Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 152 of 163
Found at i:50304812 original size:19 final size:19
Alignment explanation
Indices: 50304774--50304847 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
50304764 AAATTAAATC
*
50304774 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
50304794 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
50304813 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
50304832 TCTAAGATTACATATC
1 TCTAAGATTACATATC
50304848 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 41 0.80
20 10 0.20
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:50305600 original size:29 final size:29
Alignment explanation
Indices: 50305567--50305704 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
50305557 TAAATATATT
50305567 AAATTATTATCATACACTCATCCATAGAG
1 AAATTATTATCATACACTCATCCATAGAG
* * * **
50305596 AAATTATT-TTATGGAC-CT-TTCC-CA-CC
1 AAATTATTATCAT--ACACTCATCCATAGAG
*
50305622 ACATTATTATCATACACTCATCCATAGAG
1 AAATTATTATCATACACTCATCCATAGAG
50305651 AAATTATTATCATACACTCATCCATAGAG
1 AAATTATTATCATACACTCATCCATAGAG
50305680 AAATTATTATCATACACTCATCCAT
1 AAATTATTATCATACACTCATCCAT
50305705 TTCCAATTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.02
26 9 0.10
27 7 0.08
28 7 0.08
29 63 0.70
30 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (29 bp):
AAATTATTATCATACACTCATCCATAGAG
Found at i:50323507 original size:57 final size:57
Alignment explanation
Indices: 50323438--50323561 Score: 239
Period size: 57 Copynumber: 2.2 Consensus size: 57
50323428 GGAATTTGGA
50323438 ATTTAAATTGACGTCACTATAATCACCGACAAAGTACTGGGTACTGTCCTGGCTGAT
1 ATTTAAATTGACGTCACTATAATCACCGACAAAGTACTGGGTACTGTCCTGGCTGAT
*
50323495 ATTTAAATTGACGTCACTATAATCACTGACAAAGTACTGGGTACTGTCCTGGCTGAT
1 ATTTAAATTGACGTCACTATAATCACCGACAAAGTACTGGGTACTGTCCTGGCTGAT
50323552 ATTTAAATTG
1 ATTTAAATTG
50323562 TTTGGTAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (57 bp):
ATTTAAATTGACGTCACTATAATCACCGACAAAGTACTGGGTACTGTCCTGGCTGAT
Found at i:50325587 original size:911 final size:912
Alignment explanation
Indices: 50323813--50325644 Score: 3648
Period size: 911 Copynumber: 2.0 Consensus size: 912
50323803 GTGAAAAGTT
50323813 TTGTATAACAAATGTATTAATAAAAAATTATATTAAAAACAAATGAATATTTGATTGAATTGATA
1 TTGTATAACAAA-GTATTAATAAAAAATTATATTAAAAACAAATGAATATTTGATTGAATTGATA
50323878 AATTTCACCATGTGTTAATTCAGATTTATTTTTAAATTTTATATAAAATATATAAAAAAGGCAAA
65 AATTTCACCATGTGTTAATTCAGATTTATTTTTAAATTTTATATAAAATATATAAAAAAGGCAAA
50323943 ACAACTTTGAAATAATATCTATTGTTTTGTAAAAAAGAGAGTGGATTTTAATCATTTTTAATTTG
130 ACAACTTTGAAATAATATCTATTGTTTTGTAAAAAAGAGAGTGGATTTTAATCATTTTTAATTTG
50324008 ATTAACTCGTGACATCAACTCAAGTAAACACATTGTATATAGTATATATACATGTATGGTCAATT
195 ATTAACTCGTGACATCAACTCAAGTAAACACATTGTATATAGTATATATACATGTATGGTCAATT
50324073 ATCAAATATAAATTTTGTTAGCTTTAATTTTCAAATATTTTGATTTAATAAAATAAATTCTAAAA
260 ATCAAATATAAATTTTGTTAGCTTTAATTTTCAAATATTTTGATTTAATAAAATAAATTCTAAAA
50324138 TTATTTAATTAAATTTACAAAAATTATTTTCCAAGTATTACAAATTCAATAATAATAATAATGTT
325 TTATTTAATTAAATTTACAAAAATTATTTTCCAAGTATTACAAATTCAATAATAATAATAATGTT
50324203 AGTAAACAACTTAGAAACAATTTTAAGAGGATTCTGGAGTATTCAAAATTTTTTGTGAATTGTCT
390 AGTAAACAACTTAGAAACAATTTTAAGAGGATTCTGGAGTATTCAAAATTTTTTGTGAATTGTCT
50324268 AACCCTTTTAAAGCAACTTTCCAGTCAAGTATTGATATTTCTTGAACAAAATCTAACAAAGTTTT
455 AACCCTTTTAAAGCAACTTTCCAGTCAAGTATTGATATTTCTTGAACAAAATCTAACAAAGTTTT
50324333 TAAAAGAGGTGTAGTATAGAGTTTTGAACTTTTTTAGTTGATTTGGGCACAAATTAAGGATTGAG
520 TAAAAGAGGTGTAGTATAGAGTTTTGAACTTTTTTAGTTGATTTGGGCACAAATTAAGGATTGAG
50324398 TAGTCAAATATTTTAATTGTAGTGTTTGGTGAATTGATGTTTGCAAGAGCTTATTGAGATAAAAC
585 TAGTCAAATATTTTAATTGTAGTGTTTGGTGAATTGATGTTTGCAAGAGCTTATTGAGATAAAAC
50324463 CTTCAAAACAAAAACGCTCGGATGAACAACTTTTTTCAACAACTGATTGAGAAATGAGATATGTG
650 CTTCAAAACAAAAACGCTCGGATGAACAACTTTTTTCAACAACTGATTGAGAAATGAGATATGTG
50324528 AAATGACATATCTCACCATGCATGCTCAAAAATTACTCTCTTTGCCACATGCTCTCAAATCTAAT
715 AAATGACATATCTCACCATGCATGCTCAAAAATTACTCTCTTTGCCACATGCTCTCAAATCTAAT
50324593 AAAGTTGCCAAGATATTAATAGTCTTCAAAAAAACTCCACTGTGAAGCTACAAACAACATTACCG
780 AAAGTTGCCAAGATATTAATAGTCTTCAAAAAAACTCCACTGTGAAGCTACAAACAACATTACCG
50324658 CCAAATTTTTTTAATCGGGCTCATTCATCCTTGAATATTTATATACTCTTCATTTATTTTCAATT
845 CCAAATTTTTTTAATCGGGCTCATTCATCCTTGAATATTTATATACTCTTCATTTATTTTCAATT
50324723 TAC
910 TAC
50324726 TTGTATAACAAA-TATTAATAAAAAATTATATTAAAAACAAATGAATATTTGATTGAATTGATAA
1 TTGTATAACAAAGTATTAATAAAAAATTATATTAAAAACAAATGAATATTTGATTGAATTGATAA
50324790 ATTTCACCATGTGTTAATTCAGATTTATTTTTAAATTTTATATAAAATATATAAAAAAGGCAAAA
66 ATTTCACCATGTGTTAATTCAGATTTATTTTTAAATTTTATATAAAATATATAAAAAAGGCAAAA
50324855 CAACTTTGAAATAATATCTATTGTTTTGTAAAAAAGAGAGTGGATTTTAATCATTTTTAATTTGA
131 CAACTTTGAAATAATATCTATTGTTTTGTAAAAAAGAGAGTGGATTTTAATCATTTTTAATTTGA
50324920 TTAACTCGTGACATCAACTCAAGTAAACACATTGTATATAGTATATATACATGTATGGTCAATTA
196 TTAACTCGTGACATCAACTCAAGTAAACACATTGTATATAGTATATATACATGTATGGTCAATTA
50324985 TCAAATATAAATTTTGTTAGCTTTAATTTTCAAATATTTTGATTTAATAAAATAAATTCTAAAAT
261 TCAAATATAAATTTTGTTAGCTTTAATTTTCAAATATTTTGATTTAATAAAATAAATTCTAAAAT
50325050 TATTTAATTAAATTTACAAAAATTATTTTCCAAGTATTACAAATTCAATAATAATAATAATGTTA
326 TATTTAATTAAATTTACAAAAATTATTTTCCAAGTATTACAAATTCAATAATAATAATAATGTTA
50325115 GTAAACAACTTAGAAACAATTTTAAGAGGATTCTGGAGTATTCAAAATTTTTTGTGAATTGTCTA
391 GTAAACAACTTAGAAACAATTTTAAGAGGATTCTGGAGTATTCAAAATTTTTTGTGAATTGTCTA
50325180 ACCCTTTTAAAGCAACTTTCCAGTCAAGTATTGATATTTCTTGAACAAAATCTAACAAAGTTTTT
456 ACCCTTTTAAAGCAACTTTCCAGTCAAGTATTGATATTTCTTGAACAAAATCTAACAAAGTTTTT
50325245 AAAAGAGGTGTAGTATAGAGTTTTGAACTTTTTTAGTTGATTTGGGCACAAATTAAGGATTGAGT
521 AAAAGAGGTGTAGTATAGAGTTTTGAACTTTTTTAGTTGATTTGGGCACAAATTAAGGATTGAGT
50325310 AGTCAAATATTTTAATTGTAGTGTTTGGTGAATTGATGTTTGCAAGAGCTTATTGAGATAAAACC
586 AGTCAAATATTTTAATTGTAGTGTTTGGTGAATTGATGTTTGCAAGAGCTTATTGAGATAAAACC
