Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 157 of 216
Found at i:49384928 original size:54 final size:53
Alignment explanation
Indices: 49384843--49385003 Score: 142
Period size: 54 Copynumber: 3.0 Consensus size: 53
49384833 GAGCATGGCC
* ** * * *
49384843 TTCTACTTACGTGGTTTTACAAATATTATGGTATGTTGATTTACAATCATGACA
1 TTCTACTTACGAGAATTTACAAATCTCATGGT-TGTTGATTTACAATCACGACA
* ** * * *
49384897 TTTTACTTACGAGAATTTATGAATCTCATGGTTCGCTGATTGACAATCACGACC
1 TTCTACTTACGAGAATTTACAAATCTCATGGTT-GTTGATTTACAATCACGACA
* * * **
49384951 TTCTACTTACGGGATTTTACAAATCTCGTGGCCCGTTGATTTACAATCACGAC
1 TTCTACTTACGAGAATTTACAAATCTCATGG-TTGTTGATTTACAATCACGAC
49385004 TTGCTGCATA
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
53 1 0.01
54 82 0.99
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (53 bp):
TTCTACTTACGAGAATTTACAAATCTCATGGTTGTTGATTTACAATCACGACA
Found at i:49386815 original size:125 final size:124
Alignment explanation
Indices: 49386648--49386925 Score: 412
Period size: 125 Copynumber: 2.2 Consensus size: 124
49386638 TCCTCTCAAT
** * * *
49386648 TTCCAGGACCTACTGTAGCAAAAGAACGTCCACAAGGGCGCGATTTCACAAATTCTTCTCAAATA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
** * **
49386713 GCATCCTGCTAGAAGTGATTTTATACTATTTTCTCAAAAATTTCAACTCAAAATTATATC
66 GCATCCTGCTAGAAGCAATTTTATACTATTTACTCAAAAACGTCAACTCAAAATTAT-TC
*
49386773 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTATCAAACA
1 TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
* * *
49386838 GCATCTTGCTAGAAGCAATTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTT
66 GCATCCTGCTAGAAGCAATTTTATACTATTTACTCAAAAACGTCAACTCAAAATTATTC
*
49386897 TTTCAGGACCTACTGTAGCAAAAGCGCGT
1 TTCCAGGACCTACTGTAGCAAAAGCGCGT
49386926 AAACATAGGC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
124 29 0.21
125 109 0.79
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACAAGGCCGCGATTTCACAAATTCTTATCAAACA
GCATCCTGCTAGAAGCAATTTTATACTATTTACTCAAAAACGTCAACTCAAAATTATTC
Found at i:49387501 original size:41 final size:41
Alignment explanation
Indices: 49387456--49387534 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
49387446 GAGAAAGAAA
49387456 GCATAACAAGGAAGGAGGTTAAGAAACATGGAACCCCAATT
1 GCATAACAAGGAAGGAGGTTAAGAAACATGGAACCCCAATT
49387497 GCATAACAAGGAAGGAGGTTAAGAAACATGGAACCCCA
1 GCATAACAAGGAAGGAGGTTAAGAAACATGGAACCCCA
49387535 TTAATTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (41 bp):
GCATAACAAGGAAGGAGGTTAAGAAACATGGAACCCCAATT
Found at i:49396718 original size:21 final size:21
Alignment explanation
Indices: 49396694--49396733 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49396684 AGGTTAGTAT
49396694 ATTTTAGT-TTTATCCTTTTTA
1 ATTTT-GTATTTATCCTTTTTA
*
49396715 ATTTTTTATTTATCCTTTT
1 ATTTTGTATTTATCCTTTT
49396734 ATCTCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTGTATTTATCCTTTTTA
Found at i:49398522 original size:51 final size:49
Alignment explanation
Indices: 49398467--49398582 Score: 128
Period size: 52 Copynumber: 2.3 Consensus size: 49
49398457 TTAATTAATA
* *
49398467 TTAAAATTTTAAAAAATTCA-AAAAGATTAT-AAAAATTATTTTTAAAAATCG
1 TTAAAATTTTAAAAAAGT-ATAAAA-ATTATAAAAAAATATTTTT-AAAAT-G
* *
49398518 TTAAAATTATTTAAAAAGTATAAAAATTATAAAAAAATATTTTTAATATG
1 TTAAAATT-TTAAAAAAGTATAAAAATTATAAAAAAATATTTTTAAAATG
*
49398568 TTTAAATTTTAAAAA
1 TTAAAATTTTAAAAA
49398583 TTAATTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
49 6 0.11
50 8 0.14
51 18 0.32
52 24 0.43
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (49 bp):
TTAAAATTTTAAAAAAGTATAAAAATTATAAAAAAATATTTTTAAAATG
Found at i:49398543 original size:20 final size:21
Alignment explanation
Indices: 49398494--49398547 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
49398484 TCAAAAAGAT
49398494 TATAAAAATTATTTTTAAAAATCG
1 TATAAAAATTA--TTTAAAAA-CG
49398518 T-T-AAAATTATTTAAAAA-G
1 TATAAAAATTATTTAAAAACG
49398536 TATAAAAATTAT
1 TATAAAAATTAT
49398548 AAAAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 16 0.57
22 7 0.25
23 1 0.04
24 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
TATAAAAATTATTTAAAAACG
Found at i:49404422 original size:15 final size:15
Alignment explanation
Indices: 49404398--49404432 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
49404388 AAATATATAT
*
49404398 GAACAGTAATCAATG
1 GAACAATAATCAATG
49404413 GAACAATAATCAATG
1 GAACAATAATCAATG
49404428 GAACA
1 GAACA
49404433 GTAAAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
GAACAATAATCAATG
Found at i:49411271 original size:18 final size:18
Alignment explanation
Indices: 49411235--49411272 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49411225 TGATTTTCAG
*
49411235 GAAGATAAACAAAGGGTT
1 GAAGATAAACAAAGAGTT
49411253 GAAGA-AAACAATAGAGTT
1 GAAGATAAACAA-AGAGTT
49411271 GA
1 GA
49411273 GATCTTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAGATAAACAAAGAGTT
Found at i:49415160 original size:3 final size:3
Alignment explanation
Indices: 49415152--49415176 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49415142 GCATACTTAT
49415152 GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG G
49415177 GTTAAGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:49416946 original size:5 final size:5
Alignment explanation
Indices: 49416936--49416961 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49416926 TTTTTAAAAT
49416936 TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA T
49416962 TGTAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:49422407 original size:172 final size:172
Alignment explanation
Indices: 49422121--49422641 Score: 997
Period size: 172 Copynumber: 3.0 Consensus size: 172
49422111 CTCGAAACCA
*
49422121 AATAAGATAATCACTTGGTAAATATTGTAATACCATATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
*
49422186 GATGCAAATATTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
49422251 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
49422293 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
*
49422358 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATGACAT
66 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
49422423 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
49422465 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
1 AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
49422530 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
66 GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
* *
49422595 TTGAATTTAATAACAAACTAAATTGATTGTTTCTAAATGAAT
131 TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
49422637 AATAA
1 AATAA
49422642 TATCCAAATT
Statistics
Matches: 343, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 343 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (172 bp):
AATAAGATAATCACTTGGTAAATATTGTAATACCAAATGTTTCCACATGTAAGGTTTCATTTTAG
GATGCAAATGTTTCTAGCAAATAAAAGGTTGTCATAAATATTTAAATAACCAGTTCCAATAACAT
TTGAATTTAATAACAAACTAAATTGATTGTTTCCAAATGAAC
Found at i:49423417 original size:417 final size:418
Alignment explanation
Indices: 49422606--49423445 Score: 1095
Period size: 417 Copynumber: 2.0 Consensus size: 418
49422596 TGAATTTAAT
* *
49422606 AACAAACTAAATTGATTGTTTCTAAATGAATAATAATATCCAAATTTGTCCAACAAAAAAACATA
1 AACAAACTAAACTGATTGTTTCTAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
* ** *
49422671 AACTAAATTGTGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATGAAAATTAAAAA
66 AACTAAACTCCGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
* * *
49422736 AAGTTCCTAATAACAACCTAAAATGCCCAATTACTTCTACTTCCATCGATTTTCTATTGCCCACG
131 AAGTTCCTAATAACAACCTAAAATGCCCAATTACTTCCACTTCCACCGATTTTCTATTGCCCACA
* * * * *
49422801 ATGATGTGTCTTTCACCATCACTTGACTTTCGGTAGCTTAGACAGCCTTGCATAGAAACACTTAT
196 AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACACTTAT
* * *
49422866 GTGAGTAGTAGAACCAGAATCTATCCACCAGGTGTTTCTAGATACTGAAACTAAATTAACCTTAG
261 GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
* * **
49422931 AACATACTAAAGTAAGAATTACACCTTTATTTGCACGCCAAGCATCATATTTAACACATTCTTTC
326 AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTTAACACATTCTTTC
* *
49422996 TTCACATGTCTAGACTCGTTACAAAAGA
391 TTCACATGTCCAAACTCGTTACAAAAGA
* *
49423024 AACAAACTAAACTGATTGTTT-TCGAATGAACAATAATATCCAAAATTT-TCCAACAAAGAAACA
1 AACAAACTAAACTGATTGTTTCT-AAATGAACAATAATATCC-AAATTTGTCCAACAAAAAAACA
* *
49423087 TAAACTAAACTCCGTCTAAAAGAC-GATACAACAAAATTGTTTTTTAAATCTAAATAAAAATTAA
64 TAAACTAAACTCCGTCTAAAAGACAG-TACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAA
* * * * *
49423151 ATAAA-TTCCTAATAGCAACCTAAAATGCCCAAATTGCTTCCATTTCTACCGATTTT-TCATTGC
128 AAAAAGTTCCTAATAACAACCTAAAATGCCC-AATTACTTCCACTTCCACCGATTTTCT-ATTGC
* * * *
49423214 CCACAAAGATGTGTCTTTTAACACCACTTGGCTTTC-GTAGCTCAGGCAACCTTGCATAGGAACA
191 CCACAAAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACA
* * *
49423278 CTTATGTGAGTAGTAGAACTAAAAGT-TATCCACCAAGTGTTTCTAGGCACTGAAACTAACTTAA
256 CTTATGTGAGTAGTAGAACCAAAA-TCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAA
* * * * * * ** * *
49423342 -TTTCAGAACAGGCCAAAGTAAGAATTATAAATTTATTTGCAGGCTAGGTGTGATATTTGGA-AC
320 CCTT-AGAACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTT-AACAC
*
49423405 ATTCTTTCTTCACATGTCCAAACTTGTTACAAAAGA
383 ATTCTTTCTTCACATGTCCAAACTCGTTACAAAAGA
49423441 AACAA
1 AACAA
49423446 CTCTCTGTAA
Statistics
Matches: 364, Mismatches: 50, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
416 2 0.01
417 189 0.52
418 167 0.46
419 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (418 bp):
AACAAACTAAACTGATTGTTTCTAAATGAACAATAATATCCAAATTTGTCCAACAAAAAAACATA
AACTAAACTCCGTCTAAAAGACAGTACAACAAAACTGTCTTTTAAATCTAAATAAAAATTAAAAA
AAGTTCCTAATAACAACCTAAAATGCCCAATTACTTCCACTTCCACCGATTTTCTATTGCCCACA
AAGATGTGTCTTTCAACACCACTTGACTTTCGGTAGCTCAGACAACCTTGCATAGAAACACTTAT
GTGAGTAGTAGAACCAAAATCTATCCACCAAGTGTTTCTAGACACTGAAACTAAATTAACCTTAG
AACAGACCAAAGTAAGAATTACAAATTTATTTGCACGCCAAGCATCATATTTAACACATTCTTTC
TTCACATGTCCAAACTCGTTACAAAAGA
Found at i:49427012 original size:25 final size:25
Alignment explanation
Indices: 49426970--49427022 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
49426960 ATTAGTAGAT
*
49426970 ATATATTATCTTAAAAATTATAAA-A
1 ATATACTATCTTAAAAATT-TAAAGA
49426995 ATATACTAT-TTAATAAATTTAAAGA
1 ATATACTATCTTAA-AAATTTAAAGA
49427020 ATA
1 ATA
49427023 AACATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATATACTATCTTAAAAATTTAAAGA
Found at i:49427429 original size:16 final size:15
Alignment explanation
Indices: 49427393--49427431 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
49427383 GTTTAGTCCC
*
49427393 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGGT
49427408 TA-GGTTTTTTAGGGT
1 TAGGGTTTTTT-GGGT
49427423 TAGGGTTTT
1 TAGGGTTTT
49427432 GTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
16 6 0.29
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.56
Consensus pattern (15 bp):
