TTT
25295617 AGAAGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.06
19 25 0.74
20 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTAAAACTTTTAAAT
Found at i:25305141 original size:20 final size:21
Alignment explanation
Indices: 25305101--25305148 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
25305091 TGATGTTATC
*
25305101 TATTTTTTATAATACGTTTCA
1 TATTTTTTATAATACGATTCA
25305122 TATTTTTTATAATAC-ATTCA
1 TATTTTTTATAATACGATTCA
25305142 TATTTTT
1 TATTTTT
25305149 CCCTCTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTTATAATACGATTCA
Found at i:25306416 original size:14 final size:14
Alignment explanation
Indices: 25306394--25306442 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
25306384 CACGGATGGT
25306394 AATCAGAATATTAA
1 AATCAGAATATTAA
*
25306408 AATCTGAATATTATA
1 AATCAGAATATTA-A
25306423 TGAATCAGCAATATTAA
1 --AATCAG-AATATTAA
25306440 AAT
1 AAT
25306443 ATGTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
17 6 0.21
18 7 0.24
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (14 bp):
AATCAGAATATTAA
Found at i:25308557 original size:8 final size:8
Alignment explanation
Indices: 25308544--25308568 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25308534 TATTATTTAA
25308544 ATTTTGAT
1 ATTTTGAT
25308552 ATTTTGAT
1 ATTTTGAT
25308560 ATTTTGAT
1 ATTTTGAT
25308568 A
1 A
25308569 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTTTGAT
Found at i:25311032 original size:22 final size:21
Alignment explanation
Indices: 25311002--25311046 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
25310992 ACACCAAAAC
*
25311002 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCG-TTTTTT
*
25311024 AGGCCTTTAGTGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
25311045 AG
1 AG
25311047 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.11, C:0.16, G:0.29, T:0.44
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:25311290 original size:43 final size:43
Alignment explanation
Indices: 25311137--25311384 Score: 279
Period size: 43 Copynumber: 5.8 Consensus size: 43
25311127 TTTTTTTGAA
* ** * * * *
25311137 AAACGCCGCTAAAGCTCTTGAGCTATAGCGGCGC-TTTCCCAA
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTACCAC
* *
25311179 AAACGCCGCTATAGCTCAAGACCTTTAGCTGCACTTTT-CCAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTACCAC
* * * *
25311221 AAACG-CACTATAGCTCAAGACATTTAGCAGTGC-TTTACTCAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTAC-CAC
* *
25311263 AAACGCCGCTATAGCTGAAGAGCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTACCAC
* *
25311306 AAACGCCGCTATAGATCGAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
25311349 AAACGCCGCTATAGTTCGATACCTTTAGCGGCGCTT
1 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTT
25311385 CTCACAAAAA
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.02
41 24 0.14
42 43 0.24
43 101 0.57
44 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:25313095 original size:28 final size:28
Alignment explanation
Indices: 25313055--25313115 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
25313045 AAAACAAGAA
*
25313055 TCAAATTAGTTCAA-CTCCAAGTCCTTAG
1 TCAAATCAGTTCAACCT-CAAGTCCTTAG
* *
25313083 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTCCTTAG
25313111 TCAAA
1 TCAAA
25313116 AGAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTCCTTAG
Found at i:25316437 original size:18 final size:18
Alignment explanation
Indices: 25316414--25316453 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25316404 AAATTATAAT
*
25316414 TTTTATTTTTTTATTTCA
1 TTTTATTTTTGTATTTCA
*
25316432 TTTTATTTTTGTATTTTA
1 TTTTATTTTTGTATTTCA
25316450 TTTT
1 TTTT
25316454 TTCTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTGTATTTCA
Found at i:25316820 original size:22 final size:23
Alignment explanation
Indices: 25316794--25316846 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
25316784 ACCCTTGAAA
* * *
25316794 CCCTAAATCC-CTAGCTCTTAAC
1 CCCTAAACCCACTAACTCATAAC
25316816 CCCT-AACCCACTAACTCATAAC
1 CCCTAAACCCACTAACTCATAAC
25316838 CCCTAAACC
1 CCCTAAACC
25316847 TTAAATCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 18 0.69
23 4 0.15
ACGTcount: A:0.32, C:0.45, G:0.02, T:0.21
Consensus pattern (23 bp):
CCCTAAACCCACTAACTCATAAC
Found at i:25316865 original size:21 final size:20
Alignment explanation
Indices: 25316835--25316875 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
25316825 ACTAACTCAT
*
25316835 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
25316856 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
25316876 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:25317205 original size:33 final size:33
Alignment explanation
Indices: 25317158--25317248 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 33
25317148 TTTAACCCTT
* * * * *
25317158 AACCCTTAACCCCTAAACCTTAAATCCTAACCC
1 AACCCTGAATCCCTAAACCCTAAACCCCAACCC
* *
25317191 GACCCTGAATCCCTAATCCCTAAACCCCAACCC
1 AACCCTGAATCCCTAAACCCTAAACCCCAACCC
* *
25317224 AACCCAGAATCCCTAACCCCTAAAC
1 AACCCTGAATCCCTAAACCCTAAAC
25317249 ATTATTTAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.35, C:0.45, G:0.03, T:0.16
Consensus pattern (33 bp):
AACCCTGAATCCCTAAACCCTAAACCCCAACCC
Found at i:25318173 original size:41 final size:41
Alignment explanation
Indices: 25318111--25318310 Score: 319
Period size: 41 Copynumber: 4.9 Consensus size: 41
25318101 TTTTATTATT
*
25318111 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * ** *
25318152 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
25318193 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
25318234 ATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
25318275 ATTAGCAGCGCTTCTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
25318311 TCAAGAACTC
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 146 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:25318471 original size:40 final size:40
Alignment explanation
Indices: 25318347--25318481 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
25318337 TGGCTTAGGC
*
25318347 TTTTT-GCGGCGCTTTTTAGAAAA-CGCCACTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAATGCTCTA
** *
25318385 TTTTTAGCGGCGTTTTCGGAGAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
** * * *
25318425 CCTTTAGCAGCGTTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
*
25318465 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
25318482 TGTCCAAGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
38 13 0.17
39 18 0.23
40 47 0.60
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
Found at i:25324658 original size:27 final size:27
Alignment explanation
Indices: 25324628--25324725 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
25324618 ATAATTTATT
*
25324628 ACAAAAGCTTTTCTTTCATGA-TTCGCC
1 ACAAAAGCTTTTCTTTCAT-ATTTCACC
*
25324655 ACAAAGGCTTTTCTTTCATATTTCACC
1 ACAAAAGCTTTTCTTTCATATTTCACC
* *
25324682 ACAAAAGCTTTCCTTTCATATTTTACC
1 ACAAAAGCTTTTCTTTCATATTTCACC
* *
25324709 ACAAATGCTTTCCTTTC
1 ACAAAAGCTTTTCTTTC
25324726 TTGATGTGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 63 0.98
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (27 bp):
ACAAAAGCTTTTCTTTCATATTTCACC
Found at i:25329725 original size:47 final size:47
Alignment explanation
Indices: 25329647--25329895 Score: 355
Period size: 47 Copynumber: 5.4 Consensus size: 47
25329637 TTTTTTTCAC
* * * *
25329647 CAAAATTGGACAGCATAT--ATACAAAATTGGACTGCATTTATGCAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* *
25329692 CAAAATTTGACAACATATACATATATAATTGGACTGCATTTATACTT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* * * *
25329739 CAAAATTTAACAGCATAT--ATACAAAATTGGATTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
25329784 CAAAATTTGACAGCATATACATATATAATTGGACTGCA-TTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
25329830 CAAAATTTGACAGCATATACATATATAATTGTACTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
25329877 CAAAATTTAACAGCATATA
1 CAAAATTTGACAGCATATA
