Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 51 of 161
Found at i:15712596 original size:84 final size:86
Alignment explanation
Indices: 15712499--15712675 Score: 340
Period size: 84 Copynumber: 2.1 Consensus size: 86
15712489 TAATATAAAT
15712499 AATAGTTTATACTTTAATCAATGGATTATCAAACCAAAATCAAATATAAAATAGGAGAAAAAATT
1 AATAGTTTATACTTTAATCAATGGATTATCAAACCAAAATCAAATATAAAATAGGAGAAAAAATT
15712564 TATCTTTCCAACACAA-AAAA
66 TATCTTTCCAACACAACAAAA
15712584 AA-AGTTTATACTTTAATCAATGGATTATCAAACCAAAATCAAATATAAAATAGGAGAAAAAATT
1 AATAGTTTATACTTTAATCAATGGATTATCAAACCAAAATCAAATATAAAATAGGAGAAAAAATT
15712648 TATCTTTCCAACACAACAAAA
66 TATCTTTCCAACACAACAAAA
15712669 AATAGTT
1 AATAGTT
15712676 AATAATATTT
Statistics
Matches: 90, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 78 0.87
85 8 0.09
86 4 0.04
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.28
Consensus pattern (86 bp):
AATAGTTTATACTTTAATCAATGGATTATCAAACCAAAATCAAATATAAAATAGGAGAAAAAATT
TATCTTTCCAACACAACAAAA
Found at i:15713988 original size:32 final size:33
Alignment explanation
Indices: 15713938--15713999 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
15713928 ACTTAAGAAA
*
15713938 CAAACATAAATATTAAAATAAT-AAATTTATTT
1 CAAACATAAATATAAAAATAATAAAATTTATTT
* *
15713970 CAAATATATATATAAAAATAATAAAATTTA
1 CAAACATAAATATAAAAATAATAAAATTTA
15714000 GATAACATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (33 bp):
CAAACATAAATATAAAAATAATAAAATTTATTT
Found at i:15716611 original size:41 final size:41
Alignment explanation
Indices: 15716560--15716658 Score: 132
Period size: 41 Copynumber: 2.4 Consensus size: 41
15716550 GTTAATTATT
15716560 CCCTAAATTGCACATA-TGTG-CCATGTTTTTGTACTTCGGTAC
1 CCCTAAATTGCACATACT-TGCCCATG--TTTGTACTTCGGTAC
* *
15716602 CCCT-GATTGCACATACTTGCCCCTGTTTGTACTTCGGTAC
1 CCCTAAATTGCACATACTTGCCCATGTTTGTACTTCGGTAC
15716642 CCCTAAATTGCACATAC
1 CCCTAAATTGCACATAC
15716659 ATTCCCTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
40 19 0.37
41 23 0.45
42 9 0.18
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (41 bp):
CCCTAAATTGCACATACTTGCCCATGTTTGTACTTCGGTAC
Found at i:15716644 original size:20 final size:20
Alignment explanation
Indices: 15716587--15716645 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
15716577 GTGCCATGTT
15716587 TTTGTACTTCGGTACCCCTG
1 TTTGTACTTCGGTACCCCTG
* * * * *
15716607 ATTGCACATAC-TTGCCCCTG
1 TTTGTAC-TTCGGTACCCCTG
15716627 TTTGTACTTCGGTACCCCT
1 TTTGTACTTCGGTACCCCT
15716646 AAATTGCACA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.14, C:0.32, G:0.17, T:0.37
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCCTG
Found at i:15716681 original size:41 final size:40
Alignment explanation
Indices: 15716596--15716681 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
15716586 TTTTGTACTT
* * ** *
15716596 CGGTACCCCTGATTGCACATACTTGCCCCTGTTTGTACTT
1 CGGTACCCCTAATTGCACATACTTGCCCCTATTTACACTC
*
15716636 CGGTACCCCTAAATTGCACATACATT-CCCTTATTTACACTC
1 CGGTACCCCT-AATTGCACATAC-TTGCCCCTATTTACACTC
15716677 CGGTA
1 CGGTA
15716682 ACTTTGAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 10 0.26
41 26 0.68
42 2 0.05
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.33
Consensus pattern (40 bp):
CGGTACCCCTAATTGCACATACTTGCCCCTATTTACACTC
Found at i:15718055 original size:94 final size:95
Alignment explanation
Indices: 15717900--15718102 Score: 221
Period size: 94 Copynumber: 2.1 Consensus size: 95
15717890 GAAGTGGTTA
* * ** *
15717900 TTCTATTAAACTTATCAAA-CAGTTTCCTCTTTGAGGTGTCAGCTTTAGATTATATTGAATTTTG
1 TTCTATTAAACTTA-GAAAGTAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATATTAAATTTTG
* ** * ***
15717964 GCTAAATGTTTTAAGAGGCTAGAAGTGTTTC
65 CCTAAATGCATTAAAAGGCTAGAAGCAATTC
* * * * *
15717995 TTCTA-TAAACTTAGAAAGTAGTTTTCTCTTTGGGGTGTCGGCTTTTGAAAATATTAAATTTTTC
1 TTCTATTAAACTTAGAAAGTAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATATTAAATTTTGC
*
15718059 CTAAGTGCATTAAAAGGCTAGAAGCAATTC
66 CTAAATGCATTAAAAGGCTAGAAGCAATTC
15718089 TTCTATTAAACTTA
1 TTCTATTAAACTTA
15718103 TCCAGCAACT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
93 3 0.03
94 72 0.82
95 13 0.15
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (95 bp):
TTCTATTAAACTTAGAAAGTAGTTTCCTCTTTGAGGTGTCAGCTTTAGAAAATATTAAATTTTGC
CTAAATGCATTAAAAGGCTAGAAGCAATTC
Found at i:15718266 original size:94 final size:94
Alignment explanation
Indices: 15718059--15718334 Score: 354
Period size: 94 Copynumber: 2.9 Consensus size: 94
15718049 TAAATTTTTC
* * * * * * *
15718059 CTAAGTGCATTAAAAGGCTAGAAGCAATTCTTCTATTAAACTTATCCAGCAACTTCCTATTTGGG
1 CTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCCT-CTTGAG
* * *
15718124 GTGTTTGTTTTGTAACTTTGTAAAATTTAG
65 GTGTCTGCTTTATAACTTTGTAAAATTTAG
* * * *
15718154 CTAAGTGCCTTAAGAGGCTAGAAGCGATTCTTTTATTGAACTTAGCGAGCAATTTCCTCTTGAGG
1 CTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCCTCTTGAGG
* **
15718219 TGTCTGCTTTATAACTTTTTTCAATTTAG
66 TGTCTGCTTTATAACTTTGTAAAATTTAG
* * * *
15718248 CTAAGTACCTTAAAAGGCTAGAAGCGATTCTTCTAGTAAACTTAACGAGCAGTTTCCTCTCGAGG
1 CTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCCTCTTGAGG
15718313 TGTCTGCTTTATAACTTTGTAA
66 TGTCTGCTTTATAACTTTGTAA
15718335 GCCTAAAAAG
Statistics
Matches: 154, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
94 104 0.68
95 50 0.32
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (94 bp):
CTAAGTGCCTTAAAAGGCTAGAAGCGATTCTTCTATTAAACTTAACGAGCAATTTCCTCTTGAGG
TGTCTGCTTTATAACTTTGTAAAATTTAG
Found at i:15719667 original size:8 final size:8
Alignment explanation
Indices: 15719654--15719696 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15719644 TTACCTTCTT
15719654 ATATATAC
1 ATATATAC
15719662 ATATATAC
1 ATATATAC
*
15719670 ATATATAT
1 ATATATAC
*
15719678 ATATACAC
1 ATATATAC
* *
15719686 TTATAAAC
1 ATATATAC
15719694 ATA
1 ATA
15719697 ATAAGCAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:15721705 original size:13 final size:11
Alignment explanation
Indices: 15721669--15721699 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15721659 CCGCTCGCAT
15721669 TAATTTTTATA
1 TAATTTTTATA
*
15721680 TTATTTTTATA
1 TAATTTTTATA
15721691 TAATTTTTA
1 TAATTTTTA
15721700 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:15721867 original size:30 final size:30
Alignment explanation
Indices: 15721821--15721883 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15721811 ACTTAACAAG
15721821 CAAACGCCTCTAAAATAATAAAAAAATTAA
1 CAAACGCCTCTAAAATAATAAAAAAATTAA
* * *
15721851 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAACGCCTCTAAAATAATAAAAAAATTAA
15721881 CAA
1 CAA
15721884 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAACGCCTCTAAAATAATAAAAAAATTAA
Found at i:15721980 original size:33 final size:33
Alignment explanation
Indices: 15721916--15721980 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
15721906 CCAAACAATA
* ** * * *
15721916 ACAACAAAATAGTAGCAACATAATAATAAAATG
1 ACAACAAAATAGAAAAAAAATAACAAGAAAATG
15721949 ACAACAAAATAGAAAAAAAATAACAAGAAAAT
1 ACAACAAAATAGAAAAAAAATAACAAGAAAAT
15721981 AACATTCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.14
Consensus pattern (33 bp):
ACAACAAAATAGAAAAAAAATAACAAGAAAATG
Found at i:15723737 original size:38 final size:38
Alignment explanation
Indices: 15723688--15723778 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
15723678 GCGAAATGAA
*
15723688 TATCTACTGGTCCTTTGAGGTGACACCATGTTGACAAT
1 TATCAACTGGTCCTTTGAGGTGACACCATGTTGACAAT
* * * **
15723726 TATCCACTGGTCCTTTGGGGTGACACCGTGTTGACGGT
1 TATCAACTGGTCCTTTGAGGTGACACCATGTTGACAAT
15723764 TATCAACTGGTCCTT
1 TATCAACTGGTCCTT
15723779 CGTAATAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (38 bp):
TATCAACTGGTCCTTTGAGGTGACACCATGTTGACAAT
Found at i:15727307 original size:19 final size:19
Alignment explanation
Indices: 15727283--15727420 Score: 95
Period size: 19 Copynumber: 6.8 Consensus size: 19
15727273 AATCTTCGAG
15727283 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
15727302 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
15727321 GATATATAGAAACATAATCTTCG--AG
1 G--ATAT-G-----TAATCTTAGATAT
15727346 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
15727365 G--ATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
15727382 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
15727404 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
15727421 GATTTAATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
17 24 0.26
19 30 0.32
20 3 0.03
21 4 0.04
22 10 0.11
23 14 0.15
25 2 0.02
27 7 0.07
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:15727365 original size:63 final size:61
Alignment explanation
Indices: 15727261--15727386 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 61
15727251 CCGGGATCAC
*
15727261 ATATGGAAACATAATCTTCGAGGATATGTAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATAGAAACATAATCTTCGAGGATATGTAATCTTAGATATG--ATGCAATCTTAGATATGAT
15727324 ATATAGAAACATAATCTTCGAGGATATGTAATCTTAGATATGATGCAATCTTAGATATGAT
1 ATATAGAAACATAATCTTCGAGGATATGTAATCTTAGATATGATGCAATCTTAGATATGAT
15727385 AT
1 AT
15727387 GTAATCTTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 21 0.34
63 41 0.66
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (61 bp):
ATATAGAAACATAATCTTCGAGGATATGTAATCTTAGATATGATGCAATCTTAGATATGAT
Found at i:15727401 original size:22 final size:23
Alignment explanation
Indices: 15727376--15727420 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15727366 ATGCAATCTT
15727376 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
15727398 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
15727421 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:15727402 original size:17 final size:17
Alignment explanation
Indices: 15727335--15727404 Score: 70