TAGGGTTTTTTGGGT
Found at i:49427492 original size:21 final size:21
Alignment explanation
Indices: 49427426--49427492 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
49427416 TTAGGGTTAG
49427426 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
* ** *** ** *
49427447 GATTAGGTTTGTATGGTTTAG
1 GGTTTTGTTAAAATAATTTAA
49427468 GGTTTTGTTAAAATAATTTAA
1 GGTTTTGTTAAAATAATTTAA
49427489 GGTT
1 GGTT
49427493 CTAGGTTTTA
Statistics
Matches: 28, Mismatches: 18, Indels: 0
0.61 0.39 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
GGTTTTGTTAAAATAATTTAA
Found at i:49427582 original size:34 final size:33
Alignment explanation
Indices: 49427538--49427654 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
49427528 TTATTGTTCT
*
49427538 TTTTTTAAAAATTAATTAAATTAGAGTTTAAGGG
1 TTTTTAAAAAATTAATTAAATTAGAGTTT-AGGG
* * * *
49427572 TTTTTAAAAAATTAATTAATTTTGGGTTTAGTG
1 TTTTTAAAAAATTAATTAAATTAGAGTTTAGGG
* * ***
49427605 TTTTTAAAAAAATTAATTAAATTTGGGTTTATTT
1 TTTTT-AAAAAATTAATTAAATTAGAGTTTAGGG
*
49427639 TTTTTAAAAAAATAAT
1 TTTTTAAAAAATTAAT
49427655 ATTGTGTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
33 18 0.25
34 55 0.75
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGAGTTTAGGG
Found at i:49427934 original size:125 final size:126
Alignment explanation
Indices: 49427711--49428043 Score: 474
Period size: 125 Copynumber: 2.7 Consensus size: 126
49427701 GATTTTAGTT
* * * * * *
49427711 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTAAACAATTAGAGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * *
49427776 ATGA-TTCAAGTAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCTACGTGGACACTC
66 AT-ACTTCAAGCAGGATGCACTATCAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
*
49427837 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGTGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * *
49427901 ATACTTCAAGCAGGATGCATTGA-CAGCAAAATTGAAGAAAGAAGCTCCCACGTGGACGCTC
66 ATACTTCAAGCAGGATGCACT-ATCAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
*
49427962 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
** *
49428027 ACGCTTCAAGCATGATG
66 ATACTTCAAGCAGGATG
49428044 GGACATGTAC
Statistics
Matches: 186, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
124 1 0.01
125 108 0.58
126 77 0.41
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ATACTTCAAGCAGGATGCACTATCAGCAAAATTGAAGAAAAAAGCTCCCACGTGGACACTC
Found at i:49429246 original size:21 final size:21
Alignment explanation
Indices: 49429222--49429265 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
49429212 GTTCAGCTTT
*
49429222 CGGTGGGGGTTGGGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
*
49429243 CGGTGAGGGTTGTGGTTGCTC
1 CGGTGAGGGTTGGGGTTGCTC
49429264 CG
1 CG
49429266 ATTGTGGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.16, G:0.52, T:0.30
Consensus pattern (21 bp):
CGGTGAGGGTTGGGGTTGCTC
Found at i:49439894 original size:3 final size:3
Alignment explanation
Indices: 49439888--49439913 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49439878 AAAAGAAAAA
49439888 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
49439914 AGATAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49442743 original size:29 final size:29
Alignment explanation
Indices: 49442711--49442771 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
49442701 GCCTCAACGG
49442711 ACTTAGTACAATAATCTCATCAAAAGTAC
1 ACTTAGTACAATAATCTCATCAAAAGTAC
49442740 ACTTAGTACAATAATCTCATCAAAAGTAC
1 ACTTAGTACAATAATCTCATCAAAAGTAC
49442769 ACT
1 ACT
49442772 CAACATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (29 bp):
ACTTAGTACAATAATCTCATCAAAAGTAC
Found at i:49448379 original size:12 final size:12
Alignment explanation
Indices: 49448362--49448387 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49448352 CAAAACAGGC
49448362 TTTTAGCGGCGT
1 TTTTAGCGGCGT
49448374 TTTTAGCGGCGT
1 TTTTAGCGGCGT
49448386 TT
1 TT
49448388 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:49448585 original size:73 final size:72
Alignment explanation
Indices: 49448455--49448623 Score: 203
Period size: 73 Copynumber: 2.3 Consensus size: 72
49448445 AAAAAAAGCA
* * * * * * *
49448455 TTAGCGTCGTTTTTGAGCAAAACGCCGCAAATAACCTAAGCCCAATGACGCCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCATTTTCTGAACTT
*
49448520 TCGGGGAT
65 TCAGGGAT
*** *
49448528 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCCAAGCCCAACGATTTCGTTTTCTGAACTT
1 TTAGCGGCGTTTTTGGTAAAGCGCCGC-AAAAAACCCAAGCCCAACGACGCCATTTTCTGAACTT
*
49448593 TTAGGGAT
65 TCAGGGAT
49448601 TTAGCGGCGTTTTTGGTAAAGCG
1 TTAGCGGCGTTTTTGGTAAAGCG
49448624 TCGCTAAAGG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 10 0.12
73 72 0.88
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCATTTTCTGAACTTT
CAGGGAT
Found at i:49449035 original size:147 final size:146
Alignment explanation
Indices: 49448619--49449051 Score: 812
Period size: 146 Copynumber: 3.0 Consensus size: 146
49448609 GTTTTTGGTA
*
49448619 AAGCGTCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
* *
49448684 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAATGGTGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
49448749 TGCGGCGCTTTATAAG
131 TGCGGCGCTTTATAAG
*
49448765 AAGCGCCGCTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
49448830 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
66 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
49448895 TGCGGCGCTTTATAAG
131 TGCGGCGCTTTATAAG
49448911 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
1 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
*
49448976 TATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
66 TATAAAAAAAT-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATT
49449041 TTGCGGCGCTT
130 TTGCGGCGCTT
49449052 CCTATAAAAA
Statistics
Matches: 280, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
146 217 0.77
147 63 0.22
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (146 bp):
AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATT
TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTT
TGCGGCGCTTTATAAG
Found at i:49449142 original size:107 final size:108
Alignment explanation
Indices: 49448935--49449158 Score: 423
Period size: 107 Copynumber: 2.1 Consensus size: 108
49448925 GTAAGCAATA
*
49448935 GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAAATTTA
1 GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAAATTTA
49449000 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
66 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
*
49449043 GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT-AAAAAAATTTTA
1 GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAAATTTA
49449107 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
66 GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
49449150 GCGGCGCTT
1 GCGGCGCTT
49449159 TATAAGAAGC
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 63 0.55
108 51 0.45
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (108 bp):
GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAAATTTA
GAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTT
Found at i:49449142 original size:254 final size:253
Alignment explanation
Indices: 49448796--49449304 Score: 982
Period size: 254 Copynumber: 2.0 Consensus size: 253
49448786 ATAGCGGTGT
49448796 TTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCA
1 TTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCA
*
49448861 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGG
66 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAGCTAAAGG
49448926 TAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
131 TAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT-AAA
*
49448991 AAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGC
195 AAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
49449050 TTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCA
1 TTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCA
49449115 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAGCTAAAGG
66 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAGCTAAAGG
*
49449180 TAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
131 TAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
49449245 AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
196 AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
49449303 TT
1 TT
49449305 TATAAGAAGC
Statistics
Matches: 252, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
253 63 0.25
254 189 0.75
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (253 bp):
TTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCA
AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAGCTAAAGG
TAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
Found at i:49449200 original size:146 final size:145
Alignment explanation
Indices: 49449043--49449475 Score: 677
Period size: 146 Copynumber: 3.0 Consensus size: 145
49449033 AAAAAATTTT
*
49449043 GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
1 GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
49449108 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAG
66 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGC-G
49449173 CTAAAGGTAAGCAATA
130 CTAAAGGTAAGCAATA
* *
49449189 GCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAG
1 GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
*
49449254 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCG
66 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCG-CG
*
49449319 CTAAAGGTAAACAATA
130 CTAAAGGTAAGCAATA
* * *
49449335 GCGGCGTTT--T-T----A--TCGCAAAAAATAAATCAACTTATAAAAAAAAATAAAAAATTGTT
1 GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATA-AAAAAATT-TT
*
49449391 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAGGAAGCGT
64 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCG-
49449456 CGCTAAAGGTAAGCAATA
128 CGCTAAAGGTAAGCAATA
49449474 GC
1 GC
49449476 TGAAAACGCC
Statistics
Matches: 270, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
137 29 0.11
138 7 0.03
139 84 0.31
143 1 0.00
144 1 0.00
146 147 0.54
147 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (145 bp):
GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCGC
TAAAGGTAAGCAATA
Found at i:49449363 original size:137 final size:139
Alignment explanation
Indices: 49449211--49449475 Score: 455
Period size: 139 Copynumber: 1.9 Consensus size: 139
49449201 ATAAAAACGC
*
49449211 CGCAAAAAATAAATCAATTTATAAAAAAATAA-AAAAAA-T-TTAGAATAGCAAAACGGCGTCGT
1 CGCAAAAAATAAATCAACTTATAAAAAAA-AATAAAAAATTGTTAGAATAGCAAAACGGCGTCGT
49449273 TTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCG
65 TTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCG
49449338 GCGTTTTTAT