25329896 TACAAAATTG
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
45 56 0.31
46 45 0.25
47 80 0.44
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (47 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
Found at i:25329752 original size:92 final size:91
Alignment explanation
Indices: 25329647--25329895 Score: 381
Period size: 92 Copynumber: 2.7 Consensus size: 91
25329637 TTTTTTTCAC
* * *
25329647 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATGCATCAAAATTTGACAACATATAC
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
*
25329712 ATATATAATTGGACTGCATTTATACTT
66 ATATATAATTGGACTGCA-TTATACAT
* *
25329739 CAAAATTTAACAGCATATATACAAAATTGGATTGCATTTATACATCAAAATTTGACAGCATATAC
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
25329804 ATATATAATTGGACTGCATTATACAT
66 ATATATAATTGGACTGCATTATACAT
* * * *
25329830 CAAAATTTGACAGCATATACATATATAATTGTACTGCATTTATACATCAAAATTTAACAGCATAT
1 CAAAATTTGACAGCATAT--ATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATAT
25329895 A
64 A
25329896 TACAAAATTG
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
91 24 0.17
92 78 0.55
93 41 0.29
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (91 bp):
CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
ATATATAATTGGACTGCATTATACAT
Found at i:25329851 original size:138 final size:137
Alignment explanation
Indices: 25329647--25329905 Score: 430
Period size: 138 Copynumber: 1.9 Consensus size: 137
25329637 TTTTTTTCAC
*
25329647 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATGCATCAAAATTTGACAACATATAC
1 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAACATATAC
*
25329712 ATATATAATTGGACTGCATTTATACTTCAAAATTTAACAGCATATATACAAAATTGGATTGCATT
66 ATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTGGATTGCATT
25329777 TATACAT
131 TATACAT
* * * *
25329784 CAAAATTTGACAGCATATACATATATAATTGGACTGCA-TTATACATCAAAATTTGACAGCATAT
1 CAAAATTGGACAGCATAT--ATACAAAATTGGACTGCATTTATACATCAAAATTTGACAACATAT
*
25329848 ACATATATAATTGTACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTG
64 ACATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTG
25329906 AACAGCACAT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 17 0.15
138 80 0.71
139 16 0.14
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (137 bp):
CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAACATATAC
ATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTGGATTGCATT
TATACAT
Found at i:25330263 original size:14 final size:15
Alignment explanation
Indices: 25330239--25330268 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25330229 TATATACATT
25330239 ACCATATAAATACTA
1 ACCATATAAATACTA
25330254 ACCATA-AAATACTA
1 ACCATATAAATACTA
25330268 A
1 A
25330269 TTCGTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:25331005 original size:43 final size:43
Alignment explanation
Indices: 25330921--25331041 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 43
25330911 TCGTACAATT
* * *
25330921 CCAACGTCACAGACGTGGTCTTACA-TATAATCACATA-TCGATG
1 CCAACATCCCAGACGTGGTCTTACACGATAA-CACA-AGTCGATG
*
25330964 TC-ACTATCCCAGACAG-GGTCTTACACG-TAAACACAAGTCGATG
1 CCAAC-ATCCCAGAC-GTGGTCTTACACGAT-AACACAAGTCGATG
*
25331007 CCAACGTCCCAGACGTGGTCTTACACGATAACACA
1 CCAACATCCCAGACGTGGTCTTACACGATAACACA
25331042 TATCTAAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
42 4 0.06
43 54 0.84
44 6 0.09
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (43 bp):
CCAACATCCCAGACGTGGTCTTACACGATAACACAAGTCGATG
Found at i:25339823 original size:26 final size:26
Alignment explanation
Indices: 25339793--25339850 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
25339783 CCGGAGCTCT
* *
25339793 TGATTAAAAGCTGTTTCTGAGCTTCC
1 TGATTAAAAGCTCTTTCTGAACTTCC
* *
25339819 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGCTCTTTCTGAACTTCC
25339845 TGATTA
1 TGATTA
25339851 TGGCTCCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (26 bp):
TGATTAAAAGCTCTTTCTGAACTTCC
Found at i:25341992 original size:25 final size:25
Alignment explanation
Indices: 25341940--25342021 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
25341930 CCCTCTTGAG
* *
25341940 AGCCATATAACCGGAAGCTCATATA
1 AGCCATATAACAGGAAGCTCATACA
* * *
25341965 AGCCATGTAACAGGAAGCTTATCCA
1 AGCCATATAACAGGAAGCTCATACA
** *
25341990 AGCTGTATAACAGAAAGCTCATA-A
1 AGCCATATAACAGGAAGCTCATACA
25342014 GAGCCATA
1 -AGCCATA
25342022 ATTGAAAAGC
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATACA
Found at i:25342055 original size:24 final size:24
Alignment explanation
Indices: 25341939--25342057 Score: 69
Period size: 25 Copynumber: 4.8 Consensus size: 24
25341929 GCCCTCTTGA
*
25341939 GAGCCATATAACCGGAAGCTCATAT
1 GAGCCA-ATAACAGGAAGCTCATAT
* * * **
25341964 AAGCCATGTAACAGGAAGCTTATCC
1 GAGCCA-ATAACAGGAAGCTCATAT
* ** * *
25341989 AAGCTGTATAACAGAAAGCTCATAA
1 GAGC-CAATAACAGGAAGCTCATAT
** *
25342014 GAGCC-ATAATTGAAAAGCTCATAT
1 GAGCCAATAACAG-GAAGCTCATAT
25342038 GAGCCAATAACAGGAAGCTC
1 GAGCCAATAACAGGAAGCTC
25342058 CTGATAACCA
Statistics
Matches: 70, Mismatches: 21, Indels: 7
0.71 0.21 0.07
Matches are distributed among these distances:
23 5 0.07
24 21 0.30
25 44 0.63
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (24 bp):
GAGCCAATAACAGGAAGCTCATAT
Found at i:25349270 original size:24 final size:25
Alignment explanation
Indices: 25349243--25349303 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
25349233 GGATGCTCCG
* *
25349243 AAGAGCTAT-TAGCGGAAAGCTCGC
1 AAGAGCTATATAACGGAAAGCTCGA
* *
25349267 AAGAACTATATAACGGGAAGCTCGA
1 AAGAGCTATATAACGGAAAGCTCGA
*
25349292 AAGGGCTA-ATAA
1 AAGAGCTATATAA
25349304 GGGGATGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (25 bp):
AAGAGCTATATAACGGAAAGCTCGA
Found at i:25360750 original size:15 final size:17
Alignment explanation
Indices: 25360720--25360753 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
25360710 ATCATAGTTT
25360720 AATTAATTTAAAACTTA
1 AATTAATTTAAAACTTA
25360737 AATTAA-TT-AAACTTA
1 AATTAATTTAAAACTTA
25360752 AA
1 AA
25360754 ACCCTTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAATTTAAAACTTA
Found at i:25364803 original size:178 final size:177
Alignment explanation
Indices: 25364467--25364805 Score: 502
Period size: 178 Copynumber: 1.9 Consensus size: 177
25364457 AATTTGGCCG
25364467 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
1 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
** * * *
25364532 TGATAAAATGTTTTGTTTGCTTTTGTGTTGGTACGAGGTGTTCAGAGAACTAGAAATGTTAAGCT
66 TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
* * *
25364597 TGATCTTCAGTTTAGTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
131 TAATCTCCAGTTTACTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
* * *
25364644 TTAATCTTTCGACTTA-TATTTTTGTTGTGTGCTTTAGAAACAAATCCATTGCATATTCTGTGAC
1 TTAATCATTAGACTTATTA-TTTTGTTGTGTGCCTTAG-AACAAATCCATTGCATATTCTGTGAC
* *
25364708 TGTGATCAAATGTTTTGTTTGCTTTTGTGGCGGTTA-AAGGTGTTCAGAGAACCAGAAATGTAAA
64 TCTGATAAAATGTTTTGTTTGCTTTTGTGGCGG-TACAAGGTGTTCAGAGAACCAGAAATGTAAA
* *
25364772 GCTTAATCTCCTGTTTACTTTAGTTTATTTAGCT
128 GCTTAATCTCCAGTTTACTTTAGTATATTTAGCT
25364806 CTATATATTA
Statistics
Matches: 144, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
176 2 0.01
177 31 0.22
178 109 0.76
179 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (177 bp):
TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
TAATCTCCAGTTTACTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
Found at i:25370838 original size:5 final size:5
Alignment explanation
Indices: 25370823--25370858 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
25370813 ATTATGTGCA
*
25370823 AAATT ACATT AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT A
25370859 TGAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:25373445 original size:19 final size:18
Alignment explanation
Indices: 25373421--25373464 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25373411 AAGGAAAAAA
*
25373421 ATAAAAATCATAAAAATAT
1 ATAAAAATCACAAAAAT-T