Period size: 17 Copynumber: 4.0 Consensus size: 17
15727325 TATAGAAACA
* *
15727335 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
15727352 TAATCTTAG-ATATGATG
1 TAATCTTAGAAGAT-ATG
*
15727369 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
15727388 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
15727405 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.05
17 25 0.58
18 1 0.02
19 13 0.30
20 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.37
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:15727430 original size:22 final size:23
Alignment explanation
Indices: 15727386--15727430 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15727376 AGATATGATA
*
15727386 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
15727409 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
15727431 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:15733112 original size:44 final size:45
Alignment explanation
Indices: 15732924--15733123 Score: 223
Period size: 44 Copynumber: 4.5 Consensus size: 45
15732914 AGTGAAAAAG
* *
15732924 CAGATCTTGTC-TCCATGTATTGG-CGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCC-TATATTGGTCGTGAAGTAGATCGAAGATAA
* * * *
15732968 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA
* * * *
15733011 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTATATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA
* *
15733055 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA
*
15733100 CAGATCCTGTCTTCCTATATTGGT
1 CAGATCTTGTCTTCCTATATTGGT
15733124 AGGAATTGGA
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
43 24 0.18
44 80 0.62
45 26 0.20
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA
Found at i:15733295 original size:132 final size:132
Alignment explanation
Indices: 15733137--15734156 Score: 1645
Period size: 132 Copynumber: 7.7 Consensus size: 132
15733127 AATTGGATCA
* *
15733137 AAGA-TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAACAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
*
15733201 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
*
15733266 CG
131 TG
15733268 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
* * * ** *
15733333 CCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCT--CTAAGCAACAATGGAGAAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
15733396 TG
131 TG
* *
15733398 AAGATTGTAGATTTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
* * * **
15733463 CCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGTCTTGCCTCCCTGAGCAGCAGCGGAAAAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
15733528 TG
131 TG
* * *
15733530 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
* *
15733595 CTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
15733660 TG
131 TG
* *
15733662 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
* * *
15733727 CCAAGATAGTGGGAAGTAGATTTAAGCCACCAAGCCTTTTCTCCCTGAGCAACAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
15733792 TG
131 TG
* *
15733794 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
*
15733859 CCAAGATAGTGGGAAACAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
66 CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
15733924 TG
131 TG
*
15733926 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGA-AAATCTTATCTT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-CGACAAATCTTATCTT
* *
15733990 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
65 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
15734055 TTG
130 TTG
* * *
15734058 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAAACGGA-AAATATTATCT
1 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGAC-GACAAATCTTATCT
*
15734122 TTCCAAGATTGTGGGAAGCAGATTTAAGCCACCAA
64 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
15734157 ATCCTATCTC
Statistics
Matches: 831, Mismatches: 52, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
130 119 0.14
131 4 0.00
132 658 0.79
133 50 0.06
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGT
TG
Found at i:15733326 original size:44 final size:44
Alignment explanation
Indices: 15733146--15734099 Score: 234
Period size: 44 Copynumber: 21.7 Consensus size: 44
15733136 AAAGATGTAG
* *
15733146 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
* * *
15733190 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAA
** * * * ** * * * * * *
15733234 GCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTCGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
**
15733278 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
* * *
15733322 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACAA
* * ** * * * * * *
15733365 AGCCTTGTCT--CTAAGCAACAATGGAGAAGGTTGAAGATTG-TAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
* * **
15733408 ATTTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
* * *
15733452 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACAA
** * * * ** * * * *
15733495 AGTCTTGCCTCCCTGAGCAGCAGCGGAAAAGGTTGAAGATTG-TAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
* * *
15733540 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
** * *
15733584 ATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAA
** * * ** * * * * * *
15733628 GCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
* *
15733672 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
* * * *
15733716 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAA
** * * ** * * * * * *
15733760 GCCTTTTCTCCCTGAGCAACAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
** * *
15733804 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
* * * *
15733848 ATCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGA-CAA
** * * * * * * * * *
15733892 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
** *
15733936 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CGACAA
* * *
15733980 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACAA
* * * * * * * ** * *
15734023 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTATAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
15734068 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
15734100 CAAAAAACGG
Statistics
Matches: 623, Mismatches: 218, Indels: 138
0.64 0.22 0.14
Matches are distributed among these distances:
41 1 0.00
42 46 0.07
43 67 0.11
44 458 0.74
45 39 0.06
46 12 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAA
Found at i:15734622 original size:22 final size:23
Alignment explanation
Indices: 15734597--15734641 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15734587 ATGCAATCTT
15734597 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
15734619 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
15734642 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:15734623 original size:17 final size:17
Alignment explanation
Indices: 15734556--15734625 Score: 70
Period size: 17 Copynumber: 4.0 Consensus size: 17
15734546 TATGGAAATA
* *
15734556 TAATCTTTGAGGATATG
1 TAATCTTAGAAGATATG
*
15734573 TAATCTTAG-ATATGATG
1 TAATCTTAGAAGAT-ATG
*
15734590 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
15734609 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
15734626 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.05
17 25 0.58
18 1 0.02
19 13 0.30
20 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:15734651 original size:22 final size:23
Alignment explanation
Indices: 15734607--15734651 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15734597 AGATATGATA
*
15734607 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
15734630 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
15734652 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:15738155 original size:2 final size:2
Alignment explanation
Indices: 15738144--15738187 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
15738134 AATCTAACCC
*
15738144 CT CT CT -T CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15738185 CT C
1 CT C
15738188 ATTTTATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:15738589 original size:24 final size:24
Alignment explanation
Indices: 15738562--15738608 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15738552 AAAAGGAAAG
15738562 TTAAAATA-TCATAAAAGAAAAAAA
1 TTAAAATACTCA-AAAAGAAAAAAA
* *
15738586 TTAAACTACTCAAAACGAAAAAA
1 TTAAAATACTCAAAAAGAAAAAA
15738609 TATGAGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.19
Consensus pattern (24 bp):
TTAAAATACTCAAAAAGAAAAAAA
Found at i:15739306 original size:17 final size:16
Alignment explanation
Indices: 15739270--15739313 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
15739260 TTAATACTTG
15739270 TATTTTAA--TTTGAT
1 TATTTTAATTTTTGAT
15739284 TAATTTTAATTTTTGTAT
1 T-ATTTTAATTTTTG-AT
15739302 TATTTTAATTTT
1 TATTTTAATTTT
15739314 GAAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.04
15 7 0.27
17 15 0.58
18 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
TATTTTAATTTTTGAT
Found at i:15740033 original size:22 final size:22
Alignment explanation
Indices: 15739986--15740027 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15739976 TTTAATTTCG
*
15739986 AAAAATTAAGTAATTAAATTAA
1 AAAAATTAAGTAATTAAATGAA
*
15740008 AAAAATTAA-TAATTGAATGA
1 AAAAATTAAGTAATTAAATGA
15740028 CCAAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAAATTAAGTAATTAAATGAA
Found at i:15742250 original size:27 final size:27
Alignment explanation
Indices: 15742208--15742264 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
15742198 GCAGCAGCTC
* *
15742208 GTGGTGAAGTGTGAGTTGTCTCTACAA
1 GTGGTGAAGTGCGAGTTGTCTCCACAA
15742235 GTGGTGAAGTGCGAGTTGTCTCCACAA
1 GTGGTGAAGTGCGAGTTGTCTCCACAA
15742262 GTG
1 GTG
15742265 TCAAAGTGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.30