50325375 TTCAAAACAAAAACGCTCGGATGAACAACTTTTTTCAACAACTGATTGAGAAATGAGATATGTGA
651 TTCAAAACAAAAACGCTCGGATGAACAACTTTTTTCAACAACTGATTGAGAAATGAGATATGTGA
50325440 AATGACATATCTCACCATGCATGCTCAAAAATTACTCTCTTTGCCACATGCTCTCAAATCTAATA
716 AATGACATATCTCACCATGCATGCTCAAAAATTACTCTCTTTGCCACATGCTCTCAAATCTAATA
50325505 AAGTTGCCAAGATATTAATAGTCTTCAAAAAAACTCCACTGTGAAGCTACAAACAACATTACCGC
781 AAGTTGCCAAGATATTAATAGTCTTCAAAAAAACTCCACTGTGAAGCTACAAACAACATTACCGC
50325570 CAAATTTTTTTAATCGGGCTCATTCATCCTTGAATATTTATATACTCTTCATTTATTTTCAATTT
846 CAAATTTTTTTAATCGGGCTCATTCATCCTTGAATATTTATATACTCTTCATTTATTTTCAATTT
50325635 AC
911 AC
50325637 TTGTATAA
1 TTGTATAA
50325645 AATGATTTTT
Statistics
Matches: 919, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
911 907 0.99
913 12 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (912 bp):
TTGTATAACAAAGTATTAATAAAAAATTATATTAAAAACAAATGAATATTTGATTGAATTGATAA
ATTTCACCATGTGTTAATTCAGATTTATTTTTAAATTTTATATAAAATATATAAAAAAGGCAAAA
CAACTTTGAAATAATATCTATTGTTTTGTAAAAAAGAGAGTGGATTTTAATCATTTTTAATTTGA
TTAACTCGTGACATCAACTCAAGTAAACACATTGTATATAGTATATATACATGTATGGTCAATTA
TCAAATATAAATTTTGTTAGCTTTAATTTTCAAATATTTTGATTTAATAAAATAAATTCTAAAAT
TATTTAATTAAATTTACAAAAATTATTTTCCAAGTATTACAAATTCAATAATAATAATAATGTTA
GTAAACAACTTAGAAACAATTTTAAGAGGATTCTGGAGTATTCAAAATTTTTTGTGAATTGTCTA
ACCCTTTTAAAGCAACTTTCCAGTCAAGTATTGATATTTCTTGAACAAAATCTAACAAAGTTTTT
AAAAGAGGTGTAGTATAGAGTTTTGAACTTTTTTAGTTGATTTGGGCACAAATTAAGGATTGAGT
AGTCAAATATTTTAATTGTAGTGTTTGGTGAATTGATGTTTGCAAGAGCTTATTGAGATAAAACC
TTCAAAACAAAAACGCTCGGATGAACAACTTTTTTCAACAACTGATTGAGAAATGAGATATGTGA
AATGACATATCTCACCATGCATGCTCAAAAATTACTCTCTTTGCCACATGCTCTCAAATCTAATA
AAGTTGCCAAGATATTAATAGTCTTCAAAAAAACTCCACTGTGAAGCTACAAACAACATTACCGC
CAAATTTTTTTAATCGGGCTCATTCATCCTTGAATATTTATATACTCTTCATTTATTTTCAATTT
AC
Found at i:50334358 original size:14 final size:14
Alignment explanation
Indices: 50334333--50334369 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
50334323 AGAGTTTAAC
50334333 TTCTTCTTTTTCTTT
1 TTCTT-TTTTTCTTT
50334348 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
50334362 TTACTTTT
1 TT-CTTTT
50334370 GTGACCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:50337488 original size:27 final size:27
Alignment explanation
Indices: 50337449--50337511 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
50337439 TCAATTTGAA
*
50337449 CAGCAGCGGCAGTTGGAACTACA-ACGG
1 CAGCAGCAGCAGTTGGAACTACAGA-GG
* * *
50337476 CAGCAGCATCAGTTGGAGCTTCAGAGG
1 CAGCAGCAGCAGTTGGAACTACAGAGG
50337503 CAGCAGCAG
1 CAGCAGCAG
50337512 TTGGAGCATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.33, T:0.13
Consensus pattern (27 bp):
CAGCAGCAGCAGTTGGAACTACAGAGG
Found at i:50337512 original size:24 final size:24
Alignment explanation
Indices: 50337478--50337706 Score: 251
Period size: 24 Copynumber: 9.3 Consensus size: 24
50337468 TACAACGGCA
* *
50337478 GCAGCATCAGTTGGAGCTTCAGAG
1 GCAGCAGCAGTTGGAGCTTCAGCG
*
50337502 GCAGCAGCAGTTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCG
* * *
50337526 GCAGCAACAATTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCG
* *
50337550 GCAGCAGCAATTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCG
*
50337574 GCAGCAGCAATTGGAGCTTCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCG
* *
50337598 GCAGCAGCAATTGGAGCTTCAGCA
1 GCAGCAGCAGTTGGAGCTTCAGCG
* *
50337622 GCATCAACGTCTGTTGGAGCTTCAGCG
1 GCAGC-A-G-CAGTTGGAGCTTCAGCG
* *
50337649 GCAGCAGCAGTTGGAACTTCAGCA
1 GCAGCAGCAGTTGGAGCTTCAGCG
* *
50337673 GCATCAACGGCAGTTGGAACTTCAGCG
1 GCAGC-A--GCAGTTGGAGCTTCAGCG
50337700 GCAGCAG
1 GCAGCAG
50337707 GAGCTTCGTC
Statistics
Matches: 180, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
24 135 0.75
25 3 0.02
26 3 0.02
27 39 0.22
ACGTcount: A:0.27, C:0.25, G:0.32, T:0.17
Consensus pattern (24 bp):
GCAGCAGCAGTTGGAGCTTCAGCG
Found at i:50337528 original size:51 final size:50
Alignment explanation
Indices: 50337451--50337706 Score: 261
Period size: 51 Copynumber: 5.1 Consensus size: 50
50337441 AATTTGAACA
* * * * *
50337451 GCAGCGGCAGTTGGAAC-TACAACGGCAGCAGCATCAGTTGGAGCTTCAGAG
1 GCAGCAGCAGTTGGAGCAT-CAGCGGCAGCAACA-CAGTTGGAGCTTCAGCG
*
50337502 GCAGCAGCAGTTGGAGCATCAGCGGCAGCAACA-A-TTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCATCAGCGGCAGCAACACAGTTGGAGCTTCAGCG
* *
50337550 GCAGCAGCAATTGGAGCATCAGCGGCAGCAGCA-A-TTGGAGCTTCAGCG
1 GCAGCAGCAGTTGGAGCATCAGCGGCAGCAACACAGTTGGAGCTTCAGCG
* * * * * *
50337598 GCAGCAGCAATTGGAGCTTCAGCAGCATCAACGTCTGTTGGAGCTTCAGCG
1 GCAGCAGCAGTTGGAGCATCAGCGGCAGCAAC-ACAGTTGGAGCTTCAGCG
* * * * * *
50337649 GCAGCAGCAGTTGGAACTTCAGCAGCATCAACGGCAGTTGGAACTTCAGCG
1 GCAGCAGCAGTTGGAGCATCAGCGGCAGCAAC-ACAGTTGGAGCTTCAGCG
50337700 GCAGCAG
1 GCAGCAG
50337707 GAGCTTCGTC
Statistics
Matches: 181, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
48 85 0.47
49 1 0.01
51 94 0.52
52 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.32, T:0.16
Consensus pattern (50 bp):
GCAGCAGCAGTTGGAGCATCAGCGGCAGCAACACAGTTGGAGCTTCAGCG
Found at i:50337685 original size:27 final size:27
Alignment explanation
Indices: 50337608--50337698 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 27
50337598 GCAGCAGCAA
* * *
50337608 TTGGAGCTTCAGCAGCATCAACGTCTG
1 TTGGAACTTCAGCAGCATCAACGGCAG
* * *
50337635 TTGGAGCTTCAGCGGCAGC-A--GCAG
1 TTGGAACTTCAGCAGCATCAACGGCAG
50337659 TTGGAACTTCAGCAGCATCAACGGCAG
1 TTGGAACTTCAGCAGCATCAACGGCAG
50337686 TTGGAACTTCAGC
1 TTGGAACTTCAGC
50337699 GGCAGCAGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 18 0.33
25 1 0.02
26 1 0.02
27 34 0.63
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (27 bp):
TTGGAACTTCAGCAGCATCAACGGCAG
Found at i:50342510 original size:17 final size:18
Alignment explanation
Indices: 50342472--50342516 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