*
25373440 ATAAAATTCACAAAAATT
1 ATAAAAATCACAAAAATT
25373458 A-AAAAAT
1 ATAAAAAT
25373465 ATTTACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 15 0.68
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAATCACAAAAATT
Found at i:25373564 original size:78 final size:76
Alignment explanation
Indices: 25373453--25373597 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 76
25373443 AAATTCACAA
* *
25373453 AAATTAAAAAATATTTACTTTTATTTTTTAAAATATAA-AAAATTGTCAAAAAAATTATTAAAAA
1 AAATTAAAAAATA-TTACTTTTATTTTTCAAAATA-AATAAAA-T-ACAAAAAAA-TATTAAAAA
25373517 CCTCAAGAATTTTAAG
61 CCTCAAGAATTTTAAG
* * *
25373533 AAATTAAAAAATA-TATTTTTATTTTTCAAAATAAATAAAATACAAAAAAATGTTAAAAACTTCA
1 AAATTAAAAAATATTACTTTTATTTTTCAAAATAAATAAAATACAAAAAAATATTAAAAACCTCA
25373597 A
66 A
25373598 AAAAATTGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
75 13 0.22
76 8 0.14
77 3 0.05
78 22 0.37
80 13 0.22
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (76 bp):
AAATTAAAAAATATTACTTTTATTTTTCAAAATAAATAAAATACAAAAAAATATTAAAAACCTCA
AGAATTTTAAG
Found at i:25376542 original size:14 final size:15
Alignment explanation
Indices: 25376515--25376560 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
25376505 ACTTTAAACT
*
25376515 AAATATTAAAATTAA
1 AAATGTTAAAATTAA
25376530 TAAAT-TT-AAATTAA
1 -AAATGTTAAAATTAA
25376544 AAATGTTAAAATTAA
1 AAATGTTAAAATTAA
25376559 AA
1 AA
25376561 TTGTGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.14
14 9 0.32
15 11 0.39
16 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATGTTAAAATTAA
Found at i:25376801 original size:21 final size:21
Alignment explanation
Indices: 25376771--25376829 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
25376761 AATTTAAACT
* **
25376771 AAATACTAAAATTAATAAATTT
1 AAATATTAAAATTAA-AAATAA
*
25376793 AAAT-TTAAAATTTAAAATAA
1 AAATATTAAAATTAAAAATAA
25376813 AAATATTAAAATTAAAA
1 AAATATTAAAATTAAAA
25376830 TTGTGTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.26
21 19 0.61
22 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATTAAAATTAAAAATAA
Found at i:25376810 original size:14 final size:13
Alignment explanation
Indices: 25376777--25376831 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
25376767 AACTAAATAC
25376777 TAAAATTAATAAATT
1 TAAAA-TAA-AAATT
* *
25376792 TAAATTTAAAATT
1 TAAAATAAAAATT
25376805 TAAAATAAAAATAT
1 TAAAATAAAAAT-T
*
25376819 TAAAATTAAAATT
1 TAAAATAAAAATT
25376832 GTGTTATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 16 0.47
14 14 0.41
15 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAAAAATT
Found at i:25376821 original size:27 final size:28
Alignment explanation
Indices: 25376777--25376831 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
25376767 AACTAAATAC
*
25376777 TAAAATTAATAAATTTAAATTTAAAATT
1 TAAAATTAATAAATTTAAAATTAAAATT
25376805 TAAAA-TAA-AAATATTAAAATTAAAATT
1 TAAAATTAATAAAT-TTAAAATTAAAATT
25376832 GTGTTATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 16 0.64
28 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAAATTAATAAATTTAAAATTAAAATT
Found at i:25378697 original size:4 final size:4
Alignment explanation
Indices: 25378680--25378731 Score: 86
Period size: 4 Copynumber: 13.0 Consensus size: 4
25378670 TAAAAATATA
* *
25378680 TATG TGTG TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25378728 TATG
1 TATG
25378732 ATGCGCTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:25380398 original size:26 final size:26
Alignment explanation
Indices: 25380318--25380398 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
25380308 TTCGATCATG
25380318 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
25380344 CGTGTA-T-CGAATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
25380369 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
25380395 TGTG
1 TGTG
25380399 AACCGAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:25380406 original size:51 final size:50
Alignment explanation
Indices: 25380208--25380406 Score: 229
Period size: 51 Copynumber: 3.9 Consensus size: 50
25380198 AGTGAAAGTG
* *
25380208 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGGT
* * * * * *
25380259 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGGT
* * ** *
25380308 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGGT
* *
25380359 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGAAT
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT
25380407 ATCATTGTTT
Statistics
Matches: 121, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 4 0.03
50 36 0.30
51 80 0.66
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGGT
Found at i:25384919 original size:14 final size:16
Alignment explanation
Indices: 25384895--25384926 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25384885 CATTTCACTA
25384895 TTATGTCCTTTT-TAT
1 TTATGTCCTTTTATAT
25384910 TTATGT-CTTTTATAT
1 TTATGTCCTTTTATAT
25384925 TT
1 TT
25384927 TACATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (16 bp):
TTATGTCCTTTTATAT
Found at i:25388152 original size:17 final size:17
Alignment explanation
Indices: 25388114--25388158 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
25388104 AATGAATGAA
*
25388114 AAATTGAGA-ACTAAAT
1 AAATTGAGAGAATAAAT
*
25388130 -AGTTGAGAGAATAAAT
1 AAATTGAGAGAATAAAT
25388146 AAATTGAGAGAAT
1 AAATTGAGAGAAT
25388159 TAGGAGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.24
Consensus pattern (17 bp):
AAATTGAGAGAATAAAT
Found at i:25388372 original size:23 final size:23
Alignment explanation
Indices: 25388319--25388373 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
25388309 AGAAACTTTT
* *
25388319 CTATTTCACTCTCTAGAATTAGA
1 CTATTTCCCCCTCTAGAATTAGA
25388342 CTATTTCCCCCTCTAGAATTAGA
1 CTATTTCCCCCTCTAGAATTAGA
25388365 CTATTTCCC
1 CTATTTCCC
25388374 TAAATATCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.38
Consensus pattern (23 bp):
CTATTTCCCCCTCTAGAATTAGA
Found at i:25389012 original size:19 final size:20
Alignment explanation
Indices: 25388990--25389027 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25388980 GCAAAAAAAT
*
25388990 TACTTAATACAT-AAAATAC
1 TACTTAAAACATGAAAATAC
25389009 TACTTAAAACATGAAAATA
1 TACTTAAAACATGAAAATA
25389028 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
TACTTAAAACATGAAAATAC
Found at i:25389025 original size:72 final size:71
Alignment explanation
Indices: 25388943--25389088 Score: 231
Period size: 72 Copynumber: 2.0 Consensus size: 71
25388933 TTAATACATC
* * *
25388943 AAACGTGAAAATGTTTTTAAAGTAATTAATAAAACTTGCAAAAAAATTACTTAATACATAAAATA
1 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTG--AAAAAATTACTTAATACATAAAATA
25389008 CTACTT-A
64 CTACTTCA
*
25389015 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATATT
1 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACT
25389080 ACTTCA
66 ACTTCA
25389086 AAA
1 AAA
25389089 AAATGTTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 30 0.43
71 4 0.06
72 35 0.51
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (71 bp):
AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACT
ACTTCA
Found at i:25391028 original size:20 final size:20
Alignment explanation
Indices: 25391003--25391040 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25390993 AGCAGGCTGA
25391003 GGGCCAGATCTCTAATTTGC
1 GGGCCAGATCTCTAATTTGC
25391023 GGGCCAGATCTCTAATTT
1 GGGCCAGATCTCTAATTT
25391041 ATTAGGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
GGGCCAGATCTCTAATTTGC
Found at i:25400072 original size:41 final size:41
Alignment explanation
Indices: 25400015--25400096 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
25400005 TTGTTTTCTG
25400015 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
25400056 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
25400097 AACAGAGCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (41 bp):
CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
Found at i:25406375 original size:16 final size:17
Alignment explanation