Consensus pattern (27 bp):
GTGGTGAAGTGCGAGTTGTCTCCACAA
Found at i:15742271 original size:27 final size:27
Alignment explanation
Indices: 15742208--15742276 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
15742198 GCAGCAGCTC
* * *
15742208 GTGGTGAAGTGTGAGTTGTCTCTACAA
1 GTGGTAAAGTGCGAGTTGTCTCCACAA
*
15742235 GTGGTGAAGTGCGAGTTGTCTCCACAA
1 GTGGTAAAGTGCGAGTTGTCTCCACAA
15742262 GT-GTCAAAGTGCGAG
1 GTGGT-AAAGTGCGAG
15742277 ATGCTCTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (27 bp):
GTGGTAAAGTGCGAGTTGTCTCCACAA
Found at i:15742317 original size:27 final size:27
Alignment explanation
Indices: 15742260--15742328 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
15742250 TTGTCTCCAC
* **
15742260 AAGTGTCAAAGTGCGAGATGCTCTGTG
1 AAGTGTCAAAGTGCGAAATGCTCTGCA
*
15742287 AAGTGTCAAAGTGTGAAATGCT-TCGCA
1 AAGTGTCAAAGTGCGAAATGCTCT-GCA
**
15742314 AAGTGTTGAAGTGCG
1 AAGTGTCAAAGTGCG
15742329 GCCTAGCACT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
AAGTGTCAAAGTGCGAAATGCTCTGCA
Found at i:15743982 original size:45 final size:45
Alignment explanation
Indices: 15743912--15743997 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
15743902 TATAGCCTAA
**
15743912 AAATGAGTAAGAAAATAGCTAAAAGATTCTATAACATCATGATAT
1 AAATGAGTAAGAAAATAGCTAAAAGACACTATAACATCATGATAT
** * * *
15743957 AAATGAGTAAGACCATAGTTGAAAGACACTATGACATCATG
1 AAATGAGTAAGAAAATAGCTAAAAGACACTATAACATCATG
15743998 GTAAACAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAGAAAATAGCTAAAAGACACTATAACATCATGATAT
Found at i:15752084 original size:13 final size:13
Alignment explanation
Indices: 15752066--15752094 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15752056 TATGTGTATG
15752066 ATCAAAACATCAA
1 ATCAAAACATCAA
15752079 ATCAAAACATCAA
1 ATCAAAACATCAA
15752092 ATC
1 ATC
15752095 TATAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (13 bp):
ATCAAAACATCAA
Found at i:15753396 original size:49 final size:49
Alignment explanation
Indices: 15753249--15753397 Score: 167
Period size: 49 Copynumber: 3.0 Consensus size: 49
15753239 TTGTCCATTC
* * *
15753249 GAAACACCATTTGTGGACAAGCCACCACTAATTTGTAGATAAACTGCCATT
1 GAAACA-C-TTTGTGGACAAGCCACCACTAATTTGCAGATAAACTGCTACT
* * * *
15753300 GATAACACTTAGTGGACAAGCCACCAC--ATATGCATATATATATTGCTACT
1 GA-AACACTTTGTGGACAAGCCACCACTAATTTGCAGATA-A-ACTGCTACT
*
15753350 GAAACACTTTGTGGACAGGCCACCACTAATTTGCAGATAAACTGCTAC
1 GAAACACTTTGTGGACAAGCCACCACTAATTTGCAGATAAACTGCTAC
15753398 GTACTTGCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
48 8 0.10
49 30 0.37
50 27 0.33
51 12 0.15
52 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (49 bp):
GAAACACTTTGTGGACAAGCCACCACTAATTTGCAGATAAACTGCTACT
Found at i:15760882 original size:25 final size:25
Alignment explanation
Indices: 15760853--15760943 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
15760843 TATAAATGGA
*
15760853 AAGCTCTTTTGAGCTGAATAACGGT
1 AAGCTCTTATGAGCTGAATAACGGT
* *
15760878 AAGCTCCTCTGAGCTGAATAACGGT
1 AAGCTCTTATGAGCTGAATAACGGT
* * *
15760903 AAGCT-TATACGAGCTGAGTATCGGT
1 AAGCTCT-TATGAGCTGAATAACGGT
* *
15760928 AAGCTCATAAGAGCTG
1 AAGCTCTTATGAGCTG
15760944 GAATCGATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
AAGCTCTTATGAGCTGAATAACGGT
Found at i:15761866 original size:22 final size:23
Alignment explanation
Indices: 15761839--15761881 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15761829 TTATCTTTAA
15761839 TTACCT-A-TTTACAAAATTACCC
1 TTACCTAACTTTA-AAAATTACCC
15761861 TTACCTAACTTTAAAAATTAC
1 TTACCTAACTTTAAAAATTAC
15761882 ACTAATGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (23 bp):
TTACCTAACTTTAAAAATTACCC
Found at i:15766552 original size:16 final size:16
Alignment explanation
Indices: 15766533--15766567 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15766523 CAATCGAGAT
15766533 TTTTCACAGTCTACAG
1 TTTTCACAGTCTACAG
*
15766549 TTTTCACAGTCTATAG
1 TTTTCACAGTCTACAG
15766565 TTT
1 TTT
15766568 CAAATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (16 bp):
TTTTCACAGTCTACAG
Found at i:15770025 original size:18 final size:18
Alignment explanation
Indices: 15770004--15770043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15769994 TTCACAAAAG
*
15770004 TTTTTAAGCGTTTTATCC
1 TTTTTAAGCGTTTTAACC
* *
15770022 TTTTTAGGTGTTTTAACC
1 TTTTTAAGCGTTTTAACC
15770040 TTTT
1 TTTT
15770044 GCTTTTGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTTTAAGCGTTTTAACC
Found at i:15771903 original size:31 final size:31
Alignment explanation
Indices: 15771817--15771903 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
15771807 ATTTTTTTAA
15771817 ATGTGTATAATTGAATCAAAATCAAAA-TTTC
1 ATGTGTATAATTGAATC-AAATCAAAATTTTC
* * * *
15771848 TTGTATATATTTGAAT--TA-C-AAATTTTC
1 ATGTGTATAATTGAATCAAATCAAAATTTTC
*
15771875 ATGTGTATAATTGCATCAAATCAAAATTT
1 ATGTGTATAATTGAATCAAATCAAAATTT
15771904 ATATATTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
26 3 0.07
27 17 0.40
28 1 0.02
29 1 0.02
30 1 0.02
31 19 0.45
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (31 bp):
ATGTGTATAATTGAATCAAATCAAAATTTTC
Found at i:15774765 original size:51 final size:51
Alignment explanation
Indices: 15774688--15774800 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
15774678 CTGATTAGTA
*
15774688 ACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATTAGTGACAAGTG
1 ACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
* * *
15774739 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGTG
1 ACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
15774790 ACAAGTGATAA
1 ACAAGTGATAA
15774801 ATGTGATCCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:15777292 original size:20 final size:20
Alignment explanation
Indices: 15777231--15777295 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
15777221 TTATTTTATC
*
15777231 ATAATAATAATTTAATTATAA
1 ATAATATTAATTTAATTA-AA
**
15777252 A-AATATTTTTATTAATTAAA
1 ATAATATTAAT-TTAATTAAA
*
15777272 ATAATATTAATTTAGTTAAA
1 ATAATATTAATTTAATTAAA
15777292 ATAA
1 ATAA
15777296 ATAAATCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATATTAATTTAATTAAA
Found at i:15783961 original size:93 final size:93
Alignment explanation
Indices: 15783802--15783978 Score: 266
Period size: 93 Copynumber: 1.9 Consensus size: 93
15783792 TTTTCGCAAC
* * *
15783802 ACATGCATCATAAATGACCACTAGAAGAGTCAATCTTTAAGTCCAGTGTCTATGAGCCTCTACAA
1 ACATGCATAATAAATGACCACTAGAAGAGTCAATCTTTAAGTCCAGTGTCCATGAACCTCTACAA
15783867 GAAAAGCTATCTTCGTCAACAATCACAT
66 GAAAAGCTATCTTCGTCAACAATCACAT
* * * *
15783895 ACATGCATAATAAA-GAACCGCTAGAAGAGTCGATCTTTAAGTTCAGTGTCCATGAACCTTTACA
1 ACATGCATAATAAATG-ACCACTAGAAGAGTCAATCTTTAAGTCCAGTGTCCATGAACCTCTACA
*
15783959 AGAAAAGCTATCTTGGTCAA
65 AGAAAAGCTATCTTCGTCAA
15783979 TAAATACCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (93 bp):
ACATGCATAATAAATGACCACTAGAAGAGTCAATCTTTAAGTCCAGTGTCCATGAACCTCTACAA
GAAAAGCTATCTTCGTCAACAATCACAT
Found at i:15786630 original size:21 final size:20
Alignment explanation
Indices: 15786596--15786636 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15786586 CTTCAAGATT
15786596 TAAAAATATCAAAAATATTA
1 TAAAAATATCAAAAATATTA
* *
15786616 TAAAAACTATTAAAACTATTA
1 TAAAAA-TATCAAAAATATTA
15786637 AATATTATAA
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:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATATCAAAAATATTA
Found at i:15786667 original size:28 final size:28
Alignment explanation
Indices: 15786608--15786669 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15786598 AAAATATCAA
*
15786608 AAATATTATAAAAACTATTAAAACTATT
1 AAATATTATAAAAACTATTAAAACTATG
*
15786636 AAATATTATAAAATA-TTTTGAAAA-TATG
1 AAATATTATAAAA-ACTATT-AAAACTATG
15786664 AAATAT
1 AAATAT
15786670 AATATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAATATTATAAAAACTATTAAAACTATG
Found at i:15786801 original size:19 final size:21
Alignment explanation
Indices: 15786777--15786824 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
15786767 AATTTAAATG
15786777 ATAAAATTATTA-AAAAT-TA
1 ATAAAATTATTATAAAATATA
15786796 ATAAAATT-TTATAAAATATA
1 ATAAAATTATTATAAAATATA
*
15786816 AAAAAATTA
1 ATAAAATTA
15786825 AAATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATTATTATAAAATATA
Found at i:15792464 original size:14 final size:15
Alignment explanation
Indices: 15792445--15792479 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15792435 CCAGAATTAG
15792445 ATAAAA-TTTTTTAA
1 ATAAAATTTTTTTAA
15792459 ATAAAATTTTTTTAA
1 ATAAAATTTTTTTAA
15792474 ATAAAA
1 ATAAAA
15792480 ATTCTATTAG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAAAATTTTTTTAA
Found at i:15796687 original size:23 final size:23
Alignment explanation
Indices: 15796661--15796706 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15796651 ATATGTGTCA
15796661 TAATGACACAATAAGGTGTGTAG
1 TAATGACACAATAAGGTGTGTAG
*
15796684 TAATGACACAATATGGTGTGTAG
1 TAATGACACAATAAGGTGTGTAG
15796707 GGATGACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (23 bp):
TAATGACACAATAAGGTGTGTAG
Found at i:15796712 original size:23 final size:23
Alignment explanation
Indices: 15796662--15796713 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
15796652 TATGTGTCAT
*
15796662 AATGACACAATAAGGTGTGTAGT
1 AATGACACAATAAGGTGTGTAGG
*
15796685 AATGACACAATATGGTGTGTAGG
1 AATGACACAATAAGGTGTGTAGG
*
15796708 GATGAC
1 AATGAC
15796714 TGAGTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.25
Consensus pattern (23 bp):
AATGACACAATAAGGTGTGTAGG
Found at i:15798658 original size:25 final size:25
Alignment explanation
Indices: 15798626--15798687 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
15798616 AGCTATAAAT
* * *
15798626 GGTAAGCTCCTCCGAGCTGAATAAC
1 GGTAAGCTCATACGAACTGAATAAC
* *
15798651 GGTAAGCTCATACGAACTGAGTATC
1 GGTAAGCTCATACGAACTGAATAAC