50342462 AATAAATGAC
*
50342472 AATTGGTGATTTTGGACTA
1 AATT-GTGATATTGGACTA
50342491 AATTGTGATATTGG-CTA
1 AATTGTGATATTGGACTA
*
50342508 AATTATGAT
1 AATTGTGAT
50342517 TATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 9 0.38
19 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (18 bp):
AATTGTGATATTGGACTA
Found at i:50342656 original size:49 final size:49
Alignment explanation
Indices: 50342584--50342681 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
50342574 AGTTAATTTA
50342584 TTTGGAAACAAAAAGTGACCCATATGAACCTCGTGAATGCTTAGGATAC
1 TTTGGAAACAAAAAGTGACCCATATGAACCTCGTGAATGCTTAGGATAC
50342633 TTTGGAAACAAAAAGTGACCCATATGAACCTCGTGAATGCTTAGGATAC
1 TTTGGAAACAAAAAGTGACCCATATGAACCTCGTGAATGCTTAGGATAC
50342682 AAATGACATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (49 bp):
TTTGGAAACAAAAAGTGACCCATATGAACCTCGTGAATGCTTAGGATAC
Found at i:50344104 original size:19 final size:20
Alignment explanation
Indices: 50344080--50344139 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
50344070 TGAATATGCC
50344080 AACAGAAGCT-TGAA-AGCTG
1 AACAGAAGCTAT-AAGAGCTG
50344099 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCT-ATAAGAGCTG
*
50344120 AACAGAAGCTCGTAAGAGCT
1 AACAGAAGCT-ATAAGAGCT
50344140 AATTCACCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.27
20 2 0.05
21 25 0.68
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (20 bp):
AACAGAAGCTATAAGAGCTG
Found at i:50344120 original size:21 final size:21
Alignment explanation
Indices: 50344094--50344139 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
50344084 GAAGCTTGAA
50344094 AGCTGAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
*
50344115 AGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
50344136 AGCT
1 AGCT
50344140 AATTCACCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:50345874 original size:26 final size:27
Alignment explanation
Indices: 50345844--50345928 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 27
50345834 AATGTGTAAA
*
50345844 ATGAAATGGTTACT-CAAAATGGTTAT
1 ATGAAATGGTTACTACAAAATAGTTAT
* * * *
50345870 ATGAAATGATT-CTACGAAATTGTAAT
1 ATGAAATGGTTACTACAAAATAGTTAT
* *
50345896 ATGAGATGGGTA-TACAAAATAGTTAT
1 ATGAAATGGTTACTACAAAATAGTTAT
50345922 AT-AAATG
1 ATGAAATG
50345929 AGTATATGAA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
25 6 0.13
26 40 0.87
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (27 bp):
ATGAAATGGTTACTACAAAATAGTTAT
Found at i:50345876 original size:13 final size:13
Alignment explanation
Indices: 50345860--50345989 Score: 66
Period size: 13 Copynumber: 10.0 Consensus size: 13
50345850 TGGTTACTCA
50345860 AAATGGTTATATG
1 AAATGGTTATATG
* * *
50345873 AAATGATTCTACG
1 AAATGGTTATATG
* *
50345886 AAATTGTAATATG
1 AAATGGTTATATG
* * **
50345899 AGATGGGTATACA
1 AAATGGTTATATG
*
50345912 AAATAGTTATAT-
1 AAATGGTTATATG
50345924 AAATGAG-TATATG
1 AAATG-GTTATATG
*
50345937 AAATGATTATATG
1 AAATGGTTATATG
* *
50345950 AAAATAGATATATG
1 -AAATGGTTATATG
* * * *
50345964 AAGTGATTGTACG
1 AAATGGTTATATG
*
50345977 AAATGTTTATATG
1 AAATGGTTATATG
50345990 GATAGATATG
Statistics
Matches: 80, Mismatches: 33, Indels: 8
0.66 0.27 0.07
Matches are distributed among these distances:
12 9 0.11
13 61 0.76
14 10 0.12
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:50345940 original size:25 final size:26
Alignment explanation
Indices: 50345918--50345971 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
50345908 TACAAAATAG
50345918 TTATAT-AAAT-GAGTATATGAAATGA
1 TTATATAAAATAGA-TATATGAAATGA
*
50345943 TTATATGAAAATAGATATATGAAGTGA
1 TTATAT-AAAATAGATATATGAAATGA
50345970 TT
1 TT
50345972 GTACGAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
27 17 0.68
28 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (26 bp):
TTATATAAAATAGATATATGAAATGA
Found at i:50355421 original size:24 final size:24
Alignment explanation
Indices: 50355384--50355591 Score: 209
Period size: 24 Copynumber: 8.4 Consensus size: 24
50355374 AACTACAACG
*
50355384 GCAGCAGCATCAGTTGGAGCTTCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* *
50355408 GAAGCAGCAGCAGTTGGAGCATCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* *
50355432 GCGGCAGCAGCAGTTGGAGCATCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* * *
50355456 GCGGCAGCAGCAATTGGAGCATCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* *
50355480 GCGGCAGCAGCAATTGGAGCTTCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* *
50355504 GCAGCATCAACGTCTGTTGGAGCTTCA
1 GCAGCAGC-A-G-CAGTTGGAGCTTCA
* *
50355531 GCGGCAGCAGCAGTTGGAACTTCA
1 GCAGCAGCAGCAGTTGGAGCTTCA
* *
50355555 GCAGCATCAACGGCAGTTGGAACTTCA
1 GCAGCAGC-A--GCAGTTGGAGCTTCA
*
50355582 GCGGCAGCAG
1 GCAGCAGCAG
50355592 GAGCTTCGTC
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
24 114 0.72
25 3 0.02
26 3 0.02
27 39 0.25
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.16
Consensus pattern (24 bp):
GCAGCAGCAGCAGTTGGAGCTTCA
Found at i:50355440 original size:12 final size:12
Alignment explanation
Indices: 50355425--50355488 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
50355415 CAGCAGTTGG
50355425 AGCATCAGCGGC
1 AGCATCAGCGGC
* *
50355437 AGCAGCAGTTGG-
1 AGCATCAG-CGGC
50355449 AGCATCAGCGGC
1 AGCATCAGCGGC
* **
50355461 AGCAGCAATTGG-
1 AGCATC-AGCGGC
50355473 AGCATCAGCGGC
1 AGCATCAGCGGC
50355485 AGCA
1 AGCA
50355489 GCAATTGGAG
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
11 5 0.13
12 28 0.74
13 5 0.13
ACGTcount: A:0.28, C:0.27, G:0.34, T:0.11
Consensus pattern (12 bp):
AGCATCAGCGGC
Found at i:50355463 original size:48 final size:50
Alignment explanation
Indices: 50355387--50355591 Score: 247
Period size: 48 Copynumber: 4.1 Consensus size: 50
50355377 TACAACGGCA
* *