Indices: 25406332--25406392 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
25406322 ATTATTTTAT
*
25406332 TTTTATTTTTAATAT--
1 TTTTAATTTTAATATAA
25406347 TTTATAAATTTTAATATAA
1 TTT-T-AATTTTAATATAA
*
25406366 TTTT-ATTTTAATATAT
1 TTTTAATTTTAATATAA
25406382 TTTTAATTTTA
1 TTTTAATTTTA
25406393 CCAAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 3 0.08
16 16 0.41
17 16 0.41
18 1 0.03
19 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATTTTAATATAA
Found at i:25418696 original size:46 final size:45
Alignment explanation
Indices: 25418629--25418783 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 45
25418619 TTTGAGTACT
* *
25418629 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
25418675 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
25418711 TCTGATCAAGTG-AAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
25418756 TCTGATCAAGTGACAAAGTGATAAGTGG
1 TCTGATCAAGTGAAAAAGTGATAAGTGG
25418784 AATACGTATT
Statistics
Matches: 95, Mismatches: 3, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
35 11 0.12
36 17 0.18
38 3 0.03
39 1 0.01
40 3 0.03
41 2 0.02
42 2 0.02
43 3 0.03
45 17 0.18
46 36 0.38
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:25418733 original size:81 final size:82
Alignment explanation
Indices: 25418629--25418782 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 82
25418619 TTTGAGTACT
*
25418629 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
25418694 GATAAGTGCTATACTTA
66 GATAAGTGCTATACTTA
* *
25418711 TCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
25418775 GATAAGTG
66 GATAAGTG
25418783 GAATACGTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 57 0.83
82 12 0.17
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTATACTTA
Found at i:25418734 original size:35 final size:36
Alignment explanation
Indices: 25418665--25418736 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
25418655 GGTAGCTTTA
25418665 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
25418701 GCTATACTTATCTGATCAAGTG-AAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
25418736 G
1 G
25418737 GTAGCCTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 14 0.40
36 21 0.60
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:25424200 original size:41 final size:40
Alignment explanation
Indices: 25424155--25424245 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
25424145 AGCGGCATTT
*
25424155 TTAGCGGTG-TTTGGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-GAC-AAAAACGCCACTAAAAATCAAGCA
* * * **
25424196 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGATTGAGCA
1 TTAGCGGCGCTTTGACAAAAACGCCACTAAAAATCAAGCA
25424236 TTAGCGGCGC
1 TTAGCGGCGC
25424246 ATTTTGGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 30 0.70
41 10 0.23
42 3 0.07
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTTGACAAAAACGCCACTAAAAATCAAGCA
Found at i:25424226 original size:40 final size:38
Alignment explanation
Indices: 25424172--25424307 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 38
25424162 TGTTTGGACA
*
25424172 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTT-C
* * *
25424212 AAAAACGCCGCTAAAGATTGAGCATTAGCGGCGCATTTTG
1 AAAAACGCCGCTAAA-AATAAGCATTAGCGGCGC-TTTTC
* * * *
25424252 GAAAACGCTGCTAAAAATAAGCATTCGCAGCG-TTTTCC
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTT-C
*
25424290 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
25424308 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 23 0.29
40 41 0.53
41 6 0.08
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTC
Found at i:25424405 original size:41 final size:41
Alignment explanation
Indices: 25424348--25424583 Score: 314
Period size: 41 Copynumber: 5.8 Consensus size: 41
25424338 TTTGGGGTAC
** *
25424348 TTAGCGGCGTTTTTGAAAAATTGCCGCTAATGCT-TAGGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT-GGCCT
25424389 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
* * * * *
25424430 TTAGCGGCGTTTTTCAAAAAGTGCTGCTAATGCTCGGGGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
* * *
25424471 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTCTAGCCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
* *
25424512 TTAGAGGCGTTTTTGAAAAAGCGCCACTAATGCTCTGGCCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
*
25424553 TTAGCGGCGATTTT-AGAAAAGCGCCGCTAAT
1 TTAGCGGCGTTTTTGA-AAAAGCGCCGCTAAT
25424584 TATAAAATCT
Statistics
Matches: 171, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 169 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGCCT
Found at i:25424573 original size:123 final size:123
Alignment explanation
Indices: 25424348--25424583 Score: 350
Period size: 123 Copynumber: 1.9 Consensus size: 123
25424338 TTTGGGGTAC
* ** * * *
25424348 TTAGCGGCGTTTTTGAAAAATTGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTTAGGCCTTTAGAGGCGTTTTTGAAAAAGCGC
* * * *
25424413 CGCTAATGCTCTGGCCTTTAGCGGCGTTTTTCAAAAAGTGCTGCTAATGCTCGGGGCT
66 CACTAATGCTCTGGCCTTTAGCGGCGATTTTCAAAAAGCGCCGCTAATGCTCGGGGCT
25424471 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTCTA-GCCTTTAGAGGCGTTTTTGAAAAAGCG
1 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCT-TAGGCCTTTAGAGGCGTTTTTGAAAAAGCG
25424535 CCACTAATGCTCTGGCCTTTAGCGGCGATTTT-AGAAAAGCGCCGCTAAT
65 CCACTAATGCTCTGGCCTTTAGCGGCGATTTTCA-AAAAGCGCCGCTAAT
25424584 TATAAAATCT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 1 0.01
123 98 0.97
124 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (123 bp):
TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTTAGGCCTTTAGAGGCGTTTTTGAAAAAGCGC
CACTAATGCTCTGGCCTTTAGCGGCGATTTTCAAAAAGCGCCGCTAATGCTCGGGGCT
Found at i:25430042 original size:17 final size:17
Alignment explanation
Indices: 25429974--25430032 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
25429964 TAATCACATT
*
25429974 AATATTAAA-TTAATAA
1 AATATTAAATTTAATTA
*
25429990 AATATT--ATCTAGA-TA
1 AATATTAAATTTA-ATTA
*
25430005 AATATTAAATTTAATTT
1 AATATTAAATTTAATTA
25430022 AATATTAAATT
1 AATATTAAATT
25430033 CATTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 8 0.24
17 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AATATTAAATTTAATTA
Found at i:25432799 original size:49 final size:49
Alignment explanation
Indices: 25432746--25432865 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
25432736 TAACGATGAC
* * * *
25432746 TTTCACTATTTACATATTCTACCATCTCAGGTGGCTCGACATTGATGGT
1 TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
*
25432795 TTTCACTATTTGCATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
1 TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
* *
25432844 TTTTACTATTTTCATATTCTAC
1 TTTCACTATTTACATATTCTAC
25432866 TTTGGCTGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (49 bp):
TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
Found at i:25437194 original size:13 final size:13
Alignment explanation
Indices: 25437176--25437201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25437166 TGTTATGTTT
25437176 TAAACTAATTTAC
1 TAAACTAATTTAC
25437189 TAAACTAATTTAC
1 TAAACTAATTTAC
25437202 ATAAGAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAACTAATTTAC
Found at i:25453306 original size:71 final size:69
Alignment explanation
Indices: 25453208--25453382 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 69
25453198 TTTTCAAGGG
* *
25453208 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
25453272 GTTTT
65 GTTTT
** * *
25453277 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
25453342 TGTTTT
64 TGTTTT
** * *
25453348 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
25453383 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:25453503 original size:72 final size:71
Alignment explanation
Indices: 25453395--25453547 Score: 218
Period size: 72 Copynumber: 2.1 Consensus size: 71
25453385 TAATTTTTAT
** * *
25453395 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGT-ACGCTGAGGTATTTTCA
1 TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACGCTGAGGTATTTTCA
*