15798676 GGTAAGCTCATA
1 GGTAAGCTCATA
15798688 AGAGCTGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (25 bp):
GGTAAGCTCATACGAACTGAATAAC
Found at i:15809601 original size:10 final size:11
Alignment explanation
Indices: 15809588--15809629 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
15809578 CGTTTTGTCA
15809588 TTTTTTTTC-T
1 TTTTTTTTCAT
15809598 TTTTTTTTCAT
1 TTTTTTTTCAT
*
15809609 TTTCTTTTTTAT
1 TTT-TTTTTCAT
*
15809621 TTATTTTTC
1 TTTTTTTTC
15809630 GTTTGAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 9 0.33
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:15809613 original size:16 final size:16
Alignment explanation
Indices: 15809587--15809627 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15809577 TCGTTTTGTC
*
15809587 ATTTTTTTTCTTTTTT
1 ATTTATTTTCTTTTTT
15809603 -TTTCATTTTCTTTTTT
1 ATTT-ATTTTCTTTTTT
15809619 ATTTATTTT
1 ATTTATTTT
15809628 TCGTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
ATTTATTTTCTTTTTT
Found at i:15810237 original size:28 final size:25
Alignment explanation
Indices: 15810179--15810225 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15810169 TTTTAAATTT
15810179 TTATTT-TTATCA-TTATTATTATA
1 TTATTTATTATCATTTATTATTATA
15810202 TTATTTATTATCATTTATTATTAT
1 TTATTTATTATCATTTATTATTAT
15810226 TTCTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 10 0.45
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATTTATTATCATTTATTATTATA
Found at i:15810482 original size:15 final size:16
Alignment explanation
Indices: 15810452--15810483 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15810442 TATTTTTTTT
15810452 ACAAATATATATATAC
1 ACAAATATATATATAC
15810468 ACAAATATA-ATATAC
1 ACAAATATATATATAC
15810483 A
1 A
15810484 TATGTTTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (16 bp):
ACAAATATATATATAC
Found at i:15813028 original size:18 final size:18
Alignment explanation
Indices: 15813005--15813046 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
15812995 CTCATAAATA
15813005 TGAAATAATGAAATATAC-
1 TGAAATAATGAAATA-ACT
15813023 TGAAATAATGAAATAACT
1 TGAAATAATGAAATAACT
15813041 TGAAAT
1 TGAAAT
15813047 TCAATAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (18 bp):
TGAAATAATGAAATAACT
Found at i:15813046 original size:10 final size:8
Alignment explanation
Indices: 15813000--15813038 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
15812990 AACAACTCAT
15813000 AAAT-ATG
1 AAATAATG
15813007 AAATAATG
1 AAATAATG
15813015 AAATATACTG
1 AAATA-A-TG
15813025 AAATAATG
1 AAATAATG
15813033 AAATAA
1 AAATAA
15813039 CTTGAAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.14
8 16 0.55
9 2 0.07
10 7 0.24
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.26
Consensus pattern (8 bp):
AAATAATG
Found at i:15835402 original size:15 final size:16
Alignment explanation
Indices: 15835382--15835411 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15835372 TTAATTCGAT
15835382 AAAAATGA-CTAAATA
1 AAAAATGAGCTAAATA
15835397 AAAAATGAGCTAAAT
1 AAAAATGAGCTAAAT
15835412 TAGAGTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (16 bp):
AAAAATGAGCTAAATA
Found at i:15848457 original size:25 final size:25
Alignment explanation
Indices: 15848429--15848507 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
15848419 AGCTCTTCTA
15848429 AGCTGAATAACGGTAAGCTCATACG
1 AGCTGAATAACGGTAAGCTCATACG
*
15848454 AGCTG--TGAATCGGTCAGCTC-TCACG
1 AGCTGAAT-AA-CGGTAAGCTCAT-ACG
**
15848479 AGCTGAA-ATTGGTAAGCTCATACG
1 AGCTGAATAACGGTAAGCTCATACG
15848503 AGCTG
1 AGCTG
15848508 TGGTGTCTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
23 1 0.02
24 19 0.43
25 24 0.55
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (25 bp):
AGCTGAATAACGGTAAGCTCATACG
Found at i:15848503 original size:24 final size:25
Alignment explanation
Indices: 15848439--15848508 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
15848429 AGCTGAATAA
*
15848439 CGGTAAGCTCATACGAGCTGTGAAT
1 CGGTAAGCTCATACGAGCTGTAAAT
*
15848464 CGGTCAGCTC-TCACGAGCTG-AAAT
1 CGGTAAGCTCAT-ACGAGCTGTAAAT
*
15848488 TGGTAAGCTCATACGAGCTGT
1 CGGTAAGCTCATACGAGCTGT
15848509 GGTGTCTCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGTAAAT
Found at i:15850920 original size:45 final size:45
Alignment explanation
Indices: 15850837--15850967 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
15850827 CTATACTCCT
* **
15850837 AAAATGAGTAAGATCATAGCTAAAAGACGTTATAGCATCATGATG
1 AAAATGAGTAAGACCATAGCTAAAAGACGCCATAGCATCATGATG
* * * *
15850882 AAAATGAGTAAGACCATGGCTGAAAGATGCCATGGCATCAT-A-G
1 AAAATGAGTAAGACCATAGCTAAAAGACGCCATAGCATCATGATG
* * * * *
15850925 TAAATAGGACTGAGACCATAGTTAAAAGACGCCATGGCATCAT
1 -AAA-ATGAGTAAGACCATAGCTAAAAGACGCCATAGCATCAT
15850968 TTGACATTCC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
43 1 0.01
44 4 0.06
45 65 0.93
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGACGCCATAGCATCATGATG
Found at i:15851302 original size:27 final size:27
Alignment explanation
Indices: 15851272--15851328 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
15851262 TCAATGAGAC
* * *
15851272 GTTAAACACGGGTTAGTCTGATAGGAT
1 GTTAAACACGGGCTAGTCCGAAAGGAT
15851299 GTTAAACACGGGCTAGTCCGAAAGGAT
1 GTTAAACACGGGCTAGTCCGAAAGGAT
15851326 GTT
1 GTT
15851329 GAAAATGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
GTTAAACACGGGCTAGTCCGAAAGGAT
Found at i:15853404 original size:12 final size:12
Alignment explanation
Indices: 15853389--15853413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15853379 TAACCACGTC
15853389 CACAATTATGGT
1 CACAATTATGGT
15853401 CACAATTATGGT
1 CACAATTATGGT
15853413 C
1 C
15853414 GTGGCTATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (12 bp):
CACAATTATGGT
Found at i:15856820 original size:25 final size:25
Alignment explanation
Indices: 15856792--15856863 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
15856782 CCCGATATCT
15856792 GGCTCTTCAGAGCTTCCCGATTAAA
1 GGCTCTTCAGAGCTTCCCGATTAAA
* * *
15856817 GGCTCTT-TGTAAGCTTCCTGATTAAT
1 GGCTCTTCAG--AGCTTCCCGATTAAA
* * *
15856843 GGCTCTCCGGAGTTTCCCGAT
1 GGCTCTTCAGAGCTTCCCGAT
15856864 ATGGCTCGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 1 0.03
25 16 0.43
26 19 0.51
27 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.33
Consensus pattern (25 bp):
GGCTCTTCAGAGCTTCCCGATTAAA
Found at i:15856914 original size:73 final size:73
Alignment explanation
Indices: 15856828--15856982 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 73
15856818 GCTCTTTGTA
* * * *
15856828 AGCTTCCTGATTAATGGCTCTCCGGAGTTTCCCGATA-TGGCTCGCTTGAAATTCTCTATATATG
1 AGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGATATTGGCTCGCATGAAATTC-CTAAATATG
15856892 GCTATTCA-G
65 GCTATT-ATG
* * **
15856901 AGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTAAATATGG
1 AGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGATATTGGCTCGCATGAAATTCCTAAATATGG
*
15856966 CTCTTATG
66 CTATTATG
15856974 AGCTTCCTG
1 AGCTTCCTG
15856983 TTATACAGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
72 1 0.01
73 56 0.79
74 14 0.20
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
AGCTTCCTGATTAATGGCTCTCCGGAGCTACCCGATATTGGCTCGCATGAAATTCCTAAATATGG
CTATTATG
Found at i:15857049 original size:25 final size:25
Alignment explanation
Indices: 15856925--15857042 Score: 82
Period size: 24 Copynumber: 4.8 Consensus size: 25
15856915 TGGCTCTTCG
* **
15856925 GAGCTACCCGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATATGGCTCATAT
* *
15856949 GAGCTT-CC-TAAATATGGCTCTTAT
1 GAGCTTCCCGT-TATATGGCTCATAT
* ** * *
15856973 GAGCTTCCTGTTATACAGCCCAGAT
1 GAGCTTCCCGTTATATGGCTCATAT
* * *
15856998 AAGCTTCCC-ATACATGGCTCATAT
1 GAGCTTCCCGTTATATGGCTCATAT
15857022 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTATATGGCTC
15857043 TAGTGAGAGC
Statistics
Matches: 67, Mismatches: 22, Indels: 9
0.68 0.22 0.09
Matches are distributed among these distances:
22 1 0.01
23 4 0.06
24 36 0.54
25 25 0.37
26 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCATAT
Found at i:15858093 original size:34 final size:34
Alignment explanation
Indices: 15858047--15858111 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
15858037 TGTGTCATGG
15858047 CACACGGACGTGTGACTTGG-TCGTGTGACCCTTA
1 CACACGGACGTGTGACTTGGCT-GTGTGACCCTTA
*
15858081 CACACGGGCGTGTGACTTGGCTGTGTGACCC
1 CACACGGACGTGTGACTTGGCTGTGTGACCC
15858112 AAGTTAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.15, C:0.28, G:0.32, T:0.25
Consensus pattern (34 bp):
CACACGGACGTGTGACTTGGCTGTGTGACCCTTA
Found at i:15868657 original size:25 final size:23
Alignment explanation
Indices: 15868620--15868682 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
15868610 AATCATTATT
15868620 AATA-ATAAATAACAAAAAAATA
1 AATATATAAATAACAAAAAAATA
* * *
15868642 CATTATATAAATTAACTAAAAATTA
1 -AATATATAAA-TAACAAAAAAATA
15868667 AATATATAAAATAACA
1 AATATAT-AAATAACA
15868683 TGTAATACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.09
24 15 0.47
25 14 0.44
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AATATATAAATAACAAAAAAATA
Found at i:15868662 original size:24 final size:24
Alignment explanation
Indices: 15868626--15868681 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
15868616 TATTAATAAT
* * *
15868626 AAATAACAAAAAAATACATTATATA
1 AAATAACTAAAAATTA-AATATATA
*
15868651 AATTAACTAAAAATTAAATATATA
1 AAATAACTAAAAATTAAATATATA
15868675 AAATAAC
1 AAATAAC
15868682 ATGTAATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAACTAAAAATTAAATATATA
Found at i:15880582 original size:25 final size:25
Alignment explanation
Indices: 15880548--15880600 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
15880538 TCGGCCTGGG
*
15880548 CCAATGATGACTCGATCAATCCAGT
1 CCAATGATGACTCAATCAATCCAGT
*
15880573 CCAATGATGACTCAATCAGTCCAGT
1 CCAATGATGACTCAATCAATCCAGT