50355387 GCAGCATCAGTTGGAGCTTCAGAAGCAGC-A-GCAGTTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCAGCAGCAACGCAGTTGGAGCATCAGCG
* * *
50355435 GCAGCAGCAGTTGGAGCATCAGCGGCAGC-A-GCAATTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCAGCAGCAACGCAGTTGGAGCATCAGCG
* * * *
50355483 GCAGCAGCAATTGGAGCTTCAGCAGCATCAACGTCTGTTGGAGCTTCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCAGCAGCAACG-CAGTTGGAGCATCAGCG
* * * *
50355534 GCAGCAGCAGTTGGAACTTCAGCAGCATCAACGGCAGTTGGAACTTCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGCAGCAGCAAC-GCAGTTGGAGCATCAGCG
50355585 GCAGCAG
1 GCAGCAG
50355592 GAGCTTCGTC
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
48 68 0.50
49 1 0.01
50 1 0.01
51 66 0.48
52 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (50 bp):
GCAGCAGCAGTTGGAGCTTCAGCAGCAGCAACGCAGTTGGAGCATCAGCG
Found at i:50355570 original size:27 final size:27
Alignment explanation
Indices: 50355493--50355583 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 27
50355483 GCAGCAGCAA
* * *
50355493 TTGGAGCTTCAGCAGCATCAACGTCTG
1 TTGGAACTTCAGCAGCATCAACGGCAG
* * *
50355520 TTGGAGCTTCAGCGGCAGC-A--GCAG
1 TTGGAACTTCAGCAGCATCAACGGCAG
50355544 TTGGAACTTCAGCAGCATCAACGGCAG
1 TTGGAACTTCAGCAGCATCAACGGCAG
50355571 TTGGAACTTCAGC
1 TTGGAACTTCAGC
50355584 GGCAGCAGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 18 0.33
25 1 0.02
26 1 0.02
27 34 0.63
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (27 bp):
TTGGAACTTCAGCAGCATCAACGGCAG
Found at i:50358620 original size:3 final size:3
Alignment explanation
Indices: 50358612--50358661 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
50358602 TTTGTGAAAA
* *
50358612 TAT TAT TA- TAT GAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
50358657 TAT TA
1 TAT TA
50358662 CAATGGCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:50359625 original size:21 final size:21
Alignment explanation
Indices: 50359576--50359659 Score: 116
Period size: 21 Copynumber: 4.0 Consensus size: 21
50359566 GCTTTGCCGA
50359576 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGT-T
50359598 CTCAGGCACTTTATGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTT
* *
50359620 TCAGGCACCTTGTGTGTCGTT
1 TCAGGCACTTTATGTGTCGTT
*
50359641 ACAGGCAC-TTATGTGTCGT
1 TCAGGCACTTTATGTGTCGT
50359660 ATACTGATCA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 10 0.18
21 26 0.46
22 1 0.02
23 20 0.35
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (21 bp):
TCAGGCACTTTATGTGTCGTT
Found at i:50359626 original size:44 final size:41
Alignment explanation
Indices: 50359576--50359659 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 41
50359566 GCTTTGCCGA
* *
50359576 TCAGGCACTTTATGTGTCGTATCTCAGGCACTTTATGTGTCGTT
1 TCAGGCACCTTATGTGTCGT-T-ACAGGCAC-TTATGTGTCGTT
*
50359620 TCAGGCACCTTGTGTGTCGTTACAGGCACTTATGTGTCGT
1 TCAGGCACCTTATGTGTCGTTACAGGCACTTATGTGTCGT
50359660 ATACTGATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 11 0.30
42 7 0.19
43 1 0.03
44 18 0.49
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (41 bp):
TCAGGCACCTTATGTGTCGTTACAGGCACTTATGTGTCGTT
Found at i:50370010 original size:4 final size:4
Alignment explanation
Indices: 50370001--50370035 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
50369991 CATCTATGTA
50370001 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
50370036 TTGAGGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:50374535 original size:20 final size:20
Alignment explanation
Indices: 50374510--50374549 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50374500 TTATTTTTTA
*
50374510 AAAGTTAAGTGACTGAATTG
1 AAAGTTAAGTAACTGAATTG
*
50374530 AAAGTTAAGTAACTGTATTG
1 AAAGTTAAGTAACTGAATTG
50374550 TCATTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (20 bp):
AAAGTTAAGTAACTGAATTG
Found at i:50377243 original size:2 final size:2
Alignment explanation
Indices: 50377236--50377264 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50377226 CTGGTAGATT
50377236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50377265 CTGTTGCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50383778 original size:2 final size:2
Alignment explanation
Indices: 50383771--50383810 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
50383761 CAGGTCCTCC
50383771 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50383811 TGCGGGTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50394685 original size:11 final size:12
Alignment explanation
Indices: 50394656--50394688 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50394646 TTCAGCTTGG
*
50394656 ATGCTGGTCTGC
1 ATGCTGGTTTGC
50394668 ATGCTGGTTTGC
1 ATGCTGGTTTGC
50394680 -TGCTGGTTT
1 ATGCTGGTTT
50394689 CCTATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:50396535 original size:16 final size:16
Alignment explanation
Indices: 50396514--50396553 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50396504 CCTACTCCCT
*
50396514 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAA
*
50396530 CCCAATTTAAATCCAA
1 CCCAATTTAAACCCAA
50396546 CCCAATTT
1 CCCAATTT
50396554 TCTCTTAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.35, G:0.03, T:0.25
Consensus pattern (16 bp):
CCCAATTTAAACCCAA
Found at i:50398009 original size:17 final size:17
Alignment explanation
Indices: 50397987--50398084 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
50397977 AATTCAAGAC
50397987 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
50398004 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
* *
50398023 CTTATGCAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
50398041 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
50398060 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
50398078 TTATGTA
1 TTATGTA
50398085 GTGATTTAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 23 0.41
18 9 0.16