130 GCGTTTTTAT
49449348 CGCAAAAAATAAATCAACTTATAAAAAAAAATAAAAAATTGTTAGAATAGCAAAACGGCGTCGTT
1 CGCAAAAAATAAATCAACTTATAAAAAAAAATAAAAAATTGTTAGAATAGCAAAACGGCGTCGTT
* * * *
49449413 TTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAGGAAGCGTCGCTAAAGGTAAGCAATAGC
66 TTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAATAGC
49449476 TGAAAACGCC
Statistics
Matches: 120, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
136 2 0.02
137 34 0.28
138 1 0.01
139 83 0.69
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (139 bp):
CGCAAAAAATAAATCAACTTATAAAAAAAAATAAAAAATTGTTAGAATAGCAAAACGGCGTCGTT
TTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCGG
CGTTTTTAT
Found at i:49449497 original size:400 final size:394
Alignment explanation
Indices: 49448643--49449447 Score: 1343
Period size: 400 Copynumber: 2.0 Consensus size: 394
49448633 GTAAGCAATA
* * * *
49448643 GCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
1 GCGGCGCTT-CTATAAAAACGCCGCAAAAAATAAAGCAATTAAAAAAAAAATAAAAAAATTTTAG
* * *
49448708 AATAGCAAAATGGTGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCG
65 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAG
49448773 CTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAA
130 CTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAA
* *
49448838 AATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGC
195 AATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
*
49448903 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATA
260 TTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCGGCGTTT-CTAT---AAC-CCGCAAAAAATA
*
49448968 AATCAATTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
320 AATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
49449033 AAAAAATTTT
385 AAAAAATTTT
* * *
49449043 GCGGCGCTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAATTTTAG
1 GCGGCGCTT-CTATAAAAACGCCGCAAAAAATAAAGCAATTAAAAAAAAAATAAAAAAATTTTAG
49449108 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAG
65 AATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAG
49449173 CTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAA
130 CTAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAA
49449238 AATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
195 AATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGC
*
49449303 TTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCGGCGTTT-T-T-A-TCGCAAAAAATAAATCA
260 TTTATAAGAAGCGCCGCTAAAGGTAAACAATAGCGGCGTTTCTATAACCCGCAAAAAATAAATCA
*
49449364 ACTTATAAAAAAA-AATAAAAAATTGTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAA
325 ACTTATAAAAAAATAA-AAAAAAAT-TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAA
49449428 AAATTTT
388 AAATTTT
49449435 GCGGCGCTT-TATA
1 GCGGCGCTTCTATA
49449448 GGAAGCGTCG
Statistics
Matches: 393, Mismatches: 10, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
390 6 0.02
391 35 0.09
392 55 0.14
393 1 0.00
397 1 0.00
398 1 0.00
400 294 0.75
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (394 bp):
GCGGCGCTTCTATAAAAACGCCGCAAAAAATAAAGCAATTAAAAAAAAAATAAAAAAATTTTAGA
ATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCAGC
TAAAGGTAAGCAATAGCGGTGTTTCCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAA
ATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCT
TTATAAGAAGCGCCGCTAAAGGTAAACAATAGCGGCGTTTCTATAACCCGCAAAAAATAAATCAA
CTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAA
TTTT
Found at i:49449500 original size:137 final size:136
Alignment explanation
Indices: 49449204--49449512 Score: 451
Period size: 139 Copynumber: 2.3 Consensus size: 136
49449194 GTTTCCTATA
49449204 AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
1 AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
49449269 TCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAAT
66 TCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAAT
49449334 AGCGGCG
131 AGC-GCG
******* *
49449341 TTTTTATCGCAAAAAATAAATCAACTTATAAAAAAA-AATAAAAAATTGTTAGAATAGCAAAACG
1 AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAA-AAAAAA-T-TTAGAATAGCAAAACG
* * * *
49449405 GCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAGGAAGCGTCGCTAAAGGTAAGC
63 GCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAAC
*
49449470 AATAGC-TG
128 AATAGCGCG
49449478 AAAACGCCGCAAAAAATAAATCAATTTATAAAAAA
1 AAAACGCCGCAAAAAATAAATCAATTTATAAAAAA
49449513 TTCTCCAAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.01
137 62 0.42
138 1 0.01
139 83 0.56
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (136 bp):
AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAACAAT
AGCGCG
Found at i:49450107 original size:14 final size:15
Alignment explanation
Indices: 49450079--49450111 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
49450069 AAGTTTTATA
49450079 GATTATGGAATTAGG
1 GATTATGGAATTAGG
49450094 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
49450108 GATT
1 GATT
49450112 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:49450153 original size:14 final size:14
Alignment explanation
Indices: 49450134--49450173 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
49450124 TTAATGTGAT
* *
49450134 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
49450148 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
49450162 TTAAGGGTTAGG
1 TTAAGGGTTAGG
49450174 TTAGGGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:49450190 original size:14 final size:12
Alignment explanation
Indices: 49450146--49450184 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
49450136 AAGGTTTATG
49450146 GGTTAAGGGTTA
1 GGTTAAGGGTTA
49450158 GGGGTTAAGGGTTA
1 --GGTTAAGGGTTA
*
49450172 GGTTAGGGGTTA
1 GGTTAAGGGTTA
49450184 G
1 G
49450185 ATGTTAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.31
Consensus pattern (12 bp):
GGTTAAGGGTTA
Found at i:49450488 original size:7 final size:7
Alignment explanation
Indices: 49450478--49450525 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
49450468 GATTTAAGGT
49450478 TTAGGGG
1 TTAGGGG
49450485 TTAGGGG
1 TTAGGGG
49450492 TTAGGGG
1 TTAGGGG
* *
49450499 TTAAGAG
1 TTAGGGG
*
49450506 TTAGGGAT
1 TTAGGG-G
49450514 TTAGGGG
1 TTAGGGG
49450521 TTAGG
1 TTAGG
49450526 ACTTAAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:49450535 original size:22 final size:22
Alignment explanation
Indices: 49450492--49450536 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49450482 GGGTTAGGGG
* *
49450492 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGACTTAAGGAT
*
49450514 TTAGGGGTTAGGACTTAAGGAT
1 TTAGGGGTTAAGACTTAAGGAT
49450536 T
1 T
49450537 CAAGGGTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (22 bp):
TTAGGGGTTAAGACTTAAGGAT
Found at i:49450939 original size:47 final size:48
Alignment explanation
Indices: 49450869--49450967 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
49450859 AATACAAAAA
* *
49450869 TAAAAACACTAAATTTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
49450917 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
49450964 TAAA
1 TAAA
49450968 CAAAACTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 43 0.88
48 6 0.12
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:49453825 original size:19 final size:18
Alignment explanation
Indices: 49453801--49453839 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49453791 TTAATATTAC
49453801 TATA-AAAAAGATTGATG
1 TATATAAAAAGATTGATG
* *
49453818 TATATAAACAGGTTGATG
1 TATATAAAAAGATTGATG
49453836 TATA
1 TATA
49453840 GCTTGTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33
Consensus pattern (18 bp):
TATATAAAAAGATTGATG
Found at i:49455942 original size:43 final size:43
Alignment explanation
Indices: 49455693--49455944 Score: 360
Period size: 43 Copynumber: 5.9 Consensus size: 43
49455683 ACTTTTATCA
* * *
49455693 AAAGCGTCGCTAAAGATCATGTTTTTTAGTGGCGTTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* * *
49455736 AAAGCGTCGCTAAAGATCATGTTTTTTAGCGGCATTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
49455779 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* * *
49455822 AAAGCGCCGTTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* * *
49455865 AAGGCGCCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
49455908 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
49455945 TGCCTCATAA
Statistics
Matches: 191, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 191 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
Found at i:49458390 original size:1 final size:1
Alignment explanation
Indices: 49458384--49458411 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
49458374 ACTATTTCGC
49458384 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
49458412 CTTTGGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:49461863 original size:41 final size:41
Alignment explanation
Indices: 49461782--49461864 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
49461772 TTTAATTAAA
49461782 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
*
49461823 TAATAATTCAAAGAAATTAATTTAATTACTAAGTTTTCTAT
1 TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
49461864 T
1 T
49461865 GTTTATGGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (41 bp):
TAATAATTCAAAGAAATTAATTTAATTACTAAGTCTTCTAT
Found at i:49465034 original size:143 final size:144
Alignment explanation
Indices: 49464778--49465055 Score: 369
Period size: 143 Copynumber: 1.9 Consensus size: 144
49464768 CACAAACATG
** * * ** *
49464778 AAAATTTTCAAAATAGGGTCACACGATTGTATGCATAGGCCGTTTTACAAAGGGTGATTGTGTGA
1 AAAATTTTCAAAATAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGGGCCATAGTGTGA
* * * *
49464843 AACTGGAGCCACATAGTTGTGTGTCCAGGCTGAGTAACTCACTGAAGCCGTGTGGACCTAAATGC
66 AACTGGAGCCACACAGTTGTGTGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATGA
49464908 AAAAATTAAATTGA
131 AAAAATTAAATTGA
* * * * *
49464922 AAAATTTTC-AAATAGGGTCACACGGTCATGTGCATAAGTCGTGTTAGAAAGGGCCATAGTTTGA
1 AAAATTTTCAAAATAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGGGCCATAGTGTGA
* * * *
49464986 AACTGGAGCCACACGGTTGTGTGTCTAGGCTGTGTAACTTACTAAAGCCGTGTGAACCTAAATGA
66 AACTGGAGCCACACAGTTGTGTGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATGA
49465051 AAAAA
131 AAAAA
49465056 CTTACAAACA
Statistics
Matches: 114, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
143 105 0.92
144 9 0.08
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (144 bp):
AAAATTTTCAAAATAGGGTCACACGATCATATGCATAAGCCGTGTTACAAAGGGCCATAGTGTGA
AACTGGAGCCACACAGTTGTGTGTCCAGGCTGAGTAACTCACTAAAGCCGTGTGAACCTAAATGA
AAAAATTAAATTGA
Found at i:49489375 original size:43 final size:43
Alignment explanation
Indices: 49489328--49489444 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
49489318 CATACGGGTA
* * * * * *
49489328 CATCATCAGATGAATCGAAGTAGTTATATTGGCACACGCAGTG