25453459 ATTTTTG
65 ATTTCTG
* *
25453466 TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTA
1 T-TTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCA
25453531 ATTTCTG
65 ATTTCTG
25453538 TTTTCAATTT
1 TTTTCAATTT
25453548 ACATTGTTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
71 12 0.17
72 60 0.83
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (71 bp):
TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
TTTCTG
Found at i:25453732 original size:140 final size:140
Alignment explanation
Indices: 25453480--25454107 Score: 1159
Period size: 140 Copynumber: 4.5 Consensus size: 140
25453470 TTAATTTCAA
*
25453480 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
25453545 TTTACATTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
25453610 TCAAAATCAG
131 TCAAAATCAG
25453620 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
25453685 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
25453750 TCAAAATCAG
131 TCAAAATCAG
*
25453760 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
25453825 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCCTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
25453890 TCAAAATCAG
131 TCAAAATCAG
25453900 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
25453965 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
25454030 TCAAAATCAG
131 TCAAAATCAG
25454040 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
25454104 TCAA
62 TCAA
25454108 AAAAAATTCA
Statistics
Matches: 475, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.00
140 444 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:25453963 original size:13 final size:13
Alignment explanation
Indices: 25453945--25453978 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
25453935 CGCTGAGGTA
*
25453945 TTTTCAATTTCTG
1 TTTTCAATTTATG
25453958 TTTTCAATTTATG
1 TTTTCAATTTATG
25453971 TTGTTCAA
1 TT-TTCAA
25453979 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:25454202 original size:72 final size:72
Alignment explanation
Indices: 25454027--25454250 Score: 290
Period size: 72 Copynumber: 3.0 Consensus size: 72
25454017 AATTTCTACT
* ** * * * *
25454027 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
25454090 TCAATTTCTG
63 TCAATTTCTG
25454100 TCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 T-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
*
25454165 TTTCAATTTATG
61 TTTCAATTTCTG
25454177 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
25454242 ATTTCTG
66 ATTTCTG
25454249 TT
1 TT
25454251 CAAAATGAGT
Statistics
Matches: 135, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
72 68 0.50
73 1 0.01
74 4 0.03
76 4 0.03
77 23 0.17
78 4 0.03
79 30 0.22
80 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:25454261 original size:49 final size:49
Alignment explanation
Indices: 25454204--25454299 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
25454194 ATATTGCGAG
*
25454204 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
25454253 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
25454300 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:25454347 original size:121 final size:121
Alignment explanation
Indices: 25454132--25454371 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
25454122 ATATTGCGAG
*
25454132 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
*
25454197 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
25454253 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
** *
25454318 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
25454372 GTCAAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:25454485 original size:75 final size:74
Alignment explanation
Indices: 25454253--25454918 Score: 691
Period size: 73 Copynumber: 8.7 Consensus size: 74
25454243 TTTCTGTTCA
*
25454253 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
25454316 TATTGCGAG
66 TATTGCGAG
** * *
25454325 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
25454390 TATTGCGAG
66 TATTGCGAG
* * *
25454399 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTCAAAAAAATCAACTC
25454464 ATATTGCGAG
65 ATATTGCGAG
* * *
25454474 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAAAATCAAC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC--AAAAAAATCAAC
*
25454539 TCCTATTGCGAG
63 TCATATTGCGAG
* * * *
25454551 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAGTTTCAATTTCTGTTCAATTTATGTTTTTCAAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT---TTCA-------AAAA
25454616 AATCAACTCATATTGCGAG
56 AATCAACTCATATTGCGAG
** * * * *
25454635 AGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTTAATTTCTGTTTTTC--AAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAAAAATCAACTC
25454698 ATATTGCGAG
65 ATATTGCGAG
** ** * * *
25454708 AGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATTTTTGTGTTTTAATTTATTTTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAA--TTTCTGTTTTCA---A------A
* *
25454772 AAAATTAACTCATATTACGAG
54 AAAATCAACTCATATTGCGAG
*
25454793 AAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTC--AAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTT-TCAAAAAAATCAACTC
25454856 ATATTGCGAG
65 ATATTGCGAG
** *
25454866 AGGTGAGTTGAGCCTCAA-AGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAA
1 AAATGAGTTGAGCCTCAAGA-CACGCTGAGGTAATTTCAATTTCTG-TTTTCAA
25454919 TTTATATTTT
Statistics
Matches: 509, Mismatches: 49, Indels: 69
0.81 0.08 0.11
Matches are distributed among these distances:
72 49 0.10
73 114 0.22
74 68 0.13
75 83 0.16
76 1 0.00
77 66 0.13
79 2 0.00
82 2 0.00
83 8 0.02
84 60 0.12
85 53 0.10
86 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
TATTGCGAG
Found at i:25454505 original size:270 final size:269
Alignment explanation
Indices: 25454027--25454515 Score: 779
Period size: 270 Copynumber: 1.8 Consensus size: 269
25454017 AATTTCTACT
* * *
25454027 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T-ACACGCTGAGGTAATTTC
* *
25454092 AATTTCTGTCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
64 AATTTCTGTCTGTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
*
25454157 TGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
129 TGAGGTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
25454222 GACACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAAT
194 GACACGCTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAAT
25454287 TTCAATTTCTG
259 TTCAATTTCTG
25454298 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTC
1 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTACACGCTGAGGTAATTTC
*
25454362 AATTTCTGT-TGTC-AAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
64 AATTTCTGTCTGTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
* *
25454424 TGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
129 TGAGGTAATTTCAATTTATGT-TTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
25454489 CAAGACATGCTGAGGTATTTTCAATTT
191 CAAGACACGCTGAGGTAATTTCAATTT
25454516 TTGTCTTTCA
Statistics
Matches: 201, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
267 59 0.29
268 11 0.05
269 3 0.01
270 85 0.42
271 9 0.04
272 32 0.16
273 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (269 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACACGCTGAGGTAATTTCAA
TTTCTGTCTGTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
AGGTAATTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
CACGCTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTG
Found at i:25454812 original size:158 final size:158
Alignment explanation
Indices: 25454452--25455488 Score: 980
Period size: 158 Copynumber: 6.5 Consensus size: 158
25454442 TGTCTTTCAA
** * * *
25454452 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * ** *
25454517 TGTCTTTCAAAAAAAAATCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
66 TGTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT
*
25454582 AGTTTCAATTTCTG--TTCAATTTATGTTTTTC
128 AATTTCAATTTCTGTTTTCAATTTA--TTTTTC
* *