19 8 0.14
20 16 0.29
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:50398066 original size:20 final size:18
Alignment explanation
Indices: 50398002--50398093 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 18
50397992 TAATGTTTTT
*
50398002 AATTATGTAGTGATTCAA
1 AATTATGTAGTGATTTAA
* * **
50398020 AGACTTATGCAAT-ATTTTT
1 A-A-TTATGTAGTGATTTAA
50398039 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
50398057 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
50398076 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
50398094 TTCAGGTAAT
Statistics
Matches: 53, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
17 19 0.36
18 8 0.15
19 7 0.13
20 19 0.36
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:50398091 original size:37 final size:37
Alignment explanation
Indices: 50397982--50398093 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
50397972 GTGTTAATTC
*
50397982 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
50398019 AAGACTTATGCAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
50398056 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
50398093 A
1 A
50398094 TTCAGGTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:50398105 original size:9 final size:9
Alignment explanation
Indices: 50398091--50398180 Score: 99
Period size: 9 Copynumber: 9.6 Consensus size: 9
50398081 TGTAGTGATT
*
50398091 TAATTCAGG
1 TAATTCGGG
50398100 TAATTCGGG
1 TAATTCGGG
*
50398109 TAATTTGGG
1 TAATTCGGG
50398118 TAATTTTCGGG
1 TAA--TTCGGG
*
50398129 TAATTCGAG
1 TAATTCGGG
50398138 TAATTTTCGGG
1 TAA--TTCGGG
50398149 TAATTCGGG
1 TAATTCGGG
* *
50398158 TAATTCAGA
1 TAATTCGGG
50398167 TAATTCGGG
1 TAATTCGGG
50398176 TAATT
1 TAATT
50398181 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
9 52 0.76
11 16 0.24
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.39
Consensus pattern (9 bp):
TAATTCGGG
Found at i:50398128 original size:20 final size:20
Alignment explanation
Indices: 50398091--50398182 Score: 111
Period size: 20 Copynumber: 4.8 Consensus size: 20
50398081 TGTAGTGATT
*
50398091 TAATTCAGGTAA--TTCGGG
1 TAATTCGGGTAATTTTCGGG
*
50398109 TAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
*
50398129 TAATTCGAGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
* *
50398149 TAATTCGGGTAA--TTCAGA
1 TAATTCGGGTAATTTTCGGG
50398167 TAATTCGGGTAATTTT
1 TAATTCGGGTAATTTT
50398183 TAACCAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
18 26 0.41
20 37 0.59
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (20 bp):
TAATTCGGGTAATTTTCGGG
Found at i:50398131 original size:29 final size:29
Alignment explanation
Indices: 50398098--50398182 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
50398088 ATTTAATTCA
50398098 GGTAATTCGGGTAATTTGGGTAATTTTCG
1 GGTAATTCGGGTAATTTGGGTAATTTTCG
*
50398127 GGTAATTCGAGTAATTTTCGGGTAA--TTCG
1 GGTAATTCGGGTAA-TTT-GGGTAATTTTCG
* * *
50398156 GGTAATTCAGATAATTCGGGTAATTTT
1 GGTAATTCGGGTAATTTGGGTAATTTT
50398183 TAACCAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 30 0.64
30 3 0.06
31 6 0.13
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTAATTCGGGTAATTTGGGTAATTTTCG
Found at i:50398299 original size:29 final size:29
Alignment explanation
Indices: 50398239--50398299 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
50398229 TTTATTAACC
** **
50398239 AAAAAAATTCGGTTCGGTTAATTATTTTA
1 AAAAAAATTCGGTTCGGTTAACGATTAAA
* *
50398268 AAAAAAATTCGGTTTGGTTAACGGTTAAA
1 AAAAAAATTCGGTTCGGTTAACGATTAAA
50398297 AAA
1 AAA
50398300 TTTGAGAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (29 bp):
AAAAAAATTCGGTTCGGTTAACGATTAAA
Found at i:50416293 original size:18 final size:19
Alignment explanation
Indices: 50416270--50416314 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
50416260 TTGTTACACC
50416270 AGCCCAAACAACAACCC-A
1 AGCCCAAACAACAACCCTA
** *
50416288 AGCCCAATTAATAACCCTA
1 AGCCCAAACAACAACCCTA
50416307 AGCCCAAA
1 AGCCCAAA
50416315 TTAACAGCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.47, C:0.38, G:0.07, T:0.09
Consensus pattern (19 bp):
AGCCCAAACAACAACCCTA
Found at i:50416311 original size:19 final size:19
Alignment explanation
Indices: 50416282--50416318 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
50416272 CCCAAACAAC
50416282 AACCCAAGCCC-AATTAAT
1 AACCCAAGCCCAAATTAAT
50416300 AACCCTAAGCCCAAATTAA
1 AACCC-AAGCCCAAATTAA
50416319 CAGCAGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.16
Consensus pattern (19 bp):
AACCCAAGCCCAAATTAAT
Found at i:50432161 original size:14 final size:14
Alignment explanation
Indices: 50432116--50432162 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
50432106 ATAAATATTT
*
50432116 AATATTAAAAAGTA
1 AATATTAAAAATTA
*
50432130 AATTAATAAAAATATA
1 AA-TATTAAAAAT-TA
50432146 AATATTAAAAATTA
1 AATATTAAAAATTA
50432160 AAT
1 AAT
50432163 TGATATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.25
15 17 0.61
16 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
AATATTAAAAATTA
Found at i:50435219 original size:38 final size:38
Alignment explanation
Indices: 50435177--50435295 Score: 111
Period size: 38 Copynumber: 3.1 Consensus size: 38
50435167 TAATATTTTA
50435177 TCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAG
1 TCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAG
* * * * * **
50435215 TCCAACTC-AGT-TTG-CAGAAAAATAGACTTAATATTTTA-
1 TCCAAGTCTAATCTGGACA-AAAAAT-G--TTAAAACTCAAG
50435253 TCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAG
1 TCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAG
50435291 TCCAA
1 TCCAA
50435296 CTCAGTTTGC
Statistics
Matches: 59, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
35 2 0.03
36 8 0.14
37 10 0.17
38 19 0.32
39 10 0.17
40 8 0.14