1 CATCATCAGATAAATCGAAGCAATTATACTGACACAAGCAGTG
** *
49489371 CATCATTGGATAAATCGAAGCAATTATACTGACACAAGTAGTG
1 CATCATCAGATAAATCGAAGCAATTATACTGACACAAGCAGTG
* * *
49489414 CATCATC-GAATAAATTGAAGTAATCATACTG
1 CATCATCAG-ATAAATCGAAGCAATTATACTG
49489445 CACGTAAGTG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (43 bp):
CATCATCAGATAAATCGAAGCAATTATACTGACACAAGCAGTG
Found at i:49491895 original size:11 final size:11
Alignment explanation
Indices: 49491875--49491908 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
49491865 GACCTTTATG
49491875 TCACTATTTTT
1 TCACTATTTTT
*
49491886 TCACTCTTTTT
1 TCACTATTTTT
49491897 TCACTATTTTT
1 TCACTATTTTT
49491908 T
1 T
49491909 GGAATGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (11 bp):
TCACTATTTTT
Found at i:49495099 original size:67 final size:67
Alignment explanation
Indices: 49494991--49495124 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 67
49494981 GGTATATCCC
*
49494991 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCGTTGGTGCTAGGATT
1 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
49495056 TT
66 TT
* * *
49495058 TCTCCTTTTTGCATTCTTTTTGGTTTCGGTGGTGAATTCTTCGTTTGATCATTGGTGGTAGGATT
1 TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
49495123 TT
66 TT
49495125 GAATTATCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.51
Consensus pattern (67 bp):
TCTCCTTTTTGCATTCTTTTTGGTTTCAGTGGTGAATTCTTCGTTCGATCATTGGTGCTAGGATT
TT
Found at i:49498793 original size:25 final size:25
Alignment explanation
Indices: 49498738--49498843 Score: 81
Period size: 25 Copynumber: 4.2 Consensus size: 25
49498728 TCTCGATATT
* *
49498738 TGGCTCTCACGAGCTTCTTGTTATA
1 TGGCTCTCATGAGCTTCCTGTTATA
* *
49498763 TAGCTCTAATGAGCTTCCTGATTA-A
1 TGGCTCTCATGAGCTTCCTG-TTATA
* * * *
49498788 TGGCTCTCTTGAGCTTCCCGATATT
1 TGGCTCTCATGAGCTTCCTGTTATA
* *
49498813 TGGCTCGCAAGAGCTTTCC-GTTATA
1 TGGCTCTCATGAGC-TTCCTGTTATA
*
49498838 TAGCTC
1 TGGCTC
49498844 GGAAGAGCTT
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
24 2 0.03
25 53 0.85
26 7 0.11
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCTGTTATA
Found at i:49503908 original size:15 final size:17
Alignment explanation
Indices: 49503888--49503925 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49503878 TTTAGTCTTG
*
49503888 ATGAATTAT-TGT-TAA
1 ATGAATTATATATATAA
49503903 ATGAATTATATATATAA
1 ATGAATTATATATATAA
49503920 ATGAAT
1 ATGAAT
49503926 ATGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (17 bp):
ATGAATTATATATATAA
Found at i:49505421 original size:18 final size:18
Alignment explanation
Indices: 49505384--49505422 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49505374 TTTAGAATTT
* *
49505384 TGGGCCCACATGCTCATG
1 TGGGCCCACAAGCCCATG
*
49505402 TGGGCCCACAAGCCCGTG
1 TGGGCCCACAAGCCCATG
49505420 TGG
1 TGG
49505423 CCAACACACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
TGGGCCCACAAGCCCATG
Found at i:49509509 original size:26 final size:26
Alignment explanation
Indices: 49509474--49509524 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
49509464 AATGTGAAAG
*
49509474 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
49509500 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
49509525 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:49509536 original size:103 final size:103
Alignment explanation
Indices: 49509396--49509617 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
49509386 TGTATATAAA
** * *
49509396 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
49509460 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
49509499 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
49509564 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
49509602 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
49509618 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:49509669 original size:70 final size:71
Alignment explanation
Indices: 49509537--49509686 Score: 248
Period size: 70 Copynumber: 2.1 Consensus size: 71
49509527 TCATTGGTGG
* *
49509537 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
49509602 AGGGGT
66 AGGGGT
***
49509608 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
49509672 AGGGGT
66 AGGGGT
49509678 TGCTAAGTG
1 TGCTAAGTG
49509687 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 44 0.59
71 30 0.41
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
AGGGGT
Found at i:49509682 original size:26 final size:26
Alignment explanation
Indices: 49509647--49509698 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
49509637 AAATGAAAAG
* *
49509647 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
49509673 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
49509699 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:49513625 original size:29 final size:29
Alignment explanation
Indices: 49513593--49513672 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
49513583 TTAACCACGG
49513593 ATTATGAACAAAATTGAAGGAATCAACGA
1 ATTATGAACAAAATTGAAGGAATCAACGA
* *
49513622 ATTATGAA-AGGAA-TGAAAGGAATCAACGG
1 ATTATGAACA-AAATTG-AAGGAATCAACGA
*
49513651 ATTATGAACAACATTGAAGGAA
1 ATTATGAACAAAATTGAAGGAA
49513673 AATGAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.20
Consensus pattern (29 bp):
ATTATGAACAAAATTGAAGGAATCAACGA
Found at i:49520707 original size:88 final size:88
Alignment explanation
Indices: 49520558--49520734 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 88
49520548 GAAAGCAACT
49520558 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
49520623 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
*
49520646 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTGCTCATATTTTATCTCATTAATCTCTGTG
1 TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
49520711 AGATAATATTCATTCTCCCAATA
66 AGATAATATTCATTCTCCCAATA
49520734 T
1 T
49520735 TATCCTATTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (88 bp):
TGATTAGTGCTTGTCCAATGATCTTGTCATAAGTGTACTCATATTTTATCTCATTAATCTCTGTG
AGATAATATTCATTCTCCCAATA
Found at i:49522883 original size:24 final size:22
Alignment explanation
Indices: 49522836--49522883 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
49522826 ATCATGGTGG
49522836 AATTGCACTTAAGGCTTGGGTA
1 AATTGCACTTAAGGCTTGGGTA
* *
49522858 AATTGCATGTTAAGGACTTGGTTA
1 AATTGCA-CTTAAGG-CTTGGGTA
49522882 AA
1 AA
49522884 CACTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (22 bp):
AATTGCACTTAAGGCTTGGGTA
Found at i:49524058 original size:20 final size:21
Alignment explanation
Indices: 49524021--49524059 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49524011 TGAAATAATA
*
49524021 TAATTTCTCATTTAATATATT
1 TAATTTCTCATATAATATATT
*
49524042 TAATTT-TCATATGATATA
1 TAATTTCTCATATAATATA
49524060 AATTATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (21 bp):
TAATTTCTCATATAATATATT
Found at i:49531314 original size:42 final size:42
Alignment explanation
Indices: 49531219--49531402 Score: 307
Period size: 42 Copynumber: 4.4 Consensus size: 42
49531209 TGATTCAGTA
* * * *
49531219 CACCGGCATTTAGCCTGCTAGACATATAGTCTGA-AATGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
49531260 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* *
49531302 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
49531344 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
49531386 CACCGGCATTAAGCCTG
1 CACCGGCATTAAGCCTG
49531403 ATAGGCACTG
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 31 0.23
42 103 0.77
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
Found at i:49542132 original size:3 final size:3
Alignment explanation
Indices: 49542107--49542168 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
49542097 TTTTTAAAGT
* * *
49542107 TTA TT- TTA TTA ATA TTG TTA TTA TTA -TA TTA TTA TCA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49542152 TTA TATA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA T
49542169 ACCTGCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:49542138 original size:8 final size:8
Alignment explanation
Indices: 49542125--49542165 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
49542115 TTAATATTGT
49542125 TATTATTA
1 TATTATTA
49542133 TATTATTA
1 TATTATTA
49542141 TCATTATTA
1 T-ATTATTA
49542150 TATTA-TA
1 TATTATTA
49542157 TATTATTA
1 TATTATTA
49542165 T
1 T
49542166 TATACCTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.23
8 16 0.52
9 8 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:49542139 original size:17 final size:17
Alignment explanation
Indices: 49542107--49542169 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
49542097 TTTTTAAAGT
49542107 TTATT-TTATTA-A-TA
1 TTATTATTATTATATTA
*
49542121 TTGTTATTATTATATTA
1 TTATTATTATTATATTA
*
49542138 TTATCATTATTATATTA
1 TTATTATTATTATATTA
49542155 TATATTATTATTATA
1 T-TATTATTATTATA
49542170 CCTGCATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 1 0.02
17 18 0.44
18 12 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:49542337 original size:27 final size:28
Alignment explanation
Indices: 49542307--49542382 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 28
49542297 ATATATATTT
* *
49542307 ATATTTTATAATATTTATACATTT-TCC
1 ATATTTTATAATATATATACATTTATAC
**
49542334 ATATTTTATAATCTATATATATGTTTATAC
1 ATATTTTATAA--TATATATACATTTATAC
*
49542364 ATATTTTATAATATGTATA
1 ATATTTTATAATATATATA
49542383 TATATATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.27
28 7 0.17
29 10 0.24
30 13 0.32
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (28 bp):
ATATTTTATAATATATATACATTTATAC
Found at i:49542384 original size:22 final size:23
Alignment explanation
Indices: 49542347--49542390 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
49542337 TTTTATAATC
*
49542347 TATATATATGTTTATACATATTT
1 TATATATATGTATATACATATTT
*
49542370 TATA-ATATGTATATATATATT
1 TATATATATGTATATACATATT
49542391 CATACACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATATGTATATACATATTT
Found at i:49542396 original size:32 final size:30
Alignment explanation
Indices: 49542333--49542401 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
49542323 ATACATTTTC
* *
49542333 CATATTTTATAATCTATATATATGTTTATA
1 CATATTTTATAATCTATATATATATTCATA
*
49542363 CATATTTTATAATATGTATATATATATTCATA
1 CATATTTTAT-A-ATCTATATATATATTCATA
49542395 CACTATT
1 CA-TATT
49542402 CAAAACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 1 0.03
32 18 0.55
33 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (30 bp):
CATATTTTATAATCTATATATATATTCATA
Found at i:49550109 original size:19 final size:18
Alignment explanation
Indices: 49550078--49550117 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
49550068 TAAAAAAAAT
* *
49550078 AAAAGAAGAAGAAGAAGA
1 AAAAAAAGAAGAAAAAGA
49550096 AAAAAAAGAGAGAAAAAGA