25454613 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
** *
25454678 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-AT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
* *
25454741 TGTCAATTTTTGTGTTTTAATTTATTTTTC
131 T-TCAATTTCTGT-TTTCAATTTATTTTTC
* * ** *
25454771 AAAAATTAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
25454836 TGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-AGCACGTTGAGGTAA
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CACGCTGAGGTAA
25454899 TTTCAATTTCTGCTTTTCAATTTATATTTTTC
130 TTTCAATTTCTG-TTTTCAA-TT-TATTTTTC
* *
25454931 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAAT
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
* * ** * *
25454996 TTCTG-TTGTCAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACATGCTGAGG
63 TTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* *
25455060 TATTTTCAA-TT-T-TTGTC--------TTTC
127 TAATTTCAATTTCTGTTTTCAATTTATTTTTC
* *
25455081 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATT
25455145 TCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 TCTG--------------TTTTTC--AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
25455210 CAGGACACGCTAAGATAATTTCAATTTCTGTTGTCAA---A------
112 CAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAATTTATTTTTC
** * * *
25455248 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * * * * *
25455313 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
* *
25455378 TTCAATTTCTGCTTTTAAATTTATATTTTTGA
131 TTCAATTTCTG-TTTTCAA-TT-TATTTTT-C
* * * *
25455410 AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGTTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
25455475 TTG-TTGTCAAAAAA
65 CTGTTTTTCAAAAAA
25455489 AAATCAACTC
Statistics
Matches: 740, Mismatches: 82, Indels: 107
0.80 0.09 0.12
Matches are distributed among these distances:
148 56 0.08
149 64 0.09
150 15 0.02
152 5 0.01
155 1 0.00
156 2 0.00
157 55 0.07
158 133 0.18
159 6 0.01
160 20 0.03
161 65 0.09
162 25 0.03
163 119 0.16
164 59 0.08
165 50 0.07
166 59 0.08
167 1 0.00
168 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (158 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
TTCAATTTCTGTTTTCAATTTATTTTTC
Found at i:25455155 original size:74 final size:74
Alignment explanation
Indices: 25454926--25455156 Score: 313
Period size: 74 Copynumber: 3.1 Consensus size: 74
25454916 CAATTTATAT
*
25454926 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGATAAT
1 TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTAAT
25454990 TTCAATTTCTG
64 TTCAATTTCTG
* * ** * * * *
25455001 TTGTCAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
*
25455066 CAATTTTTG
66 CAATTTCTG
*
25455075 TCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATT
25455139 TCAATTTCTG
65 TCAATTTCTG
25455149 CTTTTCAA
1 -TTTTCAA
25455157 TTTATATTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
74 114 0.86
75 18 0.14
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (74 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTT
CAATTTCTG
Found at i:25455257 original size:75 final size:76
Alignment explanation
Indices: 25455167--25455388 Score: 281
Period size: 75 Copynumber: 2.9 Consensus size: 76
25455157 TTTATATTTT
*
25455167 TCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGATAATTTC
1 TCAAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTC
25455232 AATTTCTGT-TG
65 AATTTCTGTCTG
** * * * *
25455243 TCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
* *
25455308 ATTTTTGTCTT
66 ATTTCTGTCTG
* * * *
25455319 TC--AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTTC
1 TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGATAATTTC
25455381 AATTTCTG
65 AATTTCTG
25455389 CTTTTAAATT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
74 55 0.44
75 57 0.46
76 13 0.10
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (76 bp):
TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
ATTTCTGTCTG
Found at i:25455344 original size:240 final size:239
Alignment explanation
Indices: 25454771--25455498 Score: 1230
Period size: 238 Copynumber: 3.1 Consensus size: 239
25454761 TTTATTTTTC
* * * * *
25454771 AAAAATTAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
*
25454836 TGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAGCACGTTGAGGTAA
66 TGTCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
25454899 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
130 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
25454964 TGAGCCTCAGGACACGCTGAGATAATTTCAATTTCTGTTGTC-AA
195 TGAGCCTCAGGACACGCTGAGATAATTTCAATTTCTGTTGTCAAA
*
25455008 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
25455073 TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
66 TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
25455138 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
131 TTCAATTTCTGCTTTTCAATTTATATTTTTC-AAAAAAATTCAACTCATATTGCGAGAGGTGAGT
*
25455203 TGAGCCTCAGGACACGCTAAGATAATTTCAATTTCTGTTGTCAAA
195 TGAGCCTCAGGACACGCTGAGATAATTTCAATTTCTGTTGTCAAA
*
25455248 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
* * *
25455313 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAAT
66 TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
* *
25455378 TTCAATTTCTGCTTTTAAATTTATATTTTT-GAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
* * * * *
25455442 GAGCCTCAGGGCATGTTGAGGTAATTTCAATTTTTGTTGTCAAAA
196 GAGCCTCAGGACACGCTGAGATAATTTCAATTTCTGTTGTC-AAA
25455487 AAAAATCAACTC
1 AAAAATCAACTC
25455499 TGAGCCTTAG
Statistics
Matches: 465, Mismatches: 21, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
237 64 0.14
238 156 0.34
239 89 0.19
240 156 0.34
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (239 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGATAATTTCAATTTCTGTTGTCAAA
Found at i:25458674 original size:20 final size:21
Alignment explanation
Indices: 25458651--25458693 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
25458641 ATAATTTCTA
*
25458651 TAACTTTA-ATATGATTTTGT
1 TAACGTTAGATATGATTTTGT
25458671 TAACGTTAGATATGATTTTGT
1 TAACGTTAGATATGATTTTGT
25458692 TA
1 TA
25458694 CCTTGGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (21 bp):
TAACGTTAGATATGATTTTGT
Found at i:25461217 original size:15 final size:14
Alignment explanation
Indices: 25461193--25461264 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 14
25461183 TTTTATAAAT
25461193 TAAAAATAAT--TA
1 TAAAAATAATAATA
25461205 TAAAAATAATAATA
1 TAAAAATAATAATA
*
25461219 TTAAAATAAATAATA
1 TAAAAAT-AATAATA
*
25461234 TAGAAAATATTAAATA
1 TA-AAAATAAT-AATA
* *
25461250 TAGAAATAATTATA
1 TAAAAATAATAATA
25461264 T
1 T
25461265 TTGTAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
12 10 0.20
14 12 0.24
15 16 0.33
16 11 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAAAAATAATAATA
Found at i:25461222 original size:27 final size:27
Alignment explanation
Indices: 25461187--25461263 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 27
25461177 TTGGAATTTT
25461187 ATAAATTAAAAATAATTATA-AAAATA
1 ATAAATTAAAAATAATTATAGAAAATA
25461213 ATAATATT-AAAATAAATAATATAGAAAATA
1 ATAA-ATTAAAAAT-AAT--TATAGAAAATA
* *
25461243 TTAAATATAGAAATAATTATA
1 ATAAAT-TAAAAATAATTATA
25461264 TTTGTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
26 9 0.21
27 6 0.14
28 4 0.10
29 6 0.14
30 13 0.31
31 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAAATAATTATAGAAAATA
Found at i:25476221 original size:13 final size:13
Alignment explanation
Indices: 25476191--25476215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25476181 CAATTCATAC
25476191 AATATATAAAATG
1 AATATATAAAATG
25476204 AATATATAAAAT
1 AATATATAAAAT
25476216 ATATATCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATATAAAATG
Found at i:25477813 original size:16 final size:17
Alignment explanation
Indices: 25477783--25477815 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
25477773 GAAATGCTAG
25477783 GTGCGAGCTCAATTATA
1 GTGCGAGCTCAATTATA