41 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (38 bp):
TCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAG
Found at i:50435237 original size:76 final size:76
Alignment explanation
Indices: 50435157--50435305 Score: 298
Period size: 76 Copynumber: 2.0 Consensus size: 76
50435147 TAGACTTAGT
50435157 AAAATAGACTTAATATTTTATCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAGTCCAACT
1 AAAATAGACTTAATATTTTATCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAGTCCAACT
50435222 CAGTTTGCAGA
66 CAGTTTGCAGA
50435233 AAAATAGACTTAATATTTTATCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAGTCCAACT
1 AAAATAGACTTAATATTTTATCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAGTCCAACT
50435298 CAGTTTGC
66 CAGTTTGC
50435306 CCATATTGGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (76 bp):
AAAATAGACTTAATATTTTATCCAAGTCTAATCTGGACAAAAAATGTTAAAACTCAAGTCCAACT
CAGTTTGCAGA
Found at i:50448411 original size:16 final size:18
Alignment explanation
Indices: 50448372--50448405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50448362 TAAGCTTATA
50448372 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
50448389 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
50448406 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:50448974 original size:276 final size:277
Alignment explanation
Indices: 50448471--50449023 Score: 1099
Period size: 276 Copynumber: 2.0 Consensus size: 277
50448461 TATAAACATT
50448471 AAAATAATATTAAGCTGACTATATAAAATCTTTTGATAAATAAAAAATATTAAATATTAAAATAA
1 AAAATAATATTAAGCTGACTATATAAAATCTTTTGATAAATAAAAAATATTAAATATTAAAATAA
50448536 ATATTTTAAAAAAAATAATATGGGCGAACTTAAAATTGGCTTGAGTTAGTTTTTTGTAAATATGA
66 ATATTTTAAAAAAAATAATATGGGCGAACTTAAAATTGGCTTGAGTTAGTTTTTTGTAAATATGA
50448601 GTAGGTTTGGGCCAAATTTTAGGCCCATATTTTAAGTTAGGCCAGGTTTGGATAAACATAAAATA
131 GTAGGTTTGGGCCAAATTTTAGGCCCATATTTTAAGTTAGGCCAGGTTTGGATAAACATAAAATA
50448666 TGTTAATATCATGTTTAGGCCCGACCCGACCCATGAACACCTCTAATTGATTTTAGGTGCCACAT
196 TGTTAATATCATGTTTAGGCCCGACCCGACCCATGAACACCTCTAATTGATTTTAGGTGCCACAT
50448731 TAAAATCTCGTAGAATC
261 TAAAATCTCGTAGAATC
50448748 AAAATAATA-TAAGCTGACTATATAAAATCTTTTGATAAATAAAAAATATTAAATATTAAAATAA
1 AAAATAATATTAAGCTGACTATATAAAATCTTTTGATAAATAAAAAATATTAAATATTAAAATAA
50448812 ATATTTTAAAAAAAATAATATGGGCGAACTTAAAATTGGCTTGAGTTAGTTTTTTGTAAATATGA
66 ATATTTTAAAAAAAATAATATGGGCGAACTTAAAATTGGCTTGAGTTAGTTTTTTGTAAATATGA
50448877 GTAGGTTTGGGCCAAATTTTAGGCCCATATTTTAAGTTAGGCCAGGTTTGGATAAACATAAAATA
131 GTAGGTTTGGGCCAAATTTTAGGCCCATATTTTAAGTTAGGCCAGGTTTGGATAAACATAAAATA
50448942 TGTTAATATCATGTTTAGGCCCGACCCGACCCATGAACACCTCTAATTGATTTTAGGTGCCACAT
196 TGTTAATATCATGTTTAGGCCCGACCCGACCCATGAACACCTCTAATTGATTTTAGGTGCCACAT
50449007 TAAAATCTCGTAGAATC
261 TAAAATCTCGTAGAATC
50449024 CCTTCCTTCC
Statistics
Matches: 276, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
276 267 0.97
277 9 0.03
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (277 bp):
AAAATAATATTAAGCTGACTATATAAAATCTTTTGATAAATAAAAAATATTAAATATTAAAATAA
ATATTTTAAAAAAAATAATATGGGCGAACTTAAAATTGGCTTGAGTTAGTTTTTTGTAAATATGA
GTAGGTTTGGGCCAAATTTTAGGCCCATATTTTAAGTTAGGCCAGGTTTGGATAAACATAAAATA
TGTTAATATCATGTTTAGGCCCGACCCGACCCATGAACACCTCTAATTGATTTTAGGTGCCACAT
TAAAATCTCGTAGAATC
Found at i:50457512 original size:20 final size:20
Alignment explanation
Indices: 50457468--50457505 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50457458 GTATTGTGTA
*
50457468 ATTACGCAATCACACAAAGC
1 ATTACCCAATCACACAAAGC
*
50457488 ATTACCCAATTACACAAA
1 ATTACCCAATCACACAAA
50457506 TTATTACAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.29, G:0.05, T:0.18
Consensus pattern (20 bp):
ATTACCCAATCACACAAAGC
Found at i:50457532 original size:67 final size:60
Alignment explanation
Indices: 50457410--50457594 Score: 230
Period size: 67 Copynumber: 3.0 Consensus size: 60
50457400 AAGCTTCTAC
* *
50457410 TACACAAAACAATTACCCAATTATACAAATTATTACAACTTTTGTAATGTATTGTGTAATTACGC
1 TACAC-AAAC-ATTACCCAATTACACAAATTATTACAACTTTTGTAATGTTTTGTGTAATT----
50457475 AA
60 -A
*
50457477 TCACACAAAGCATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGTGTAATTA
1 T-ACACAAA-CATTACCCAATTACACAAATTATTACAACTTTTGTAATGTTTTGTGTAATTA
* *
50457539 TACA-AAACATTAACCAATTACACAAATTATTACAGCTTTTGTAATGTTTTG-GTAAT
1 TACACAAACATTACCCAATTACACAAATTATTACAACTTTTGTAATGTTTTGTGTAAT
50457595 ATTGGAGCTG
Statistics
Matches: 110, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
58 5 0.05
59 41 0.37
60 3 0.03
61 3 0.03
62 2 0.02
67 51 0.46
68 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (60 bp):
TACACAAACATTACCCAATTACACAAATTATTACAACTTTTGTAATGTTTTGTGTAATTA
Found at i:50457556 original size:59 final size:58
Alignment explanation
Indices: 50457481--50457594 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 58
50457471 ACGCAATCAC
* *
50457481 ACAAAGCATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGTGTAATTAT
1 ACAAAACATTAACCAATTACACAAATTATTACAACTTTCGTAATGTTTTG-GTAATTAT
* *
50457540 ACAAAACATTAACCAATTACACAAATTATTACAGCTTTTGTAATGTTTTGGTAAT
1 ACAAAACATTAACCAATTACACAAATTATTACAACTTTCGTAATGTTTTGGTAAT
50457595 ATTGGAGCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 5 0.10
59 46 0.90
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (58 bp):
ACAAAACATTAACCAATTACACAAATTATTACAACTTTCGTAATGTTTTGGTAATTAT
Found at i:50460399 original size:85 final size:85
Alignment explanation
Indices: 50460256--50460429 Score: 285
Period size: 85 Copynumber: 2.0 Consensus size: 85
50460246 TCAAAAAGGT
* ** *
50460256 TATCTGCAATGCAGTAAGGTGACCTTGTTAATTGTGATTATTTTCATCCTTCACTTAAAAGGAAA
1 TATCTGCAAAGCAGTAAGGACACCTTGTTAATTGTGATTATTCTCATCCTTCACTTAAAAGGAAA
*
50460321 CCCTAGATTTTTTTCATGCC
66 CCCTAGATTTTTTTCATACC
* *
50460341 TATCTGCAAAGCAGTAAGGACACCTTGTTAATTGTGATTATTCTCGTCCTTCACTTAAAAGGAGA