1 AAAAAAAGA-AGAAAAAGA
49550115 AAA
1 AAA
49550118 GGAGAGGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAGAAAAAGA
Found at i:49550109 original size:22 final size:22
Alignment explanation
Indices: 49550073--49550115 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49550063 TTTCTTAAAA
*
49550073 AAAATAAAAGAAGAAGAAGAAG
1 AAAATAAAAGAAGAAAAAGAAG
49550095 AAAA-AAAAGAGAGAAAAAGAA
1 AAAATAAAAGA-AGAAAAAGAA
49550116 AAGGAGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAATAAAAGAAGAAAAAGAAG
Found at i:49550117 original size:16 final size:16
Alignment explanation
Indices: 49550078--49550123 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
49550068 TAAAAAAAAT
*
49550078 AAAAGAAGAAGA-AGA
1 AAAAGAAAAAGAGAGA
49550093 AGAAA-AAAAAGAGAGA
1 A-AAAGAAAAAGAGAGA
*
49550109 AAAAGAAAAGGAGAG
1 AAAAGAAAAAGAGAG
49550124 GCCAAGGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAGAGA
Found at i:49551396 original size:88 final size:88
Alignment explanation
Indices: 49551281--49551441 Score: 252
Period size: 88 Copynumber: 1.8 Consensus size: 88
49551271 GGTGAAACTT
* * * * *
49551281 CAACCTTATCTCCTTGAGCAGCCGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG
1 CAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTA
49551346 GCAGCGAAGTAGATCAAAGATAC
66 GCAGCGAAGTAGATCAAAGATAC
*
49551369 CAACCTTGTCTCCCT-ACGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACT
1 CAACCTTATCTCCCTGA-GCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACT
49551433 AGCAGCGAA
65 AGCAGCGAA
49551442 ACAGATCGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.02
88 65 0.98
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (88 bp):
CAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTA
GCAGCGAAGTAGATCAAAGATAC
Found at i:49551825 original size:50 final size:49
Alignment explanation
Indices: 49551647--49551929 Score: 172
Period size: 50 Copynumber: 5.7 Consensus size: 49
49551637 TTGGCATTAC
* * *
49551647 AGTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTT-CCTGGCAGTGT
* * * * * * ** * * * *
49551697 AGTGGAACAGACTAAAACCACGATGGCGGATCTTGTTTCCCCGACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTT-CCTGGCAGTGT
* ** * ** * *
49551747 AATTAAAAAGATTGAAGTTACAATGGCGAATCTTACTTCCTTGGCGGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCC-TGGCAGTGT
* ** * * *
49551797 AGTGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTTCC-GACATTGC
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTT-ACTTCCTGGCAGTGT
* * * * *
49551846 AATTGAAAAGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTTAC-TTCCTGGCAGTGT
* * * *
49551896 AGTGGAACATATTGAAGCTACGACTGCGAATCTT
1 AGTGGAACAGATTGAAGCCACAACGGCGAATCTT
49551930 GTTTCCCGAC
Statistics
Matches: 162, Mismatches: 67, Indels: 8
0.68 0.28 0.03
Matches are distributed among these distances:
49 38 0.23
50 120 0.74
51 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (49 bp):
AGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCTGGCAGTGT
Found at i:49551863 original size:49 final size:49
Alignment explanation
Indices: 49551799--49551941 Score: 133
Period size: 49 Copynumber: 2.9 Consensus size: 49
49551789 GGCGGTGTAG
*
49551799 TGGAACAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
* * * * ** * * * *
49551848 TTGAAAAGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGTAG
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCC-GACATTGCAA
* * * * *
49551898 TGGAACATATTGAAGCTACGACTGCGAATCTTGTTTCCCGACAT
1 TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACAT
49551942 CACAGTTAAA
Statistics
Matches: 69, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
49 35 0.51
50 34 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (49 bp):
TGGAAAAGATTGAAGCCACGACGGCGAATCTTGTTTTCCGACATTGCAA
Found at i:49551896 original size:99 final size:99
Alignment explanation
Indices: 49551655--49551941 Score: 396
Period size: 99 Copynumber: 2.9 Consensus size: 99
49551645 ACAGTGGAAT
* * * * * *
49551655 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGACTAAAACCACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
* *
49551720 TGGCGGATCTTGTTTCCCCGACATTGCAATTAAAA
66 CGGCGAATCTTGTTT-CCCGACATTGCAATTAAAA
**
49551755 AGATTGAAGTTACAATGGCGAATCTTAC-TTCCTTGGCGGTGTAGTGGAACAGATTGAAGCCACG
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCC-TGGCGGTGTAGTGGAACAGATTGAAGCCACG
* *
49551819 ACGGCGAATCTTGTTTTCCGACATTGCAATTGAAA
65 ACGGCGAATCTTGTTTCCCGACATTGCAATTAAAA
* * * *
49551854 AGATTGAAGCCACAATGACGAATCTTACTTTCCTGGCAGTGTAGTGGAACATATTGAAGCTACGA
1 AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
*
49551919 CTGCGAATCTTGTTTCCCGACAT
66 CGGCGAATCTTGTTTCCCGACAT
49551942 CACAGTTAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
99 95 0.58
100 70 0.42
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (99 bp):
AGATTGAAGCCACAATGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
CGGCGAATCTTGTTTCCCGACATTGCAATTAAAA
Found at i:49553422 original size:3 final size:3
Alignment explanation
Indices: 49553416--49553454 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
49553406 ATAATAATAA
*
49553416 TAT TAT TAT TAT TAT CAT TAT TA- TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
49553455 ACCTACATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:49553435 original size:15 final size:14
Alignment explanation
Indices: 49553415--49553454 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
49553405 AATAATAATA
49553415 ATATTATTATTATT
1 ATATTATTATTATT
49553429 ATCATTATTA-TATT
1 AT-ATTATTATTATT
49553443 ATA-TATTATTAT
1 ATATTATTATTAT
49553455 ACCTACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.21
13 4 0.17
14 8 0.33
15 7 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:49553550 original size:2 final size:2
Alignment explanation
Indices: 49553522--49553580 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
49553512 TTTTAAATAC
*
49553522 AT AT AC AT AT AT -T AT -T AT -T AT AT -T AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49553559 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
49553581 TTTATAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 5 0.10
2 45 0.90
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:49553551 original size:18 final size:19
Alignment explanation
Indices: 49553528--49553595 Score: 77
Period size: 18 Copynumber: 3.5 Consensus size: 19
49553518 ATACATATAC
49553528 ATATATTAT-TATTATATT
1 ATATATTATATATTATATT
49553546 ATATATTATATATATATATAT
1 ATATATTATATAT-TATAT-T
* *
49553567 ATATATATATATATTTTATA
1 ATATAT-TATATATTATATT
49553587 ATAT-TTATA
1 ATATATTATA
49553596 CATTTTCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.30
19 4 0.09
20 9 0.20
21 11 0.25
22 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATTATATATTATATT
Found at i:49553622 original size:27 final size:27
Alignment explanation
Indices: 49553577--49553628 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49553567 ATATATATAT
*
49553577 ATATTTTATAATATTTATACATTTTCC
1 ATATTTTATAATATATATACATTTTCC
* *
49553604 ATATTTTATAATCTATATATATTTT
1 ATATTTTATAATATATATACATTTT
49553629 TATACATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTTTATAATATATATACATTTTCC
Found at i:49553638 original size:9 final size:9
Alignment explanation
Indices: 49553528--49553643 Score: 67
Period size: 9 Copynumber: 12.6 Consensus size: 9
49553518 ATACATATAC
49553528 ATATATTATT
1 ATATATT-TT
*
49553538 AT-TATATT
1 ATATATTTT
*
49553546 ATATATTAT
1 ATATATTTT
*
49553555 ATATATATAT
1 ATATAT-TTT
*
49553565 ATATATATAT
1 ATATAT-TTT
49553575 ATATATTTT
1 ATATATTTT
49553584 ATA-ATATTT
1 ATATAT-TTT
*
49553593 ATACATTTT
1 ATATATTTT
**
49553602 CCATATTTT
1 ATATATTTT
*
49553611 ATA-ATCTAT
1 ATATAT-TTT
49553620 ATATATTTTT
1 ATATA-TTTT
*
49553630 ATACATTTT
1 ATATATTTT
*
49553639 TTATA
1 ATATA
49553644 ATATGTATAT
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
8 8 0.09
9 46 0.54
10 30 0.35
11 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATATTTT
Found at i:49556777 original size:13 final size:13
Alignment explanation
Indices: 49556756--49556808 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
49556746 TTTAAACAAA
49556756 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
49556769 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
49556782 ACTTTTCCACATC
1 ACTTTTCAAAAGC
49556795 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
49556808 A
1 A
49556809 TTACCGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:49558524 original size:32 final size:31
Alignment explanation
Indices: 49558458--49558525 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
49558448 TGACTTCGAC
* **
49558458 AATTTTTTTAATAGTCGATATTCAAATTTAA
1 AATTTTTTTAATAGTCGAAATTCAAAACTAA
*
49558489 AATTTTCTTTAATAGTC-AAATGTCAAAACTGA
1 AATTTT-TTTAATAGTCGAAAT-TCAAAACTAA
49558521 AATTT
1 AATTT
49558526 CTAATACGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (31 bp):
AATTTTTTTAATAGTCGAAATTCAAAACTAA
Found at i:49560519 original size:43 final size:43
Alignment explanation
Indices: 49560468--49560591 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
49560458 TTACAAACAA
*
49560468 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* *
49560511 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
* * *
49560554 AAACGCCGCGAAAGAACATGTTCTTTAGTGGCGCTTTT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
49560592 ATACAAAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAC
Found at i:49560681 original size:14 final size:14
Alignment explanation
Indices: 49560658--49560691 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
49560648 GCCCTCCTGT
*
49560658 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
49560672 AGCAACAATTCAAA
1 AGCAACAATTCAAA
49560686 AGCAAC
1 AGCAAC
49560692 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:49560983 original size:21 final size:21
Alignment explanation
Indices: 49560915--49560985 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
49560905 TTTTGCTCTG
*
49560915 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
49560936 CTCCGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
49560957 CGCTGCTTCCCTCGCTTCTGC
1 CTCTGCTTCCCTCGCTGCAGC
49560978 CTCTGCTT
1 CTCTGCTT
49560986 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.03, C:0.46, G:0.18, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:49566522 original size:51 final size:51
Alignment explanation
Indices: 49566439--49566776 Score: 512
Period size: 51 Copynumber: 6.6 Consensus size: 51
49566429 CAATGGTAAG
*
49566439 TTATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
49566491 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
*
49566542 TTGTGTAAGTTGTAAG------T-TATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
*