15880598 CCA
1 CCA
15880601 GCCATCGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (25 bp):
CCAATGATGACTCAATCAATCCAGT
Found at i:15880798 original size:9 final size:9
Alignment explanation
Indices: 15880778--15880808 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15880768 AAAATATCAT
15880778 ATTAATTTTA
1 ATTAA-TTTA
15880788 ATTAATTTA
1 ATTAATTTA
15880797 ATTAATTTA
1 ATTAATTTA
15880806 ATT
1 ATT
15880809 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:15891521 original size:20 final size:19
Alignment explanation
Indices: 15891494--15891536 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
15891484 ATTGGGGCTG
15891494 CTCTCAAACCTTGCAAACA
1 CTCTCAAACCTTGCAAACA
15891513 CTNCTCAAACCTTGCAAACA
1 CT-CTCAAACCTTGCAAACA
15891533 CTCT
1 CTCT
15891537 TTCGAGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.33, C:0.37, G:0.05, T:0.23
Consensus pattern (19 bp):
CTCTCAAACCTTGCAAACA
Found at i:15901887 original size:15 final size:15
Alignment explanation
Indices: 15901867--15901896 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15901857 TGAGTTTAGG
15901867 GGCTAATATGAAACT
1 GGCTAATATGAAACT
15901882 GGCTAATATGAAACT
1 GGCTAATATGAAACT
15901897 ATGTAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
GGCTAATATGAAACT
Found at i:15902610 original size:20 final size:20
Alignment explanation
Indices: 15902572--15902611 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15902562 ACTTGTTTGG
* * *
15902572 GATTGCACTTTGGTTCCTCT
1 GATTGCACATTCGTGCCTCT
15902592 GATTGCACATTCGTGCCTCT
1 GATTGCACATTCGTGCCTCT
15902612 TTTTTTCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (20 bp):
GATTGCACATTCGTGCCTCT
Found at i:15907449 original size:4 final size:4
Alignment explanation
Indices: 15907440--15907497 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
15907430 GCAAATAATA
*
15907440 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
15907488 TATA TATG TA
1 TATG TATG TA
15907498 AGAGTTTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:15909330 original size:50 final size:50
Alignment explanation
Indices: 15909201--15909359 Score: 169
Period size: 50 Copynumber: 3.2 Consensus size: 50
15909191 AACTCACAAT
* *
15909201 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCGCCATTGTAGC
1 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* * ** * * * * *
15909251 TTTAATCCG-TTCCACT-ACACCGCCAGGGAAGTAAGATTCACCGTTGTGGC
1 TTTAATCTGCTT-AACTGTGA-TGTCGGGGAAGCAAGATTCGCCGTTGTGGC
* *
15909301 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATACGCCGTCGTGGC
1 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
15909351 TTTAATCTG
1 TTTAATCTG
15909360 TTCCGCGATG
Statistics
Matches: 83, Mismatches: 22, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
49 3 0.04
50 77 0.93
51 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (50 bp):
TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCGCCGTTGTGGC
Found at i:15909473 original size:123 final size:123
Alignment explanation
Indices: 15909249--15909486 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
15909239 CGCCATTGTA
* *
15909249 GCTTTAATCCGTTCCACTACACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGCTTA
1 GCTTTAATCCGTTCCACTACACCGCCAGGGAAGTAAGATTCACCATTGTAGCTTTAATCTGCTTA
*** * * *
15909314 ACTGTGATGTCGGGGAAGCAAGATACGCCGTCGTGGCTTTAATCTGTTCCGCGATGTG
66 ACTACAATGTCGGAGAAGCAAGATACACCGTCGTGGCTTTAATCTATTCCGCGATGTG
* * * * * **
15909372 GCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTA
1 GCTTTAATCCGTTCCACTACACCGCCAGGGAAGTAAGATTCACCATTGTAGCTTTAATCTGCTTA
* *
15909437 ACTACAATGTCGGAGAAGCAAGATTCACCGAT-GTGGCTTTACTCTATTCC
66 ACTACAATGTCGGAGAAGCAAGATACACCG-TCGTGGCTTTAATCTATTCC
15909487 ACTGCATCTC
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
123 96 0.99
124 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (123 bp):
GCTTTAATCCGTTCCACTACACCGCCAGGGAAGTAAGATTCACCATTGTAGCTTTAATCTGCTTA
ACTACAATGTCGGAGAAGCAAGATACACCGTCGTGGCTTTAATCTATTCCGCGATGTG
Found at i:15909661 original size:44 final size:44
Alignment explanation
Indices: 15909608--15910160 Score: 343
Period size: 44 Copynumber: 12.8 Consensus size: 44
15909598 CCTTTATTTT
* * *
15909608 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTATTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
15909652 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAT-TGGCTTC
* *
15909696 AATCTGCTCCACTGTAACCTTAGGGAGATAAGATTTGAAATT--CTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TT---ATTGGCTTC
** ** * * * *
15909742 GGTCTATTCCACTGTAATCCCAGTGAGATAAGACCTAAT-G--T-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTATTGGCTTC
* * * * * * * ** *** *
15909783 GATCTACTCTACTGTAATTTTAGAGAGATAAAATCCTTTATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
* * * *
15909827 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
* *
15909870 AATCTGCTCCGCTGTAATCTCAGAGAGATAAGATT-TCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAT-TGGCTTC
** * *
15909914 AATCTGCTCCGTTGTAACCTCAGGGAGATAAGATTCTTCGG--TC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATT-GGCTTC
* ** *
15909957 --TAT--TCCACTGTAATCTCAGGGAGATAAGA--CCTGG-TGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
* * * * * ** *** *
15909994 GATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
** * * * *
15910038 AATCCACTCCACTATAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
*
15910082 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT-TCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAT-TGGCTTC
* * *
15910126 AATCTACTCCGCTGTAACCTCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
15910161 CTTTGGTTTA
Statistics
Matches: 392, Mismatches: 93, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
36 2 0.01
37 3 0.01
39 25 0.06
40 1 0.00
41 50 0.13
42 1 0.00
43 44 0.11
44 229 0.58
45 5 0.01
46 30 0.08
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATTGGCTTC
Found at i:15910032 original size:211 final size:212
Alignment explanation
Indices: 15909516--15910194 Score: 1063
Period size: 211 Copynumber: 3.2 Consensus size: 212
15909506 AAGATTTGAA
* * * * *
15909516 ATTCTTTGATCTATTCCCCTGTAATCTTAGGGAGATAAGACCTGATGCGATCTATTCTACTGTAA
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
*
15909581 TTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTATT
66 TTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT
* *
15909646 GGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGT
131 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGT
*
15909711 AACCTTAGGGAGATAAGATTTG
196 AACCTCAGGGAGAT-A-A---G
* * * *
15909733 AAATTCTTCGGTCTATTCCACTGTAATCCCAGTGAGATAAGACCTAATGTGATCTACTCTACTGT
1 --ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGT
*
15909798 AATTTTAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTA
64 AATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTA
* *
15909863 CTGGCTT-AATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCTGGCTTCAATCTGCTCCGTT
129 CTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCT
15909927 GTAACCTCAGGGAGATAAG
194 GTAACCTCAGGGAGATAAG
*
15909946 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAA
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
* * *
15910011 TTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTCAGGGAAATAGGATTACT
66 TTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT
*
15910076 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTACTCCGCTGT
131 GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGT
15910141 AACCTCAGGGAGATAAG
196 AACCTCAGGGAGATAAG
* * * *
15910158 ATTCTTTGGTTTATTCAACTGTAATCTTAGGGAGATA
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATA
15910195 GGACTTATGG
Statistics
Matches: 427, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
211 126 0.30
212 106 0.25
213 1 0.00
216 1 0.00
217 1 0.00
218 68 0.16
219 124 0.29
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (212 bp):
ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
TTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT
GGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGT
AACCTCAGGGAGATAAG
Found at i:15910238 original size:211 final size:211
Alignment explanation
Indices: 15909516--15910204 Score: 967
Period size: 219 Copynumber: 3.2 Consensus size: 211
15909506 AAGATTTGAA
* * * * * *
15909516 ATTCTTTGATCTATTCCCCTGTAATCTTAGGGAGATAAGACCTGAT-G-CGATCTATTCTACTGT
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CT-ATGGTTGATCTACTCTACTGT
15909579 AATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTA
64 AA-TTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTA
* * *
15909644 TTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACT
128 CTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCT
*
15909709 GTAACCTTAGGGAGATAAGATTTG
193 GTAACCTCAGGGAGAT-A-A---G
* *
15909733 AAATTCTTCGGTCTATTCCACTGTAATCCCAGTGAGATAAGACCTAAT-G-TGATCTACTCTACT
1 --ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CT-ATGGTTGATCTACTCTACT
*
15909796 GTAATTTTAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGAT
62 GTAA-TTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGAT
*
15909861 TACTGGCTT-AATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCTGGCTTCAATCTGCTCCG
126 TACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCG
*
15909925 TTGTAACCTCAGGGAGATAAG
191 CTGTAACCTCAGGGAGATAAG
* *
15909946 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGAC-CTGGTGCGATCTACTCTACTGTA
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTATGGT-TGATCTACTCTACTGTA
* *
15910010 ATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTCAGGGAAATAGGATTAC
65 ATTT-AGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTAC
*
15910075 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTACTCCGCTG
129 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTG
15910140 TAACCTCAGGGAGATAAG
194 TAACCTCAGGGAGATAAG
* * * * *
15910158 ATTCTTTGGTTTATTCAACTGTAATCTTAGGGAGATAGGACTTATGG
1 ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGAC-TATGG
15910205 CTTAAATCTT
Statistics
Matches: 431, Mismatches: 32, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
208 1 0.00
209 1 0.00
210 4 0.01
211 118 0.27
212 109 0.25
213 1 0.00
214 3 0.01
216 1 0.00
217 1 0.00
218 68 0.16
219 124 0.29
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (211 bp):
ATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTATGGTTGATCTACTCTACTGTAA
TTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTG
GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGTA
ACCTCAGGGAGATAAG
Found at i:15910343 original size:128 final size:128
Alignment explanation
Indices: 15910186--15910565 Score: 582
Period size: 128 Copynumber: 3.0 Consensus size: 128
15910176 CTGTAATCTT
* *
15910186 AGGGAGATAGGACTTATGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCG
1 AGGGAGATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* * **
15910251 ATCTGCTCTGCTACTACTTAGGGAGACAAGATTTGTAATTTCCAACCTGTTCCACTGCTAACC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTACTCCACTGCTAACC
* *
15910314 AGGGAGATAGGACTTGTGGCTAAAATCTTCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
1 AGGGAGATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* * *
15910379 ATCTACTCCGCTACTGCTTAGGGAGACAAGATCTT-TAATTTCCAACCTACTCCACTACTGACC
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGAT-TTGTAATTTCCAACCTACTCCACTGCTAACC
* * * * *
15910442 AAGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTAGAAGATAAGATTCGCCGTCTTCA
1 AGGGAGATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
* *
15910507 ATCTGCTCCCCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCT
66 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTACTCCACTGCT
15910566 GGTCAGGGGG
Statistics
Matches: 228, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
127 1 0.00
128 225 0.99
129 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (128 bp):
AGGGAGATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCG
ATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTACTCCACTGCTAACC
Found at i:15912745 original size:13 final size:13
Alignment explanation
Indices: 15912722--15912771 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
15912712 TTGGCCTCTC
15912722 CTTTTTA-TTTTT
1 CTTTTTATTTTTT
*
15912734 CTTTTTCTTTTTT
1 CTTTTTATTTTTT
15912747 CTTTTTATTTTTT
1 CTTTTTATTTTTT
*
15912760 GATTTTTATTTT
1 -CTTTTTATTTT
15912772 GATTTTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
12 6 0.18
13 17 0.52
14 10 0.30
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (13 bp):
CTTTTTATTTTTT
Found at i:15917160 original size:4 final size:4
Alignment explanation
Indices: 15917151--15917968 Score: 1618
Period size: 4 Copynumber: 204.5 Consensus size: 4
15917141 GCAAATAATA
15917151 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917199 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917247 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917295 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917343 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917391 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917439 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917487 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917535 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917583 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917631 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917679 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917727 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917775 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917823 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917871 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
15917919 TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15917967 TA
1 TA
15917969 AGAGTTTCAA
Statistics
Matches: 810, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 810 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:15938920 original size:42 final size:42
Alignment explanation
Indices: 15938853--15939117 Score: 332
Period size: 42 Copynumber: 6.2 Consensus size: 42
15938843 CTAACTTTTT
*
15938853 GCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTA
1 GCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
15938897 GCGGCGCTTAGAAAAAAACGCCGCTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * *
15938939 GCGGCGCTTGTGCAAAAAACGCTGCTAAAGATCATGTTCTTTA
1 GCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * *
15938982 GCGGCGCTAAGAAAAAAATGCCACTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* ** * * * *
15939024 GCTGAACTAAGAAAAAAACGCCACTAATGATCGTGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * *
15939066 GCGGCGCTTGGGAAAGAAACGCCGCTAAAGATCATATTCTTTA
1 GCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
15939109 GCGGCGCTT
1 GCGGCGCTT
15939118 TATCTACAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
42 109 0.57
43 73 0.38
44 9 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:15938967 original size:85 final size:85
Alignment explanation
Indices: 15938853--15939117 Score: 343
Period size: 85 Copynumber: 3.1 Consensus size: 85
15938843 CTAACTTTTT
*
15938853 GCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAAAAAAACGC
1 GCGGCGCTTA-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGC
*
15938918 CGCTAAATATCATGTTCTTTA
65 CGCTAAAGATCATGTTCTTTA
** * * * *
15938939 GCGGCGCTTGTGCAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAAATGCC
1 GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
*
15939004 ACTAAAGATCATGTTCTTTA
66 GCTAAAGATCATGTTCTTTA
* ** * * * * *
15939024 GCTGAAC-TAAGAAAAAAACGCCACTAATGATCGTGTTCTTTAGCGGCGCTTGGGAAAGAAACGC
1 GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAAAAAAACGC
*
15939088 CGCTAAAGATCATATTCTTTA
65 CGCTAAAGATCATGTTCTTTA
15939109 GCGGCGCTT
1 GCGGCGCTT
15939118 TATCTACAAA
Statistics
Matches: 149, Mismatches: 28, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
84 36 0.24
85 103 0.69
86 10 0.07
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (85 bp):
GCGGCGCTTAAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCC
GCTAAAGATCATGTTCTTTA
Found at i:15939016 original size:127 final size:128
Alignment explanation
Indices: 15938853--15939116 Score: 372
Period size: 127 Copynumber: 2.1 Consensus size: 128
15938843 CTAACTTTTT
* * ** *
15938853 GCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAAAAAAACGC
1 GCGGCGC-TACAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGAACTAAGAAAAAAACGC
* * *
15938918 CGCTAAAT-ATCATGTTCTTTAGCGGCGCTTGTGCAAA-AAACGCTGCTAAAGATCATGTTCTTT
65 CACT-AATGATCATGTTCTTTAGCGGCGCTTG-GCAAAGAAACGCCGCTAAAGATCATATTCTTT
15938981 A
128 A
* *
15938982 GCGGCGCTA-AGAAAAAAATGCCACTAAAGATCATGTTCTTTAGCTGAACTAAGAAAAAAACGCC
1 GCGGCGCTACAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGAACTAAGAAAAAAACGCC
* *
15939046 ACTAATGATCGTGTTCTTTAGCGGCGCTTGGGAAAGAAACGCCGCTAAAGATCATATTCTTTA
66 ACTAATGATCATGTTCTTTAGCGGCGCTTGGCAAAGAAACGCCGCTAAAGATCATATTCTTTA
15939109 GCGGCGCT
1 GCGGCGCT
15939117 TTATCTACAA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
126 7 0.06
127 105 0.87
128 2 0.02
129 7 0.06
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (128 bp):
GCGGCGCTACAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGAACTAAGAAAAAAACGCC
ACTAATGATCATGTTCTTTAGCGGCGCTTGGCAAAGAAACGCCGCTAAAGATCATATTCTTTA
Found at i:15939632 original size:21 final size:21
Alignment explanation
Indices: 15939608--15939664 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
15939598 GCTTCTCTCG
15939608 CTGCTTCTCTTGCTGCGGCAT
1 CTGCTTCTCTTGCTGCGGCAT
15939629 CTGCTTCTCTTGCTGCGGCAT
1 CTGCTTCTCTTGCTGCGGCAT
*
15939650 CTGCTTCTTTTGCTG
1 CTGCTTCTCTTGCTG
15939665 TAAACTCTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.04, C:0.32, G:0.23, T:0.42
Consensus pattern (21 bp):
CTGCTTCTCTTGCTGCGGCAT
Found at i:15942051 original size:27 final size:27
Alignment explanation
Indices: 15942013--15942066 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15942003 CCTTGGGATA
15942013 GCCATTTAACTTCGTCGTTTACGCTCT
1 GCCATTTAACTTCGTCGTTTACGCTCT
15942040 GCCATTTAACTTCGTCGTTTACGCTCT
1 GCCATTTAACTTCGTCGTTTACGCTCT
15942067 TCCCACTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.41
Consensus pattern (27 bp):
GCCATTTAACTTCGTCGTTTACGCTCT
Found at i:15945278 original size:16 final size:17
Alignment explanation
Indices: 15945253--15945369 Score: 71
Period size: 16 Copynumber: 6.8 Consensus size: 17
15945243 TACCAAATTA
*
15945253 ATGTATGTTATGTAAGT
1 ATGTAAGTTATGTAAGT
*
15945270 -TGTAAGTTAT-TATGTATT
1 ATGTAAGTTATGTA---AGT
*
15945288 ATGTAAGTTATGT-ATT
1 ATGTAAGTTATGTAAGT
*
15945304 ATGTAGGTTATGTAAGTT
1 ATGTAAGTTATGTAAG-T
* * *
15945322 GTGTAAGATATTTAAGTT
1 ATGTAAGTTATGTAAG-T
* * *
15945340 ATGTAAGTTTTG-CATT
1 ATGTAAGTTATGTAAGT
15945356 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
15945370 TGCTATGTAT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.03
16 36 0.47
17 2 0.03
18 25 0.33
19 10 0.13
20 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (17 bp):
ATGTAAGTTATGTAAGT
Found at i:15945284 original size:19 final size:19
Alignment explanation
Indices: 15945260--15945298 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15945250 TTAATGTATG
15945260 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
15945279 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
15945298 T
1 T
15945299 GTATTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:15945300 original size:9 final size:9