1 TATCTGCAAAGCAGTAAGGACACCTTGTTAATTGTGATTATTCTCATCCTTCACTTAAAAGGAAA
50460406 CCCTAGATTTTTTTCATACC
66 CCCTAGATTTTTTTCATACC
50460426 TATC
1 TATC
50460430 CTTTTTCTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (85 bp):
TATCTGCAAAGCAGTAAGGACACCTTGTTAATTGTGATTATTCTCATCCTTCACTTAAAAGGAAA
CCCTAGATTTTTTTCATACC
Found at i:50464445 original size:7 final size:7
Alignment explanation
Indices: 50464423--50464458 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
50464413 TCCACGAATA
50464423 TTAAGATT
1 TTAA-ATT
50464431 TT-AATT
1 TTAAATT
50464437 TTAAATT
1 TTAAATT
50464444 TTAAATT
1 TTAAATT
50464451 TTAAATT
1 TTAAATT
50464458 T
1 T
50464459 CATCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 5 0.19
7 20 0.74
8 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (7 bp):
TTAAATT
Found at i:50466758 original size:3 final size:3
Alignment explanation
Indices: 50466750--50466789 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
50466740 ATTCTTTGAG
50466750 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
50466790 TACAATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:50473626 original size:123 final size:124
Alignment explanation
Indices: 50473396--50473642 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 124
50473386 CAAGTTAGAC
50473396 CATCTCTTCTCAATTCAACCAATTTGATTATCGGACCAACAATAATTAAATAAATAATTAAAAAT
1 CATCTCTTCTCAATTCAACCAATTTGATTATCGGACCAACAATAATTAAATAAATAATTAAAAAT
50473461 TCATAAAAATTTAAAAAGGCAAGTAAAAAAAGTTTTATTTTTTTTAGATTTTAATTCAT
66 TCATAAAAATTTAAAAAGGCAAGTAAAAAAAGTTTTATTTTTTTTAGATTTTAATTCAT
50473520 CATCTCTTCT-AATTCAACCAATTTGATTATCGGACCAACAATAATTAAATAAATAATTAAAAAT
1 CATCTCTTCTCAATTCAACCAATTTGATTATCGGACCAACAATAATTAAATAAATAATTAAAAAT
50473584 TCATAAAAATTTAAAAAGGCAAGTAAAAAAAGTTTTATTTTTTTTAGATTTTAATTCAT
66 TCATAAAAATTTAAAAAGGCAAGTAAAAAAAGTTTTATTTTTTTTAGATTTTAATTCAT
50473643 TTTTAATTAT
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 113 0.92
124 10 0.08
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (124 bp):
CATCTCTTCTCAATTCAACCAATTTGATTATCGGACCAACAATAATTAAATAAATAATTAAAAAT
TCATAAAAATTTAAAAAGGCAAGTAAAAAAAGTTTTATTTTTTTTAGATTTTAATTCAT
Found at i:50474789 original size:9 final size:9
Alignment explanation
Indices: 50474756--50474783 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50474746 TTTATCAAAT
50474756 TATTAATTG
1 TATTAATTG
50474765 TATTAATTG
1 TATTAATTG
50474774 TATTAATTG
1 TATTAATTG
50474783 T
1 T
50474784 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:50474793 original size:68 final size:68
Alignment explanation
Indices: 50474672--50475017 Score: 642
Period size: 68 Copynumber: 5.1 Consensus size: 68
50474662 AAACTAATTG
*
50474672 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
*
50474735 TGA
66 TAA
50474738 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
50474803 TAA
66 TAA
50474806 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
50474871 TAA
66 TAA
50474874 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
50474939 TAA
66 TAA
*
50474942 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
*
50475007 TGA
66 TAA
50475010 TTAGTAAA
1 TTAGTAAA
50475018 ACAAACTTGA
Statistics
Matches: 274, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
66 26 0.09
68 248 0.91
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TAA
Found at i:50474857 original size:9 final size:9
Alignment explanation
Indices: 50474824--50474851 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50474814 TTTATCAAAT
50474824 TATTAATTG
1 TATTAATTG
50474833 TATTAATTG
1 TATTAATTG
50474842 TATTAATTG
1 TATTAATTG
50474851 T
1 T
50474852 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:50474925 original size:9 final size:9
Alignment explanation
Indices: 50474892--50474919 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50474882 TTTATCAAAT
50474892 TATTAATTG
1 TATTAATTG
50474901 TATTAATTG
1 TATTAATTG
50474910 TATTAATTG
1 TATTAATTG
50474919 T
1 T
50474920 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:50474972 original size:9 final size:9
Alignment explanation
Indices: 50474960--50474987 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50474950 TTTATCAAAT
50474960 TATTAATTG
1 TATTAATTG
50474969 TATTAATTG
1 TATTAATTG
50474978 TATTAATTG
1 TATTAATTG
50474987 T
1 T
50474988 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:50475230 original size:31 final size:33
Alignment explanation
Indices: 50475195--50475265 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
50475185 ATTTTTAAAA
*
50475195 CGGGCCTAAAATTTTGCCC-AA-TCCCATATTT
1 CGGGCCTAAAATTTTACCCAAACTCCCATATTT
* *
50475226 CGGGCCTATATTTTTACCCAAACTCTCCCATATTT
1 CGGGCCTAAAATTTTACCCAAA--CTCCCATATTT
50475261 CGGGC
1 CGGGC
50475266 GGACCGTCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 16 0.48
32 2 0.06
35 15 0.45
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (33 bp):
CGGGCCTAAAATTTTACCCAAACTCCCATATTT
Found at i:50476359 original size:56 final size:56
Alignment explanation
Indices: 50476289--50476446 Score: 149
Period size: 56 Copynumber: 2.8 Consensus size: 56
50476279 TATATCCTAT
*
50476289 GAGAGTG-ATCCCTTAGGAGGGTGTGAGAGTTATACCTTTAGGAGTCATA-CTTCTAG
1 GAGAGTGAAT-CCTTAGGAGGGTGTGAGAGTTGTACCTTTAGGAGTCATACCTT-TAG
* * * * * * * **
50476345 GAGAGTGAATCCTTAAGAGGGTGTAAAAGCTGGACCTCTAAGAGTTGTACCTTTAG
1 GAGAGTGAATCCTTAGGAGGGTGTGAGAGTTGTACCTTTAGGAGTCATACCTTTAG
* * * *
50476401 GAGAGTAAACCCTTAGGATGGTGTGAGAGTTGTATCTTTTAGGAGT
1 GAGAGTGAATCCTTAGGAGGGTGTGAGAGTTGTA-CCTTTAGGAGT
50476447 TGTAGGGGAG
Statistics
Matches: 78, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
56 65 0.83
57 13 0.17
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (56 bp):
GAGAGTGAATCCTTAGGAGGGTGTGAGAGTTGTACCTTTAGGAGTCATACCTTTAG
Found at i:50484109 original size:6 final size:6