25477800 GTGCGAGC-CAATTATA
1 GTGCGAGCTCAATTATA
25477816 TTTGTGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (17 bp):
GTGCGAGCTCAATTATA
Found at i:25478604 original size:17 final size:17
Alignment explanation
Indices: 25478565--25478607 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25478555 TTATGATGGA
* **
25478565 GTATGAACTATTATTTT
1 GTATGAATTATTATTCG
*
25478582 GCATGAATTATTATTCG
1 GTATGAATTATTATTCG
25478599 GTATGAATT
1 GTATGAATT
25478608 GATATTTCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (17 bp):
GTATGAATTATTATTCG
Found at i:25482695 original size:48 final size:48
Alignment explanation
Indices: 25482638--25482731 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
25482628 TATTGATGTC
25482638 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
1 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
*
25482686 AAAGATACGAAAACGGGGGTCACATTTAAAGTTAATGGACAACGCT
1 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCT
25482732 GGAAGCACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (48 bp):
AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
Found at i:25489539 original size:9 final size:9
Alignment explanation
Indices: 25489515--25489551 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
25489505 TGAGTTTTCG
25489515 AATTCGAAT
1 AATTCGAAT
* *
25489524 TACTCGAAT
1 AATTCGAAT
25489533 AATTCGAAT
1 AATTCGAAT
25489542 AATTCGAAT
1 AATTCGAAT
25489551 A
1 A
25489552 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25490588 original size:5 final size:5
Alignment explanation
Indices: 25490578--25490603 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25490568 CTCGAAAATT
25490578 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
25490604 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:25492244 original size:16 final size:16
Alignment explanation
Indices: 25492214--25492251 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
25492204 AGAAATTTAT
25492214 AAATAAAATATTCAAA
1 AAATAAAATATTCAAA
25492230 ACAATAAAA-ATTCAAA
1 A-AATAAAATATTCAAA
25492246 AAATAA
1 AAATAA
25492252 TGAATCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 9 0.43
17 7 0.33
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAATATTCAAA
Found at i:25506644 original size:16 final size:16
Alignment explanation
Indices: 25506623--25506654 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25506613 ATTTTTAATA
25506623 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
25506639 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
25506655 AAGTGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (16 bp):
TTATTCATGCACTAGC
Found at i:25509930 original size:16 final size:17
Alignment explanation
Indices: 25509909--25509962 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 17
25509899 GAAAATTTAT
25509909 ATTTTCCAT-TTTTCTA
1 ATTTTCCATCTTTTCTA
**
25509925 ATTTTCCATCCCTTC-A
1 ATTTTCCATCTTTTCTA
25509941 ATTTTCCATCTTTT-TA
1 ATTTTCCATCTTTTCTA
25509957 ATTTTC
1 ATTTTC
25509963 TTTCCATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTCCATCTTTTCTA
Found at i:25517882 original size:3 final size:3
Alignment explanation
Indices: 25517874--25517910 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
25517864 CTAGCTGGGT
* *
25517874 AGA AGA AGA AGA AGA GGA AGA AGA AGA AGA ATA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
25517911 ATGAAGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:25518856 original size:20 final size:20
Alignment explanation
Indices: 25518831--25518868 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25518821 TTGTTGTTTT
*
25518831 TTGAAAGTTGAGTGACTGAA
1 TTGAAAGTTGAATGACTGAA
25518851 TTGAAAGTTGAATGACTG
1 TTGAAAGTTGAATGACTG
25518869 TTGTGTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAAGTTGAATGACTGAA
Found at i:25519762 original size:23 final size:23
Alignment explanation
Indices: 25519734--25519827 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
25519724 ATGTGTGTAT
* *
25519734 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
* *
25519757 CTTTTCATCTTTAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
25519780 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
*
25519803 CTTTTCATATTCAAGTATCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
25519826 CT
1 CT
25519828 CTTCTAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:25524276 original size:23 final size:23
Alignment explanation
Indices: 25524241--25524334 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
25524231 ATGTGTGTAT
* * *
25524241 CTTTTAATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
25524264 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
25524287 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
25524310 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
25524333 CT
1 CT
25524335 CTTCTAACTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:25526565 original size:10 final size:10
Alignment explanation
Indices: 25526492--25526674 Score: 63
Period size: 10 Copynumber: 19.0 Consensus size: 10
25526482 ACAAAAAGTA
*
25526492 ATAATTTTAT
1 ATAATTTTTT
25526502 AT-A-TTTTT
1 ATAATTTTTT
25526510 A-AATATTTTT
1 ATAAT-TTTTT
*
25526520 ATAA-TTCTT
1 ATAATTTTTT
*
25526529 ATAAGTTTCTT
1 ATAA-TTTTTT
*
25526540 ATAA--TATT
1 ATAATTTTTT
*
25526548 CT-ATTTTTT
1 ATAATTTTTT
25526557 ATAATTTTTT
1 ATAATTTTTT
*
25526567 ATAA--CTTT
1 ATAATTTTTT
*
25526575 -TAATATTTT
1 ATAATTTTTT
*
25526584 AT-A-TTTAT
1 ATAATTTTTT
25526592 ATAATTTTCTTTT
1 ATAA--TT-TTTT
* *
25526605 TTATTTTTATT
1 ATAATTTT-TT
*
25526616 ATAATTTCTT
1 ATAATTTTTT
* *
25526626 AAAATTTCTT
1 ATAATTTTTT
*
25526636 A-ATTTTTTTT
1 ATA-ATTTTTT
25526646 ATAA-TTTTT
1 ATAATTTTTT
25526655 ATAA-TTTTT
1 ATAATTTTTT
25526664 AGTAATTTTTT
1 A-TAATTTTTT
25526675 GTTTTAAAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 43
0.68 0.10 0.22
Matches are distributed among these distances:
7 4 0.03
8 18 0.14
9 34 0.26
10 43 0.33
11 26 0.20
12 1 0.01
13 5 0.04
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:25526669 original size:19 final size:18
Alignment explanation
Indices: 25526492--25526764 Score: 124
Period size: 20 Copynumber: 14.9 Consensus size: 18
25526482 ACAAAAAGTA
25526492 ATAA-TTTTATATATTTTT
1 ATAATTTTTATA-ATTTTT
* *
25526510 AAATATTTTTATAATTCTT
1 ATA-ATTTTTATAATTTTT
*
25526529 ATAAGTTTCTTATAATATTCT
1 ATAA-TTT-TTATAAT-TTTT
25526550 AT--TTTTTATAATTTTTT
1 ATAATTTTTATAA-TTTTT
*
25526567 ATAA-CTTT-TAATATTTT
1 ATAATTTTTATAAT-TTTT
*
25526584 AT-ATTTATATAA-TTTT
1 ATAATTTTTATAATTTTT
* *
25526600 CT--TTTTTAT-TTTTATT
1 ATAATTTTTATAATTT-TT
*
25526616 ATAATTTCTTAAAATTTCTT
1 ATAATTT-TTATAATTT-TT
**
25526636 AATTTTTTTTATAATTTTT
1 -ATAATTTTTATAATTTTT
25526655 ATAATTTTTAGTAATTTTT
1 ATAATTTTTA-TAATTTTT
* *
25526674 -T-GTTTTAAAATAATTTTT
1 ATAATTTT--TATAATTTTT
* *
25526692 AGAATTTAATATAAATTTTT
1 ATAATTT-TTAT-AATTTTT
25526712 AATAA-TTTTATAATTTTCT
1 -ATAATTTTTATAATTTT-T
* * *
25526731 ATATCTTTTTAAAATTTTA
1 ATA-ATTTTTATAATTTTT
25526750 AT-ATTTTTATAATTT
1 ATAATTTTTATAATTT
25526765 GCTGACGTGG
Statistics
Matches: 192, Mismatches: 34, Indels: 59
0.67 0.12 0.21
Matches are distributed among these distances:
15 8 0.04
16 10 0.05
17 37 0.19
18 42 0.22
19 33 0.17
20 50 0.26
21 12 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (18 bp):
ATAATTTTTATAATTTTT
Found at i:25526673 original size:30 final size:30
Alignment explanation
Indices: 25526607--25526674 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
25526597 TTTCTTTTTT
25526607 ATTTTTATTATAATTTCTTAAAATTTCTTAA
1 ATTTTT-TTATAATTTCTTAAAATTTCTTAA
* *
25526638 TTTTTTTTATAATTT-TTATAATTT-TTAGTA
1 ATTTTTTTATAATTTCTTAAAATTTCTTA--A
25526668 ATTTTTT
1 ATTTTTT
25526675 GTTTTAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 3 0.09
29 8 0.25
30 16 0.50
31 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (30 bp):
ATTTTTTTATAATTTCTTAAAATTTCTTAA
Found at i:25527866 original size:189 final size:185
Alignment explanation