49566586 TTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
*
49566637 TTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
49566688 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTATTATGTATTATGTAAG-T-TGTAAGTTAAATGTA
*
49566741 TTATGTAAGTTATCTAAGTTAATTATGTATTATGTA
1 TTATGTAAG-T-TGTAAGTT-ATTATGTATTATGTA
49566777 GTAGGTGTTA
Statistics
Matches: 269, Mismatches: 4, Indels: 22
0.91 0.01 0.07
Matches are distributed among these distances:
44 43 0.16
45 1 0.00
50 10 0.04
51 158 0.59
52 10 0.04
53 24 0.09
54 1 0.00
55 7 0.03
56 15 0.06
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (51 bp):
TTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
Found at i:49566596 original size:95 final size:95
Alignment explanation
Indices: 49566464--49566769 Score: 477
Period size: 95 Copynumber: 3.1 Consensus size: 95
49566454 AAGTTAAATG
49566464 TATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
1 TATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
49566529 TAAGTTAAATGTATTGTGTAAGTTGTAAGT
66 TAAGTTAAATGTATTGTGTAAGTTGTAAGT
*
49566559 TATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
1 TATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
49566624 TAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTAT
66 TAAGTTAAATGTATTGTGTAAGTTGTAAG------T
49566660 GTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTT
1 -TATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG-T
* *
49566725 ATGTAAGTTAAATGTATTATGTAAGTTATCTAAGT
64 -TGTAAGTTAAATGTATTGTGTAAG-T-TGTAAGT
49566760 TAATTATGTA
1 T-ATTATGTA
49566770 TTATGTAGTA
Statistics
Matches: 195, Mismatches: 4, Indels: 19
0.89 0.02 0.09
Matches are distributed among these distances:
95 93 0.48
99 1 0.01
100 9 0.05
101 1 0.01
102 61 0.31
103 1 0.01
104 23 0.12
105 1 0.01
106 5 0.03
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (95 bp):
TATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTG
TAAGTTAAATGTATTGTGTAAGTTGTAAGT
Found at i:49567014 original size:73 final size:73
Alignment explanation
Indices: 49566930--49567152 Score: 446
Period size: 73 Copynumber: 3.1 Consensus size: 73
49566920 ACATTACTAA
49566930 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
49566995 TATTTTTT
66 TATTTTTT
49567003 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
49567068 TATTTTTT
66 TATTTTTT
49567076 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
49567141 TATTTTTT
66 TATTTTTT
49567149 TATA
1 TATA
49567153 TTTTATTTTA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 150 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:49567038 original size:38 final size:38
Alignment explanation
Indices: 49566932--49567119 Score: 148
Period size: 34 Copynumber: 5.1 Consensus size: 38
49566922 ATTACTAATA
49566932 TAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 TAATTATTAATAATATTTAATAAAATAACATTTTATTT
* * * * *
49566970 TAA-TAGT--CAAT-TTTAAT--ATTCCACATATTTTTTT
1 TAATTATTAATAATATTTAATAAAAT-AACAT-TTTATTT
49567004 ATAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 -TAATTATTAATAATATTTAATAAAATAACATTTTATTT
* * * * *
49567043 TAA-TAGT--CAAT-TTTAAT--ATTCCACATATTTTTTT
1 TAATTATTAATAATATTTAATAAAAT-AACAT-TTTATTT
49567077 ATAATTATTAATAATATTTAATAAAATAACATTTTATTT
1 -TAATTATTAATAATATTTAATAAAATAACATTTTATTT
49567116 TAAT
1 TAAT
49567120 AGTCAATTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
32 4 0.04
33 8 0.07
34 24 0.21
35 12 0.11
36 6 0.05
37 6 0.05
38 16 0.14
39 24 0.21
40 8 0.07
41 4 0.04
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.51
Consensus pattern (38 bp):
TAATTATTAATAATATTTAATAAAATAACATTTTATTT
Found at i:49567073 original size:35 final size:35
Alignment explanation
Indices: 49566961--49567146 Score: 128
Period size: 35 Copynumber: 5.1 Consensus size: 35
49566951 ATAAAATAAC
49566961 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
49566996 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
49567034 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
49567069 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
49567107 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
49567142 ATTTT
1 ATTTT
49567147 TTTATATTTT
Statistics
Matches: 109, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 22 0.20
35 29 0.27
36 6 0.06
37 6 0.06
38 24 0.22
39 22 0.20
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:49567150 original size:38 final size:38
Alignment explanation
Indices: 49566962--49567151 Score: 148
Period size: 38 Copynumber: 5.2 Consensus size: 38
49566952 TAAAATAACA
49566962 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
* * * * ***
49567000 TTTTATAATTATTAAT-AATATTTAATA----AAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTAATATTCCACATATTT
49567035 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
* * * * ***
49567073 TTTTATAATTATTAAT-AATATTTAATA----AAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTAATATTCCACATATTT
49567108 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
49567146 TTTTAT
1 TTTTAT
49567152 ATTTTATTTT
Statistics
Matches: 110, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 26 0.24
35 26 0.24
38 32 0.29
39 26 0.24
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (38 bp):
TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
Found at i:49567382 original size:13 final size:13
Alignment explanation
Indices: 49567364--49567405 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
49567354 TAAATTTTAG
*
49567364 TAAGTAATGTATT
1 TAAGTAATATATT
*
49567377 TAAGTAACATATT
1 TAAGTAATATATT
*
49567390 TAAGTAATAAATT
1 TAAGTAATATATT
49567403 TAA
1 TAA
49567406 ACAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:49567432 original size:17 final size:17
Alignment explanation
Indices: 49567410--49567606 Score: 139
Period size: 17 Copynumber: 10.6 Consensus size: 17
49567400 ATTTAAACAA
49567410 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
49567427 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
49567444 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
49567464 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATGT
49567484 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
49567501 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
49567518 AAACAAATTTAGTAAGTAATGT
1 -----ATTTTAGTAAGTAATGT
*
49567540 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
49567557 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
49567580 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
49567597 ATTTTAGTAA
1 ATTTTAGTAA
49567607 TAAATTTAAC
Statistics
Matches: 148, Mismatches: 9, Indels: 46
0.73 0.04 0.23
Matches are distributed among these distances:
16 3 0.02
17 98 0.66
19 1 0.01
20 2 0.01
21 1 0.01
22 13 0.09
23 28 0.19
24 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.46
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:49567453 original size:57 final size:57
Alignment explanation
Indices: 49567355--49567549 Score: 310
Period size: 57 Copynumber: 3.5 Consensus size: 57
49567345 ATATATACTT
** *
49567355 AAATTTTAGTAAGTAATGTA--TT--TAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
*
49567408 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
*
49567465 AAATTTTAGTAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
49567522 AAA-TTTAGTAAGTAATGTATTTTAGTAA
1 AAATTTTAGTAAGTAATGTATTTTAGTAA
49567550 TAAATTTAAA
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
53 20 0.15
55 2 0.02
56 24 0.18
57 85 0.65
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (57 bp):
AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAAC
Found at i:49567544 original size:96 final size:96
Alignment explanation
Indices: 49567429--49567615 Score: 365
Period size: 96 Copynumber: 1.9 Consensus size: 96
49567419 AGTAATGTAT
*
49567429 TTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTTATTTTAGTAA
1 TTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
49567494 GTAATGTATTTTAGTAATAAATTTAAACAAA
66 GTAATGTATTTTAGTAATAAATTTAAACAAA
49567525 TTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
1 TTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
49567590 GTAATGTATTTTAGTAATAAATTTAA
66 GTAATGTATTTTAGTAATAAATTTAA
49567616 CATTCAATCG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (96 bp):
TTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
GTAATGTATTTTAGTAATAAATTTAAACAAA
Found at i:49567583 original size:40 final size:40
Alignment explanation
Indices: 49567484--49567589 Score: 196
Period size: 39 Copynumber: 2.7 Consensus size: 40
49567474 TAAGTAATTT
49567484 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
49567524 A-TTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
49567563 ATTTTAGTAAGTAATTTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
49567590 GTAATGTATT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 39 0.61
40 25 0.39
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:49569885 original size:84 final size:84
Alignment explanation
Indices: 49569735--49570177 Score: 724
Period size: 84 Copynumber: 5.2 Consensus size: 84
49569725 TTTCTTCCAC
* *
49569735 ATTTCTGGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTT
1 ATTTGTGGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
49569800 TCGTGGTCTGGAATTGCATT
65 TCGTGGTCTGGAATTGCATT
49569820 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
*
49569885 CGTAGTCTGGAATTGCATT
66 CGTGGTCTGGAATTGCATT
*
49569904 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGTTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
49569969 GCGTGGTCTGGAATAATTGCATT
66 -CGTGGTCTGG---AATTGCATT
* *
49569992 ATTTGTGGCGCTTTCCTAAAAACGCCACTAAATATTACAACTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
*
49570057 TGTGGTCTGGAATTGCATT
66 CGTGGTCTGGAATTGCATT
*
49570076 ATTTGTGGCGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
49570141 GCGTGGTCTGGAATAATTGCATT
66 -CGTGGTCTGG---AATTGCATT
*
49570164 ATTTCTGGCGTTTT
1 ATTTGTGGCGTTTT
49570178 AAGCACAAAT
Statistics
Matches: 336, Mismatches: 14, Indels: 13
0.93 0.04 0.04
Matches are distributed among these distances:
84 200 0.60
85 34 0.10
87 9 0.03
88 93 0.28
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (84 bp):
ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
CGTGGTCTGGAATTGCATT
Found at i:49570025 original size:172 final size:172
Alignment explanation
Indices: 49569735--49570173 Score: 760
Period size: 172 Copynumber: 2.6 Consensus size: 172
49569725 TTTCTTCCAC
* *
49569735 ATTTCTGGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTT
1 ATTTGTGGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
* *
49569800 T-CGTGGTCTGG---AATTGCATTATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGC
65 TGCGTGGTCTGGAATAATTGCATTATTTGTGGCGCTTTCCTAAAAACGCCACTAAATATTACAAC