Alignment explanation
Indices: 15945253--15945369 Score: 95
Period size: 9 Copynumber: 13.6 Consensus size: 9
15945243 TACCAAATTA
*
15945253 ATGTATGTT
1 ATGTAAGTT
15945262 ATGTAAG-T
1 ATGTAAGTT
15945270 -TGTAAGTT
1 ATGTAAGTT
*
15945278 AT-TATGTATT
1 ATGTAAG--TT
15945288 ATGTAAGTT
1 ATGTAAGTT
15945297 ATGT-A-TT
1 ATGTAAGTT
*
15945304 ATGTAGGTT
1 ATGTAAGTT
15945313 ATGTAAGTT
1 ATGTAAGTT
* *
15945322 GTGTAAGAT
1 ATGTAAGTT
*
15945331 ATTTAAGTT
1 ATGTAAGTT
15945340 ATGTAAGTT
1 ATGTAAGTT
* *
15945349 TTG-CA-TT
1 ATGTAAGTT
15945356 ATGTAAGTT
1 ATGTAAGTT
15945365 ATGTA
1 ATGTA
15945370 TGCTATGTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
7 16 0.19
8 8 0.10
9 53 0.63
10 4 0.05
11 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:15945320 original size:25 final size:24
Alignment explanation
Indices: 15945280--15945385 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
15945270 TGTAAGTTAT
15945280 TATGTA-TTATGTAAGTTATGTAT
1 TATGTAGTTATGTAAGTTATGTAT
* *
15945303 TATGTAGGTTATGTAAGTTGTGTAAGA
1 TATGTA-GTTATGTAAGTTATGT-A-T
* * *
15945330 TATTTAAGTTATGTAAGTTTTGCAT
1 TATGT-AGTTATGTAAGTTATGTAT
* *
15945355 TATGTAAGTTATGTATGCTATGTAT
1 TATGT-AGTTATGTAAGTTATGTAT
*
15945380 AATGTA
1 TATGTA
15945386 AGTTGTTATG
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
23 6 0.09
24 1 0.02
25 38 0.58
26 2 0.03
27 18 0.27
28 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (24 bp):
TATGTAGTTATGTAAGTTATGTAT
Found at i:15945359 original size:52 final size:50
Alignment explanation
Indices: 15945253--15945369 Score: 137
Period size: 52 Copynumber: 2.3 Consensus size: 50
15945243 TACCAAATTA
* * * *
15945253 ATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTATT
1 ATGTAAGTTATGTAAGTTGTAAGATATTAAG-ATTATGTAAGTTATGCATT
* *
15945304 ATGTAGGTTATGTAAGTTGTGTAAGATATTTAAG-TTATGTAAGTTTTGCATT
1 ATGTAAGTTATGTAAG-T-TGTAAGATA-TTAAGATTATGTAAGTTATGCATT
15945356 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
15945370 TGCTATGTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 15 0.26
52 30 0.53
53 8 0.14
54 4 0.07
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (50 bp):
ATGTAAGTTATGTAAGTTGTAAGATATTAAGATTATGTAAGTTATGCATT
Found at i:15945414 original size:19 final size:19
Alignment explanation
Indices: 15945373--15945416 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
15945363 TTATGTATGC
**
15945373 TATGTATAATGTAAGTTGT
1 TATGTATAATGTAAGTTAA
15945392 TATGTATAATGTAAGTTAA
1 TATGTATAATGTAAGTTAA
15945411 TATGTA
1 TATGTA
15945417 AGTAATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
TATGTATAATGTAAGTTAA
Found at i:15945507 original size:13 final size:15
Alignment explanation
Indices: 15945488--15945528 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
15945478 CATATACGTT
15945488 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
15945502 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
15945516 TTATGTAAGTTAT
1 -TATGTAAGTTAT
15945529 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:15945523 original size:16 final size:16
Alignment explanation
Indices: 15945279--15945564 Score: 123
Period size: 16 Copynumber: 17.4 Consensus size: 16
15945269 TTGTAAGTTA
15945279 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
15945295 TTATGTATTATGTAGG
1 TTATGTATTATGTAAG
*
15945311 TTATGTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
* *
15945329 ATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
* *
15945347 TTTTGCATTATGTAAG
1 TTATGTATTATGTAAG
15945363 TTATGTATGCTATGT-A-
1 TTATGTAT--TATGTAAG
* *
15945379 TAATGTA--A-GT-TG
1 TTATGTATTATGTAAG
*
15945391 TTATGTATAATGTAAG
1 TTATGTATTATGTAAG
15945407 TTA---A-TATGTAAG
1 TTATGTATTATGTAAG
*
15945419 TAATGTATTATGTAAG
1 TTATGTATTATGTAAG
* *
15945435 TTTATATAAAAATTTTATATAAG
1 -TTATGT----A--TTATGTAAG
15945458 TTATGTATTATGTAAGG
1 TTATGTATTATGTAA-G
15945475 TAACATATACGT-TTATGTAAG
1 T----TAT--GTATTATGTAAG
15945496 TTATG-A--ATGTAAG
1 TTATGTATTATGTAAG
15945509 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
* *
15945525 TTATTTAAATTATTTAAG
1 TTATGT--ATTATGTAAG
* *
15945543 TTGTGTATTATATAAG
1 TTATGTATTATGTAAG
*
15945559 TCATGT
1 TTATGT
15945565 TGCTATGTGT
Statistics
Matches: 207, Mismatches: 30, Indels: 66
0.68 0.10 0.22
Matches are distributed among these distances:
11 2 0.01
12 16 0.08
13 13 0.06
14 2 0.01
15 4 0.02
16 86 0.42
17 12 0.06
18 43 0.21
21 6 0.03
22 13 0.06
23 10 0.05
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:15947207 original size:21 final size:21
Alignment explanation
Indices: 15947166--15947211 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
15947156 TAAATTTTAG
*
15947166 TTTTTTTATTTCATTTTTATAT
1 TTTTTTTATTT-ATTTATATAT
15947188 TTTTTTTATTT-TTTCATATAT
1 TTTTTTTATTTATTT-ATATAT
15947209 TTT
1 TTT
15947212 GATCCTATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 8 0.36
22 11 0.50
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTATTTATTTATATAT
Found at i:15954222 original size:16 final size:17
Alignment explanation
Indices: 15954197--15954229 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15954187 TTTAATTAAT
15954197 TTTTTAAAAATAAAAAA
1 TTTTTAAAAATAAAAAA
*
15954214 TTTTTAAAATTAAAAA
1 TTTTTAAAAATAAAAA
15954230 TCATTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTTTAAAAATAAAAAA
Found at i:15954224 original size:9 final size:9
Alignment explanation
Indices: 15954210--15954256 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
15954200 TTAAAAATAA
15954210 AAAATTTTT
1 AAAATTTTT
*
15954219 AAAA--TTA
1 AAAATTTTT
**
15954226 AAAATCATT
1 AAAATTTTT
15954235 AAAATTTTT
1 AAAATTTTT
15954244 AAAATTTTT
1 AAAATTTTT
15954253 AAAA
1 AAAA
15954257 AATTATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
7 6 0.19
9 25 0.81
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAATTTTT
Found at i:15956122 original size:33 final size:34
Alignment explanation
Indices: 15956080--15956170 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
15956070 ATTTGTTTAA
15956080 AAATACTTAAGTGTCTAAT-GT-TATTTATAACGGT
1 AAAT-CTTAAGTGTC-AATAGTATATTTATAACGGT
* * *
15956114 AAATCTTAATTTTCATTAGTATATTTATAACGGT
1 AAATCTTAAGTGTCAATAGTATATTTATAACGGT
* * *
15956148 AAATCTTAATTTTCATTAGTATA
1 AAATCTTAAGTGTCAATAGTATA
15956171 AAACAATAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 2 0.04
33 10 0.19
34 40 0.77
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (34 bp):
AAATCTTAAGTGTCAATAGTATATTTATAACGGT
Found at i:15956139 original size:34 final size:34
Alignment explanation
Indices: 15956101--15956170 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
15956091 TGTCTAATGT
15956101 TATTTATAACGGTAAATCTTAATTTTCATTAGTA
1 TATTTATAACGGTAAATCTTAATTTTCATTAGTA
15956135 TATTTATAACGGTAAATCTTAATTTTCATTAGTA
1 TATTTATAACGGTAAATCTTAATTTTCATTAGTA
15956169 TA
1 TA
15956171 AAACAATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (34 bp):
TATTTATAACGGTAAATCTTAATTTTCATTAGTA
Found at i:15962192 original size:43 final size:42
Alignment explanation
Indices: 15962137--15962254 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 42
15962127 ATATGGGATA
* *
15962137 TGGCATCGATATGAGACTTTATGTAAGACCATGTCTAGGAC-AT
1 TGGCATCAATATGAGA-TTTATGTAAGACCATGGCT-GGACTAT
* * * *
15962180 TGGCATCAATATGTGATTTCGTGTAAGGCCATGGCTGGGCTAT
1 TGGCATCAATATGAGATTT-ATGTAAGACCATGGCTGGACTAT
* *
15962223 TGGCATCAATACGAGATTACATGTAAGACCAT
1 TGGCATCAATATGAGATT-TATGTAAGACCAT
15962255 ATCTGAGATA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 6 0.10
43 55 0.90
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGCATCAATATGAGATTTATGTAAGACCATGGCTGGACTAT
Found at i:15967928 original size:13 final size:13
Alignment explanation
Indices: 15967910--15967934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15967900 TCATTCATAG
15967910 TACATGCATACTA
1 TACATGCATACTA
15967923 TACATGCATACT
1 TACATGCATACT
15967935 GTCCCAAAAT
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
TACATGCATACTA
Found at i:15968909 original size:38 final size:38
Alignment explanation
Indices: 15968847--15969087 Score: 347
Period size: 38 Copynumber: 6.3 Consensus size: 38
15968837 ACACCAGCAA
* *
15968847 TAAGTCTGAATAACACCGGCACTAAGCCTGCTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
* * * *
15968885 TAAGCCTGAATAACACTGAAACTAAACCTACTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
* * *
15968923 AAAGCTTGAATAACACCAACACTAAGCCTGCTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
* *
15968961 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
* **
15968999 AAAGCCTGAATAACAGTGACACTAAGCCTGCTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
15969037 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
1 TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
*
15969075 AAAGCCTGAATAA
1 TAAGCCTGAATAA
15969088 TAGTACAATT
Statistics
Matches: 176, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 176 1.00
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (38 bp):
TAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
Found at i:15968963 original size:16 final size:16
Alignment explanation
Indices: 15968942--15969044 Score: 62
Period size: 16 Copynumber: 5.7 Consensus size: 16
15968932 ATAACACCAA
15968942 CACTAAGCCTGCTAGG
1 CACTAAGCCTGCTAGG
*
15968958 CACTAAGCCTGAATAACACCGG
1 CACTAAGCCTG-CT---A--GG
*
15968980 CACTAAGCCTACTAGG
1 CACTAAGCCTGCTAGG
* *
15968996 CACAAAGCCTGAATAACAGTG
1 CACTAAGCCTG-CT---AG-G
15969017 ACACTAAGCCTGCTAGG
1 -CACTAAGCCTGCTAGG
15969034 CACTAAGCCTG
1 CACTAAGCCTG
15969045 AATAACACCG
Statistics
Matches: 67, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
16 33 0.49
17 3 0.04
18 3 0.04
20 3 0.04
21 3 0.04
22 22 0.33
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (16 bp):
CACTAAGCCTGCTAGG