Indices: 25527550--25527891 Score: 542
Period size: 189 Copynumber: 1.8 Consensus size: 185
25527540 ATTTGGTGCT
* * *
25527550 TGTAGTAATTTCATTTAAGTACACTTATAATTTTTTCGAATAGGTTAATAAAATTATTCATGAAT
1 TGTAGTAATTTCATCTAAGTACACTTATAATTTTTTCGAACAGATTAATAAAATTATTCATGAAT
* * *
25527615 TACATTAATACTTTGTATATTGTCCTCACATGGTCTTTGGACGTAAAATATAATGGAAGCAAATG
66 TACATTAATACTTTGTATATTGTCCTCACATGGTCTTTGCACGCAAAATAAAATGGAAGCAAATG
*
25527680 TTGCTCATTGGTTGTTTAATGTTTAACTAATACTAAGCAGTATTATTACCTTAAG
131 TTGCTCATTGGTTGTCTAATGTTTAACTAATACTAAGCAGTATTATTACCTTAAG
25527735 TGTAGTAATTTCATCTAAGTACACTTATAATTTTTT-GAAACAGATTTATTAATAAAATTATTCA
1 TGTAGTAATTTCATCTAAGTACACTTATAATTTTTTCG-AACAG----ATTAATAAAATTATTCA
* * *
25527799 TGAATTACATTAATATTTTGTATATTGTCCTCACATGGTTTTTGCATGCAAAATAAAATGGAAGC
61 TGAATTACATTAATACTTTGTATATTGTCCTCACATGGTCTTTGCACGCAAAATAAAATGGAAGC
25527864 AAATGTTGCTCATTGGTTGTCTAATGTT
126 AAATGTTGCTCATTGGTTGTCTAATGTT
25527892 GCTCTTCAGC
Statistics
Matches: 142, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
184 1 0.01
185 39 0.27
189 102 0.72
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.42
Consensus pattern (185 bp):
TGTAGTAATTTCATCTAAGTACACTTATAATTTTTTCGAACAGATTAATAAAATTATTCATGAAT
TACATTAATACTTTGTATATTGTCCTCACATGGTCTTTGCACGCAAAATAAAATGGAAGCAAATG
TTGCTCATTGGTTGTCTAATGTTTAACTAATACTAAGCAGTATTATTACCTTAAG
Found at i:25532898 original size:17 final size:17
Alignment explanation
Indices: 25532876--25532912 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
25532866 ATTGAAAACC
*
25532876 CTTCTTGAAATTTCAAA
1 CTTCTTGAAATTTAAAA
25532893 CTTCTTGAAATTTAAAA
1 CTTCTTGAAATTTAAAA
25532910 CTT
1 CTT
25532913 GTACAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (17 bp):
CTTCTTGAAATTTAAAA
Found at i:25549621 original size:44 final size:46
Alignment explanation
Indices: 25549533--25549625 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
25549523 GGTTCGTTGT
25549533 AATGAAATAGAGGCGTAATAGGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATAGGTAATTCAATTGTTTGGTTGAATGG
* *
25549579 AATGGAATAGAGGCGTAAT-GGT-ATTC-TTATGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATAGGTAATTCAAT-TGTTTGGTTGAATGG
25549623 AAT
1 AAT
25549626 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.34
Consensus pattern (46 bp):
AATGAAATAGAGGCGTAATAGGTAATTCAATTGTTTGGTTGAATGG
Found at i:25549797 original size:27 final size:28
Alignment explanation
Indices: 25549780--25549930 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 28
25549770 AAAAATTATT
*
25549780 ATTAAATATAATTTAATAAAAATATATA
1 ATTAAATAAAATTTAATAAAAATATATA
* *
25549808 ATTTAATAAAATTCTTAATATTAAATAT-T-
1 ATTAAATAAAA-T-TTAATA-AAAATATATA
* * * *
25549837 CTTATAT-GAATTTACTAAAATCATAATATA
1 ATTAAATAAAATTTAATAAAA--AT-ATATA
* * * * *
25549867 TAATACTATAAAATATAATTTAAAATAATTATT
1 -ATTA-AATAAAATTTAA-TAAAAAT-A-TATA
*
25549900 ATTAAATATAATTTAATAAAAATATATA
1 ATTAAATAAAATTTAATAAAAATATATA
25549928 ATT
1 ATT
25549931 TAATCTAAAG
Statistics
Matches: 88, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
25 2 0.02
26 5 0.06
27 3 0.03
28 19 0.22
29 7 0.08
30 13 0.15
31 17 0.19
32 10 0.11
33 8 0.09
34 4 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
ATTAAATAAAATTTAATAAAAATATATA
Found at i:25550088 original size:27 final size:28
Alignment explanation
Indices: 25550058--25550116 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
25550048 TAAATATAGT
*
25550058 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
25550085 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
25550114 AAT
1 AAT
25550117 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:25553060 original size:26 final size:24
Alignment explanation
Indices: 25553030--25553092 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 24
25553020 TTTATCTCGC
25553030 ATGGGTTGCTGTTTTTTTTCTCTTTT
1 ATGGGTTG-TGTTTTTTTT-TCTTTT
*
25553056 CTGGGTTGT-TTTTTTTTTCTTTT
1 ATGGGTTGTGTTTTTTTTTCTTTT
25553079 ATGGGTTGTTGTTT
1 ATGGGTTG-TGTTT
25553093 CTGGTGAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 13 0.39
24 9 0.27
25 4 0.12
26 7 0.21
ACGTcount: A:0.03, C:0.08, G:0.22, T:0.67
Consensus pattern (24 bp):
ATGGGTTGTGTTTTTTTTTCTTTT
Found at i:25553245 original size:25 final size:25
Alignment explanation
Indices: 25553206--25553340 Score: 139
Period size: 25 Copynumber: 5.4 Consensus size: 25
25553196 GAACTTACAC
*
25553206 GGCGATGCAGCAGAGGACTGTCGAT
1 GGCGATGCAGAAGAGGACTGTCGAT
* *
25553231 GGCGATGTAGAAGAGGACTTTCGAT
1 GGCGATGCAGAAGAGGACTGTCGAT
* *
25553256 GGCAATGC-GACAGAGGACTTTCGAT
1 GGCGATGCAGA-AGAGGACTGTCGAT
* * * *
25553281 GACTATGCGGCAGAGGACTGTCGAT
1 GGCGATGCAGAAGAGGACTGTCGAT
*
25553306 GGTGATGCA-ACAGAGGACTGTCGAT
1 GGCGATGCAGA-AGAGGACTGTCGAT
*
25553331 GGCAATGCAG
1 GGCGATGCAG
25553341 TAGACGTTCA
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.02
25 87 0.97
26 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.19
Consensus pattern (25 bp):
GGCGATGCAGAAGAGGACTGTCGAT
Found at i:25553443 original size:33 final size:35
Alignment explanation
Indices: 25553377--25553470 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 35
25553367 TTGCGGATTT
* * *
25553377 TGATTTGAGGAAAAAAACTATGGGATTTGGGGAAA-
1 TGATTTGGGGAAAAAAA-TAAGGGGTTTGGGGAAAC
* *
25553412 T-TTTTAGGGG-AAAAAATAAGGGGTTTTGGGAAAC
1 TGATTT-GGGGAAAAAAATAAGGGGTTTGGGGAAAC
25553446 TGATTTGGGGATAAAAAATAAGGGG
1 TGATTTGGGGA-AAAAAATAAGGGG
25553471 AGCGGGTGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
33 14 0.29
34 14 0.29
35 7 0.15
36 13 0.27
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.27
Consensus pattern (35 bp):
TGATTTGGGGAAAAAAATAAGGGGTTTGGGGAAAC
Found at i:25553843 original size:33 final size:31
Alignment explanation
Indices: 25553773--25553844 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 31
25553763 GCTTTTTTAT
*
25553773 TACTATTTTCTTATTTTTTTAATTATTTTGT
1 TACTATTTTCTTATTTTTTTAATTATTTTGA
* * *
25553804 TCCTATTTTCTTGTTGTCTTTTCATTATTTTGA
1 TACTATTTTCTTATT-T-TTTTAATTATTTTGA
25553837 TACTATTT
1 TACTATTT
25553845 CACAATTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 13 0.38
32 1 0.03
33 20 0.59
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (31 bp):
TACTATTTTCTTATTTTTTTAATTATTTTGA
Found at i:25561755 original size:29 final size:29
Alignment explanation
Indices: 25561721--25561786 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
25561711 ATTTTGCAAG
25561721 AAAATTCTTTAATCAAATTCTCTAGTTGA
1 AAAATTCTTTAATCAAATTCTCTAGTTGA
25561750 AAAATTCTTTAATCAAATTCTCTAGTTGA
1 AAAATTCTTTAATCAAATTCTCTAGTTGA
*
25561779 ACAATTCT
1 AAAATTCT
25561787 CACAACCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (29 bp):
AAAATTCTTTAATCAAATTCTCTAGTTGA
Found at i:25564764 original size:21 final size:21
Alignment explanation
Indices: 25564740--25564780 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
25564730 AGAAGGAGTG
25564740 CGACAAGCTAAGAGTATGCCA
1 CGACAAGCTAAGAGTATGCCA
25564761 CGACAAGCTAAGAGTATGCC
1 CGACAAGCTAAGAGTATGCC
25564781 TCAGAAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (21 bp):
CGACAAGCTAAGAGTATGCCA
Found at i:25566775 original size:54 final size:54
Alignment explanation
Indices: 25566689--25566883 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
25566679 AGAGGTAAAT
* * * *
25566689 AAATGACCAAAATACCCCCATAGAGTATAATGACTAAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAGGGTA
** * *
25566743 AAATGATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCTCC-ATATGGTG
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACTAAAATACC-CCTATAGGGTA
* * *
25566797 AAATGATCGAAATACCCTCATAGGGTAAAAT-AATCAAAATACCCCTATAGGGTT
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACT-AAAATACCCCTATAGGGTA
*
25566851 AAATGATCGAAATACCCCTATAGGGTAAAATGA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGA
25566884 ATGTTATACC
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.02
54 115 0.95
55 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (54 bp):
AAATGATCGAAATACCCCCATAGGGTAAAATGACTAAAATACCCCTATAGGGTA
Done.