49569861 TGTGAACAGAAACGACACCGTTTTCGTAGTCTGGAATTGCATT
130 TGTGAACAGAAACGACACCGTTTTCGTAGTCTGGAATTGCATT
*
49569904 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGTTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
49569969 GCGTGGTCTGGAATAATTGCATTATTTGTGGCGCTTTCCTAAAAACGCCACTAAATATTACAACT
66 GCGTGGTCTGGAATAATTGCATTATTTGTGGCGCTTTCCTAAAAACGCCACTAAATATTACAACT
* *
49570034 GTGAACAGAAACGACACCGTTTTTGTGGTCTGGAATTGCATT
131 GTGAACAGAAACGACACCGTTTTCGTAGTCTGGAATTGCATT
*
49570076 ATTTGTGGCGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
*
49570141 GCGTGGTCTGGAATAATTGCATTATTTCTGGCG
66 GCGTGGTCTGGAATAATTGCATTATTTGTGGCG
49570174 TTTTAAGCAC
Statistics
Matches: 256, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
168 46 0.18
169 26 0.10
172 184 0.72
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (172 bp):
ATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
GCGTGGTCTGGAATAATTGCATTATTTGTGGCGCTTTCCTAAAAACGCCACTAAATATTACAACT
GTGAACAGAAACGACACCGTTTTCGTAGTCTGGAATTGCATT
Found at i:49572872 original size:113 final size:112
Alignment explanation
Indices: 49572696--49572951 Score: 386
Period size: 113 Copynumber: 2.3 Consensus size: 112
49572686 AACACCTAGA
* * * ** *
49572696 TTAGAGGCGCTGTACAAAAAATGCTGCTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACAGTCTGG
49572761 GTGTATTATTTGCAGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
66 GTGTATTATTTGCAGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
*
49572808 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCCAAAGGCCACAAAACGGCACAGTCTG
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATT-CCCCCCCAAAGGACACAAAACGGCACAGTCTG
* *
49572873 GGTGTATTATTTGCGGCTTTTTTTATAAACGCTGCTAATGTTCACTCT
65 GGTGTATTATTTGCAGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
* ***
49572921 TTAGCGGCGCTTTTCCTTAAACGCCACTAAT
1 TTAGCGGCGCTTTACAAAAAACGCCACTAAT
49572952 GCTCACTCTT
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 27 0.21
113 103 0.79
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACAGTCTGG
GTGTATTATTTGCAGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
Found at i:49572944 original size:40 final size:40
Alignment explanation
Indices: 49572898--49573031 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
49572888 GCTTTTTTTA
* *
49572898 TAAACGCTGCTAATGTTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
*
49572938 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
* * *
49572978 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTTGCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
*
49573018 CCAAACGCCGCTAA
1 -TAAACGCCGCTAA
49573032 AAGTGCCGCT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 73 0.86
41 12 0.14
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTTCCT
Found at i:49573322 original size:18 final size:18
Alignment explanation
Indices: 49573299--49573335 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49573289 AAATATGTAG
49573299 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
49573317 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
49573335 A
1 A
49573336 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:49574935 original size:44 final size:44
Alignment explanation
Indices: 49574808--49575185 Score: 178
Period size: 44 Copynumber: 8.6 Consensus size: 44
49574798 GATGCGATCC
* * * * * * * *
49574808 ACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACTTCAATCT
* * * *
49574852 GCTCCACTACAACCTCAAGGAGATAGGATTATCG--ACTTCAATCT
1 ACTCCACTGCAACCTCAGGGAGATAAGATT-T-GTTACTTCAATCT
** * *
49574896 GGTCCACTGCAACCTCAGGGAGATAAGATTTGTTTCTTCAGTCT
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACTTCAATCT
* ** * * * * *
49574940 ACCCCACTGTGACTTCAGGGGGATAAGACTTGTT-TTCTCAGTCT
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACT-TCAATCT
** * * *
49574984 ACTCCACTGCAACCTCAGGGAGATAAGACCTG--A-TGCGATCC
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACTTCAATCT
* * ** * * * *
49575025 ACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCC
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACTTCAATCT
* * * * * *
49575069 GCTCCACTACAACTTCAGGGAGATAGGATTATCG--ACTTTAATTT
1 ACTCCACTGCAACCTCAGGGAGATAAGATT-T-GTTACTTCAATCT
* * * * *
49575113 GCTCCACTGTAACTTCAGGGAGATAAGATTTGTCATCTTCGATCT
1 ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTA-CTTCAATCT
* * * *
49575158 GCCCCACTGCAACTTCAGGGGGATAAGA
1 ACTCCACTGCAACCTCAGGGAGATAAGA
49575186 CCTGCTTACT
Statistics
Matches: 257, Mismatches: 63, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
41 29 0.11
42 3 0.01
43 4 0.02
44 188 0.73
45 33 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ACTCCACTGCAACCTCAGGGAGATAAGATTTGTTACTTCAATCT
Found at i:49575278 original size:218 final size:217
Alignment explanation
Indices: 49574791--49575333 Score: 800
Period size: 218 Copynumber: 2.5 Consensus size: 217
49574781 TCTAGTCGGC
* *
49574791 AAGACTTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* * *
49574856 CACTACAACCTCAAGGAGATAGGATTATCGACTTCAATCTGGTCCACTGCAACCTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
* ** * * *
49574921 AGATTTGTTTCTTCAGTCTACCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTAC
131 AGATTTGTATCTTCAGTCTACCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTAC
49574986 TCCACTGCAACCTCAGGGAGAT
196 TCCACTGCAACCTCAGGGAGAT
*
49575008 AAGACCTGATGCGATCCACTCTACTGCAACTTCAAAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* * * *
49575073 CACTACAACTTCAGGGAGATAGGATTATCGACTTTAATTTGCTCCACTGTAACTTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
* *
49575138 AGATTTGTCATCTTC-GATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTGT
131 AGATTTGT-ATCTTCAG-TCTACCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCT
* *** *
49575202 GCTTTGCTGCAACTTCAGGGAGAT
194 ACTCCACTGCAACCTCAGGGAGAT
* * * *
49575226 AAGACCTGATGCGATCCACTCTATTGCAACTTTAGAGAGATAAGAACTATTACTTTAATCCACTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* *
49575291 CACTACAACTTCAGGGAGATAGGCTTATCGGCTTCAATCTGCT
66 CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCT
49575334 TCCTTACACT
Statistics
Matches: 292, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
217 129 0.44
218 163 0.56
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (217 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
AGATTTGTATCTTCAGTCTACCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTAC
TCCACTGCAACCTCAGGGAGAT
Found at i:49575460 original size:128 final size:128
Alignment explanation
Indices: 49575302--49575945 Score: 1040
Period size: 128 Copynumber: 5.0 Consensus size: 128
49575292 ACTACAACTT
* * * *
49575302 CAGGGAGATAGG-CTTATCGGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
49575366 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGAC
65 TGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
*
49575430 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* * * *
49575495 GATCTACTCTGCTACTGCTTAAGGAGACAAGATCTGTAATTTCTCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC-CAACCTATTCCACTGCTGAC
* *
49575559 CAGAGACATAGGACTTGTGGTTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCG-CTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
*
49575623 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGAC
66 -GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
*
49575687 CAGGGACATACGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* *
49575752 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCAACCTATTCCACTGCTGAA
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
* *
49575815 CAGGGACATAGGACTTGTGGCCTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
* * *
49575880 GATCTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTACTCCAATGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGAC
49575944 CA
1 CA
49575946 AGGAGCTAGG
Statistics
Matches: 478, Mismatches: 33, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
128 336 0.70
129 142 0.30
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
Found at i:49575782 original size:257 final size:256
Alignment explanation
Indices: 49575326--49575945 Score: 1028
Period size: 257 Copynumber: 2.4 Consensus size: 256
49575316 TATCGGCTTC
*
49575326 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCC-ATCTTCGATCTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCT-TTCGATCTGCTCCGCTACTGCTTAGG
* *
49575390 GAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGACATAGGACTTGTGGCTTAA
65 GAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGGCTTAA
*
49575455 ATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTTGATCTACTCTGCTACTGCTTAAGGA
130 ATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTTGATCTACTCCGCTACTGCTTAAGGA
* **
49575520 GACAAGATCTGTAATTTCTCAACCTACTCCACTGCTGACCAGAGACATAGGACTTGTGGTTTA
195 GACAAGATCTGTAATTTC-CAACCTACTCCACTGCTGAACAGAGACATAGGACTTGTGGCCTA
49575583 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGG
*
49575648 AGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGGCTTAAA
66 AGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGGCTTAAA
* * *
49575713 TCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAG
131 TCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTTGATCTACTCCGCTACTGCTTAAGGAG
* * *
49575778 ACAAGATTTGTAATTTCCAACCTATTCCACTGCTGAACAGGGACATAGGACTTGTGGCCTA
196 ACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAACAGAGACATAGGACTTGTGGCCTA
* *
49575839 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTT-GATCTACTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCG-CTTTCGATCTGCTCCGCTACTGCTTAGG
* *
49575903 GAGACAAGATCTGTAATTTCCCAACCTACTCCAATGCTGACCA
65 GAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCA
49575946 AGGAGCTAGG
Statistics
Matches: 341, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
256 114 0.33
257 226 0.66
258 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (256 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGG
AGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATACGACTTGTGGCTTAAA
TCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTTGATCTACTCCGCTACTGCTTAAGGAG
ACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAACAGAGACATAGGACTTGTGGCCTA
Found at i:49577343 original size:6 final size:7
Alignment explanation
Indices: 49577326--49577367 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
49577316 CGTCTCCATT
49577326 TTTTTCA
1 TTTTTCA
49577333 TTTTTCA
1 TTTTTCA
*
49577340 TTTTTTA
1 TTTTTCA
49577347 TTTTTTCA
1 -TTTTTCA
49577355 TTTTTCA
1 TTTTTCA
49577362 TATTTT
1 T-TTTT
49577368 TTCTGACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 21 0.68
8 10 0.32
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:49577345 original size:15 final size:15
Alignment explanation