Found at i:15968984 original size:22 final size:20
Alignment explanation
Indices: 15968955--15969066 Score: 78
Period size: 22 Copynumber: 5.7 Consensus size: 20
15968945 TAAGCCTGCT
15968955 AGGCACTAAGCCTGAATAAC
1 AGGCACTAAGCCTGAATAAC
*
15968975 ACCGGCACTAAGCCT-ACT---
1 A--GGCACTAAGCCTGAATAAC
*
15968993 AGGCACAAAGCCTGAATAAC
1 AGGCACTAAGCCTGAATAAC
*
15969013 AGTGACACTAAGCCTG-CT---
1 AG-G-CACTAAGCCTGAATAAC
15969031 AGGCACTAAGCCTGAATAAC
1 AGGCACTAAGCCTGAATAAC
*
15969051 ACCGACACTAAGCCTG
1 A--GGCACTAAGCCTG
15969067 CTAGGCACAA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
16 22 0.31
17 4 0.06
18 3 0.04
20 4 0.06
21 4 0.06
22 34 0.48
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (20 bp):
AGGCACTAAGCCTGAATAAC
Found at i:15968985 original size:76 final size:76
Alignment explanation
Indices: 15968852--15969087 Score: 382
Period size: 76 Copynumber: 3.1 Consensus size: 76
15968842 AGCAATAAGT
* * * *
15968852 CTGAATAACACCGGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGAAACTAAACCTACT
1 CTGAATAACACCGACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTACT
15968917 AGGCACAAAGC
66 AGGCACAAAGC
* * *
15968928 TTGAATAACACCAACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGGCACTAAGCCTACT
1 CTGAATAACACCGACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTACT
15968993 AGGCACAAAGC
66 AGGCACAAAGC
** *
15969004 CTGAATAACAGTGACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTGCT
1 CTGAATAACACCGACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTACT
15969069 AGGCACAAAGC
66 AGGCACAAAGC
15969080 CTGAATAA
1 CTGAATAA
15969088 TAGTACAATT
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 147 1.00
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (76 bp):
CTGAATAACACCGACACTAAGCCTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTACT
AGGCACAAAGC
Found at i:15969052 original size:114 final size:114
Alignment explanation
Indices: 15968847--15969087 Score: 383
Period size: 114 Copynumber: 2.1 Consensus size: 114
15968837 ACACCAGCAA
* * *
15968847 TAAGTCTGAATAACACCGGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGAAACTAAAC
1 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACTGAAACTAAAC
*
15968912 CTACTAGGCACAAAGCTTGAATAACACCAACACTAAGCCTGCTAGGCAC
66 CTACTAGGCACAAAGCCTGAATAACACCAACACTAAGCCTGCTAGGCAC
* * *
15968961 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAATAACAGTGACACTAAGC
1 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACTGAAACTAAAC
* * *
15969026 CTGCTAGGCACTAAGCCTGAATAACACCGACACTAAGCCTGCTAGGCAC
66 CTACTAGGCACAAAGCCTGAATAACACCAACACTAAGCCTGCTAGGCAC
*
15969075 AAAGCCTGAATAA
1 TAAGCCTGAATAA
15969088 TAGTACAATT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (114 bp):
TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAATAACACTGAAACTAAAC
CTACTAGGCACAAAGCCTGAATAACACCAACACTAAGCCTGCTAGGCAC
Found at i:15974551 original size:20 final size:20
Alignment explanation
Indices: 15974515--15974552 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15974505 TTATGATTTT
*
15974515 TTTTATTTGTTTTATTTTAA
1 TTTTATTTGTTTGATTTTAA
15974535 TTTTATTT-TGTTGATTTT
1 TTTTATTTGT-TTGATTTT
15974553 GGACTGTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTATTTGTTTGATTTTAA
Found at i:15975481 original size:6 final size:6
Alignment explanation
Indices: 15975470--15975503 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15975460 TATTGTATTG
* *
15975470 TATTTA TATTTA TATTTA TATTTA AATATA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
15975504 GATTGATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATTTA
Found at i:15987722 original size:16 final size:16
Alignment explanation
Indices: 15987701--15987768 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
15987691 TTTGGTTCGC
15987701 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15987717 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15987733 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
15987749 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
15987765 TGTA
1 TGTA
15987769 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15993948 original size:23 final size:23
Alignment explanation
Indices: 15993918--15993963 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15993908 TATTTTGATT
15993918 TTTGACTTTTATTTGGTTGGTGA
1 TTTGACTTTTATTTGGTTGGTGA
15993941 TTTGACTTTTATTTGGTTGGTGA
1 TTTGACTTTTATTTGGTTGGTGA
15993964 GAAAAGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.26, T:0.57
Consensus pattern (23 bp):
TTTGACTTTTATTTGGTTGGTGA
Found at i:15998372 original size:22 final size:20
Alignment explanation
Indices: 15998347--15998391 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
15998337 AATGTTTTTT
*
15998347 TTTTTAATTTGAACTTTTAAAA
1 TTTTTAATTTAAAC--TTAAAA
15998369 TTTTTAATTTAAACTTAAAA
1 TTTTTAATTTAAACTTAAAA
15998389 TTT
1 TTT
15998392 AGGGATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTAAACTTAAAA
Found at i:16003925 original size:20 final size:20
Alignment explanation
Indices: 16003902--16003949 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16003892 GAGCTCAAAC
* *
16003902 GAGCTGAATTAAGCTCATGT
1 GAGCTGAATTAAACTCATCT
*
16003922 GAGCTAAATTAAACTCATCT
1 GAGCTGAATTAAACTCATCT
*
16003942 AAGCTGAA
1 GAGCTGAA
16003950 CCAAGCTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (20 bp):
GAGCTGAATTAAACTCATCT
Found at i:16019248 original size:34 final size:35
Alignment explanation
Indices: 16019210--16019291 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
16019200 ATTATGTGTT
* *
16019210 ATTTTTAAATACATCC-ATGTATTTTAAATACTTA
1 ATTTTTAAATACATCCTATATATTTTAAATACATA
* *
16019244 ATTTTTAAACACA-CCTCTATATTTTAAATACATA
1 ATTTTTAAATACATCCTATATATTTTAAATACATA
*
16019278 ATTTTTACATACAT
1 ATTTTTAAATACAT
16019292 ATACATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.39, C:0.15, G:0.01, T:0.45
Consensus pattern (35 bp):
ATTTTTAAATACATCCTATATATTTTAAATACATA
Found at i:16022777 original size:15 final size:15
Alignment explanation
Indices: 16022751--16022792 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
16022741 TAAAATTTTA
16022751 AAAAATATATAAAAATT
1 AAAAATATA-AAAAA-T
16022768 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
16022783 -AAAATATAAA
1 AAAAATATAAA
16022793 GAACTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 5 0.20
17 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:16022800 original size:15 final size:14
Alignment explanation
Indices: 16022752--16022802 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
16022742 AAAATTTTAA
16022752 AAAATATATAAAAATT
1 AAAATATA-AAAAA-T
16022768 AAAAATATAAAAAAT
1 -AAAATATAAAAAAT
*
16022783 AAAATATAAAGAACT
1 AAAATATAAA-AAAT
16022798 AAAAT
1 AAAAT
16022803 TTTATGAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.31
15 9 0.28
16 5 0.16
17 8 0.25
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATATAAAAAAT
Found at i:16023012 original size:28 final size:28
Alignment explanation
Indices: 16022951--16023013 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
16022941 ATTTTTTTAC
* * *
16022951 TAATTTATATATTTTATTTTTTAAAAAA
1 TAATATATATATTTTATATTTCAAAAAA
*
16022979 TTATATATATATTTTA-ATTTCAAAATAA
1 TAATATATATATTTTATATTTCAAAA-AA
16023007 TAATATA
1 TAATATA
16023014 AATAACTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TAATATATATATTTTATATTTCAAAAAA
Found at i:16025191 original size:7 final size:7
Alignment explanation
Indices: 16025179--16025207 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
16025169 TTAAATTATG
16025179 ATCAATA
1 ATCAATA
16025186 ATCAATA
1 ATCAATA
16025193 ATCAATA
1 ATCAATA
16025200 ATCAATA
1 ATCAATA
16025207 A
1 A
16025208 ATGGCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
ATCAATA
Found at i:16033476 original size:65 final size:65
Alignment explanation
Indices: 16033404--16033535 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 65
16033394 TATTTCGTTC
* *
16033404 ATTAAATTATTAAAACATTACATGTATAATTTAAAATGTAAACTATGTTTTTCATAGTTGTACAA
1 ATTAAATTATTAAAACATTACATGTATAATTCAAAATGTAAACTATATTTTTCATAGTTGTACAA
16033469 ATTAAATTATTAAAACATTACATGTATAATTCAAAATGTAAACTATATTTTTCATAGTTGTACAA
1 ATTAAATTATTAAAACATTACATGTATAATTCAAAATGTAAACTATATTTTTCATAGTTGTACAA
16033534 AT
1 AT
16033536 AATTAAGAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (65 bp):
ATTAAATTATTAAAACATTACATGTATAATTCAAAATGTAAACTATATTTTTCATAGTTGTACAA
Found at i:16044219 original size:14 final size:14
Alignment explanation
Indices: 16044197--16044234 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
16044187 TATAATACAT
*
16044197 GAAAAGTTATCATA
1 GAAAGGTTATCATA
16044211 GAAAGGTTATCATA
1 GAAAGGTTATCATA
16044225 GAAAGGTTAT
1 GAAAGGTTAT
16044235 GTCGAACCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (14 bp):
GAAAGGTTATCATA
Found at i:16048350 original size:17 final size:17
Alignment explanation
Indices: 16048328--16048365 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16048318 AAATTAGTCC
16048328 TTTTTATT-TTCTTTATT
1 TTTTTATTATT-TTTATT
16048345 TTTTTATTAATTTTTATT
1 TTTTTATT-ATTTTTATT
16048363 TTT
1 TTT
16048366 CATATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 9 0.47
19 2 0.11
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTATTTTTATT
Found at i:16048487 original size:30 final size:28
Alignment explanation
Indices: 16048436--16048496 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
16048426 CATACGCATA
16048436 TTTATTTTTTTAATATAATGTAATTATT
1 TTTATTTTTTTAATATAATGTAATTATT
* *
16048464 TTTATTTTATTTTATTTATATGTAATTATT
1 TTTATTTT-TTTAATATA-ATGTAATTATT
16048494 TTT
1 TTT
16048497 TTATAATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 7 0.24
30 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (28 bp):
TTTATTTTTTTAATATAATGTAATTATT
Done.