Indices: 49577326--49577368 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
49577316 CGTCTCCATT
49577326 TTTTTCA-TTTTTCA
1 TTTTTCATTTTTTCA
*
49577340 TTTTTTATTTTTTCA
1 TTTTTCATTTTTTCA
49577355 TTTTTCATATTTTT
1 TTTTTCAT-TTTTT
49577369 TCTGACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.24
15 14 0.56
16 5 0.20
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:49577350 original size:22 final size:23
Alignment explanation
Indices: 49577325--49577368 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
49577315 GCGTCTCCAT
49577325 TTTTTTCATTTTTCAT-TTTTTA
1 TTTTTTCATTTTTCATATTTTTA
49577347 TTTTTTCATTTTTCATATTTTT
1 TTTTTTCATTTTTCATATTTTT
49577369 TCTGACTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTCATTTTTCATATTTTTA
Found at i:49580311 original size:25 final size:25
Alignment explanation
Indices: 49580283--49580333 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
49580273 GGAGTACTAA
49580283 GTCTGGAACCAAGCTCAGATCTTTT
1 GTCTGGAACCAAGCTCAGATCTTTT
49580308 GTCTGGAACCAAGCTCAGATCTTTT
1 GTCTGGAACCAAGCTCAGATCTTTT
49580333 G
1 G
49580334 CATCGATTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
GTCTGGAACCAAGCTCAGATCTTTT
Found at i:49584733 original size:90 final size:90
Alignment explanation
Indices: 49584513--49584735 Score: 266
Period size: 90 Copynumber: 2.5 Consensus size: 90
49584503 AACTTACCTT
** * * * * * *
49584513 AAAATAACAATTGAATAGCAGTAGCCAATAGTTTTCGAGAAACCTTGTCGATAAGAAGTTCAAAA
1 AAAATAACAATTGAATAGCAACAACCAAAAGTTGTAGAGAAATCTTGCCGATAAGAAGTTCAAAA
*
49584578 AAAGAAATCTAGAGAAATGTCGAGA
66 AAAGAAATCTAAAGAAATGTCGAGA
* ** * *
49584603 AAAATAGCAATTGAATAGCAACAATAAAAAATTGTTGAGAAATCTTGCCGATAAGAAGTTCAAAA
1 AAAATAACAATTGAATAGCAACAACCAAAAGTTGTAGAGAAATCTTGCCGATAAGAAGTTCAAAA
* * *
49584668 AAATAAGTTTAAAGAAATGTCGAGA
66 AAAGAAATCTAAAGAAATGTCGAGA
* * *
49584693 AAAACAACAATTGAATACCAACAACCAACAGTTGTAGAGAAAT
1 AAAATAACAATTGAATAGCAACAACCAAAAGTTGTAGAGAAAT
49584736 TTTTAATTAG
Statistics
Matches: 109, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 109 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.22
Consensus pattern (90 bp):
AAAATAACAATTGAATAGCAACAACCAAAAGTTGTAGAGAAATCTTGCCGATAAGAAGTTCAAAA
AAAGAAATCTAAAGAAATGTCGAGA
Found at i:49589941 original size:49 final size:49
Alignment explanation
Indices: 49589885--49589982 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
49589875 TATGGAAAAC
* **
49589885 AATTCTCAAGAAGAAAACACTCATATATAATATGCATTTGCTTTGTGTA
1 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGCTTTGTGTA
*
49589934 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGTTTTGTGTA
1 AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGCTTTGTGTA
49589983 TCTATAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (49 bp):
AATTCTCAAAAAGAAAACACTCATATATAATACACATTTGCTTTGTGTA
Found at i:49593418 original size:125 final size:124
Alignment explanation
Indices: 49593120--49593526 Score: 609
Period size: 124 Copynumber: 3.3 Consensus size: 124
49593110 ATTTATTAAG
* * * *
49593120 GAAATCGCTCCCACGA-GGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGA
1 GAAATCGCTCCCAC-ATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGA
* * * *
49593184 TGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAACAGAATGCTTTATCAGAAGAATTTCT
65 CGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
** *
49593245 GAAATCGCTCTTACGTGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
*
49593310 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGTAGAATGCTTTATCAAAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
* *
49593369 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
* * * **
49593434 GTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAGGATGTTTTATTGAAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
*
49593493 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACA
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACA
49593527 ATAGAATGTT
Statistics
Matches: 257, Mismatches: 24, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
124 182 0.71
125 75 0.29
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGGAAGTCCTGAAAAAATAATTTTGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTTTATCAAAAGAATTTTT
Found at i:49596134 original size:14 final size:14
Alignment explanation
Indices: 49596115--49596150 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
49596105 TATTGTGTAC
49596115 ACTTGCGAAATAAG
1 ACTTGCGAAATAAG
*
49596129 ACTTGCGAAATAGG
1 ACTTGCGAAATAAG
49596143 ACTTGCGA
1 ACTTGCGA
49596151 CTATGGGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (14 bp):
ACTTGCGAAATAAG
Found at i:49597123 original size:18 final size:18
Alignment explanation
Indices: 49597097--49597139 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
49597087 GACTAGAAAA
* *
49597097 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
49597115 AGGATACATAAAAGGGTT
1 AGGATACATAAAAGGGTT
49597133 AGGATAC
1 AGGATAC
49597140 GCACATGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:49598971 original size:11 final size:11
Alignment explanation
Indices: 49598941--49598965 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49598931 GAGAAATTTA
49598941 AGAGCAAATTG
1 AGAGCAAATTG
49598952 AGAGCAAATTG
1 AGAGCAAATTG
49598963 AGA
1 AGA
49598966 TTAAATATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:49598990 original size:11 final size:12
Alignment explanation
Indices: 49598976--49599038 Score: 66
Period size: 11 Copynumber: 5.7 Consensus size: 12
49598966 TTAAATATGG
49598976 ATTTGAGA-GAA
1 ATTTGAGAGGAA
49598987 ATTTG-GAAGGAA
1 ATTTGAG-AGGAA
*
49598999 A-TTGAGA-GCA
1 ATTTGAGAGGAA
49599009 ATTTGAGAGGAA
1 ATTTGAGAGGAA
49599021 A-TTGAGAGGAA
1 ATTTGAGAGGAA
49599032 A-TTGAGA
1 ATTTGAGA
49599039 AAATAATTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 4 0.09
11 33 0.73
12 8 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:49599003 original size:22 final size:22
Alignment explanation
Indices: 49598978--49599038 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
49598968 AAATATGGAT
49598978 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
49599000 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
49599022 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
49599039 AAATAATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:49599013 original size:33 final size:33
Alignment explanation
Indices: 49598976--49599038 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
49598966 TTAAATATGG
49598976 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAGCA
49599009 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
49599039 AAATAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:49599046 original size:23 final size:22
Alignment explanation
Indices: 49598997--49599050 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
49598987 ATTTGGAAGG
* **
49598997 AAATTGAGAGCAATTTGAGAGG
1 AAATTGAGAGCAAATTGAGAAA
*
49599019 AAATTGAGAGGAAATTGAGAAA
1 AAATTGAGAGCAAATTGAGAAA
49599041 ATAATTGAGA
1 A-AATTGAGA
49599051 AAAGGATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (22 bp):
AAATTGAGAGCAAATTGAGAAA
Found at i:49599798 original size:30 final size:29
Alignment explanation
Indices: 49599722--49599798 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
49599712 ATAATTATGG
* *
49599722 AAAAAAATTTCTTATATTATAAATCCTAA
1 AAAAAAATTTATTATTTTATAAATCCTAA
* * *
49599751 AAAATAATTTTTGTATTTTATAAAT-TTATA
1 AAAAAAATTTAT-TATTTTATAAATCCTA-A
49599781 AAAAAAATTATATTATTT
1 AAAAAAATT-TATTATTT
49599799 AAATCTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 12 0.31
30 25 0.64
31 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
AAAAAAATTTATTATTTTATAAATCCTAA
Found at i:49602693 original size:22 final size:23
Alignment explanation
Indices: 49602667--49602711 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
49602657 GGTTTAAATT
* *
49602667 TTATTTTGTATATATATA-TATA
1 TTATTTTATATATAAATAGTATA
49602689 TTATTTTATATATAAATAGTATA
1 TTATTTTATATATAAATAGTATA
49602712 AAATGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATTTTATATATAAATAGTATA
Found at i:49617858 original size:13 final size:13
Alignment explanation
Indices: 49617840--49617869 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49617830 ACATATATTG
49617840 TAATATTTATTAA
1 TAATATTTATTAA
*
49617853 TAATATTTATTCA
1 TAATATTTATTAA
49617866 TAAT
1 TAAT
49617870 CTTAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATATTTATTAA
Found at i:49620084 original size:23 final size:24
Alignment explanation
Indices: 49620057--49620109 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
49620047 TCTTTCTAGA
* *
49620057 ATATTTAGTATTTA-TAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
49620080 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
*
49620104 TTATTT
1 ATATTT
49620110 GACTTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:49645605 original size:24 final size:24
Alignment explanation
Indices: 49645574--49645644 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
49645564 AAGAATTTAG
* *
49645574 TCAAGATCATTCATATATTTTCAA
1 TCAAGATCATTCATGTATATTCAA
49645598 TCAAGATCATTCATGTATATTCAA
1 TCAAGATCATTCATGTATATTCAA
*
49645622 TCAAAATCATTCATGTATATTCA
1 TCAAGATCATTCATGTATATTCA
49645645 CATAATTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (24 bp):
TCAAGATCATTCATGTATATTCAA
Found at i:49645827 original size:32 final size:30
Alignment explanation
Indices: 49645791--49645854 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
49645781 AAGCAGAGGC
* *
49645791 ACGATTGTGCAATCAGAGGCACCAGAGTGCAA
1 ACGATTGTG--ATCAAAGGCACCAAAGTGCAA
*
49645823 ACGATTGTGATGAAAGGCACCAAAGTGCAA
1 ACGATTGTGATCAAAGGCACCAAAGTGCAA
49645853 AC
1 AC
49645855 CCGTACAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 20 0.69
32 9 0.31
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (30 bp):
ACGATTGTGATCAAAGGCACCAAAGTGCAA
Found at i:49651437 original size:17 final size:17
Alignment explanation
Indices: 49651415--49651551 Score: 67
Period size: 17 Copynumber: 7.5 Consensus size: 17
49651405 AATATTAAAG
49651415 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
49651432 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
49651450 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
* ***
49651469 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
49651487 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
* * *
49651506 AATTATGTAGTGATTCTA
1 AATTATGTAATG-TTTTT
*
49651524 AGATTTATGTAATTTTTTT
1 A-A-TTATGTAATGTTTTT
49651543 AATTATGTA
1 AATTATGTA
49651552 GTGATTCAAT
Statistics
Matches: 84, Mismatches: 27, Indels: 18
0.65 0.21 0.14
Matches are distributed among these distances:
17 34 0.40
18 13 0.15
19 13 0.15
20 24 0.29
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Done.