Alignment explanation
Indices: 50484098--50484132 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
50484088 GTGACTGCTC
50484098 CTGGAG CTGGAG CTGGAG CTGGAG CTGGAG CTGGA
1 CTGGAG CTGGAG CTGGAG CTGGAG CTGGAG CTGGA
50484133 CAGGAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (6 bp):
CTGGAG
Found at i:50511912 original size:12 final size:12
Alignment explanation
Indices: 50511895--50511951 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
50511885 AACAAAATGA
50511895 TAAAAGCATTGT
1 TAAAAGCATTGT
50511907 TAAAAG-ATTGT
1 TAAAAGCATTGT
*
50511918 T---TGCAATTGT
1 TAAAAGC-ATTGT
50511928 TAAAAGCATTGT
1 TAAAAGCATTGT
*
50511940 TGAAAG-ATTGT
1 TAAAAGCATTGT
50511951 T
1 T
50511952 TGCAATTGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
8 1 0.03
10 6 0.16
11 12 0.32
12 16 0.43
13 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (12 bp):
TAAAAGCATTGT
Found at i:50511937 original size:33 final size:33
Alignment explanation
Indices: 50511895--50511959 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
50511885 AACAAAATGA
50511895 TAAAAGCATTGTTAAAAGATTGTTTGCAATTGT
1 TAAAAGCATTGTTAAAAGATTGTTTGCAATTGT
*
50511928 TAAAAGCATTGTTGAAAGATTGTTTGCAATTG
1 TAAAAGCATTGTTAAAAGATTGTTTGCAATTG
50511960 GTTTTTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (33 bp):
TAAAAGCATTGTTAAAAGATTGTTTGCAATTGT
Found at i:50516607 original size:27 final size:26
Alignment explanation
Indices: 50516572--50516660 Score: 96
Period size: 25 Copynumber: 3.5 Consensus size: 26
50516562 AGAGTGACCT
50516572 TATTTTAAAAAAAATTCCATTTTTTTA
1 TATTTTAAAAAAAATT-CATTTTTTTA
*
50516599 TATTTTAAAAAAAATT-ATTTTTTAAA
1 TATTTTAAAAAAAATTCATTTTTT-TA
* *
50516625 TATTTT--TAAAAATTCATTTTTATA
1 TATTTTAAAAAAAATTCATTTTTTTA
*
50516649 -ACTTTAAAAAAA
1 TATTTTAAAAAAA
50516661 TTAAGAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 17 0.33
26 7 0.13
27 16 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTTTAAAAAAAATTCATTTTTTTA
Found at i:50516620 original size:26 final size:26
Alignment explanation
Indices: 50516572--50516660 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 26
50516562 AGAGTGACCT
**
50516572 TATTTTAAAAAAAATTCCATTTTTTTA
1 TATTTTAAAAAAAATT-CATTTTTAAA
50516599 TATTTTAAAAAAAATT-ATTTTTTAAA
1 TATTTTAAAAAAAATTCA-TTTTTAAA
* *
50516625 TATTTT--TAAAAATTCATTTTTATA
1 TATTTTAAAAAAAATTCATTTTTAAA
*
50516649 -ACTTTAAAAAAA
1 TATTTTAAAAAAA
50516661 TTAAGAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.08
24 14 0.27
25 6 0.12
26 12 0.23
27 16 0.31
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTTTAAAAAAAATTCATTTTTAAA
Found at i:50516661 original size:24 final size:23
Alignment explanation
Indices: 50516579--50516662 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 23
50516569 CCTTATTTTA
*
50516579 AAAAAAATTCCATTTTTTTATATTTT
1 AAAAAAATT-CA-TTTTTTA-AATTT
50516605 AAAAAAAATT-ATTTTTTAAATATTT
1 -AAAAAAATTCATTTTTT-AA-ATTT
** *
50516630 TTAAAAATTCATTTTTATAACTTT
1 AAAAAAATTCATTTTT-TAAATTT
50516654 AAAAAAATT
1 AAAAAAATT
50516663 AAGAGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
24 24 0.51
25 13 0.28
26 1 0.02
27 9 0.19
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAAAAATTCATTTTTTAAATTT
Found at i:50518959 original size:16 final size:16
Alignment explanation
Indices: 50518938--50518991 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
50518928 TTTGGTTTAC
50518938 TGTAATGGAATA-ATGT
1 TGTAATGGAATAGA-GT
*
50518954 TGTAATTGAATAGAGT
1 TGTAATGGAATAGAGT
50518970 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
50518986 TATAAT
1 TGTAAT
50518992 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 33 0.97
17 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:50537670 original size:26 final size:30
Alignment explanation
Indices: 50537641--50537702 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
50537631 ATTTATACAT
*
50537641 AAATTATA-TATA-A-TTAAATAA-AATTA
1 AAATTATAGTATACATTTAAACAATAATTA
50537667 AAATTATATGTATACATTTAAACAATAATTA
1 AAATTATA-GTATACATTTAAACAATAATTA
50537698 AAATT
1 AAATT
50537703 CCGTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.27
28 4 0.13
29 1 0.03
30 7 0.23
31 10 0.33
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (30 bp):
AAATTATAGTATACATTTAAACAATAATTA
Found at i:50547277 original size:21 final size:21
Alignment explanation
Indices: 50547238--50547279 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
50547228 TACTCATCTC
*
50547238 CTAATATATATCTATATAATA
1 CTAATATATATCTAAATAATA
50547259 CTAATATAT-TCTAAAATAATA
1 CTAATATATATCT-AAATAATA
50547280 ATCTTTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
CTAATATATATCTAAATAATA
Found at i:50551531 original size:45 final size:46
Alignment explanation
Indices: 50551462--50551555 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 46
50551452 TTTACCCTCA
* *
50551462 CCGAAATCGACCTGCAGCCTCTCCCTCTCCCTCCCTCCCGAAATCG
1 CCGAAATCGACCTCCACCCTCTCCCTCTCCCTCCCTCCCGAAATCG
*
50551508 CCGAAATC-ACCTCCACCCTCTCCCTCTCCCTCCCTCCTGAAATCG
1 CCGAAATCGACCTCCACCCTCTCCCTCTCCCTCCCTCCCGAAATCG
50551553 CCG
1 CCG
50551556 CTCCCGTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 37 0.82
46 8 0.18
ACGTcount: A:0.17, C:0.52, G:0.11, T:0.20
Consensus pattern (46 bp):
CCGAAATCGACCTCCACCCTCTCCCTCTCCCTCCCTCCCGAAATCG
Found at i:50551697 original size:13 final size:13
Alignment explanation
Indices: 50551679--50551704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50551669 TTTTATTTGT
50551679 TTATTCCCACCGG
1 TTATTCCCACCGG
50551692 TTATTCCCACCGG
1 TTATTCCCACCGG
50551705 CTGAATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:50553275 original size:25 final size:25
Alignment explanation
Indices: 50553241--50553301 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
50553231 GCTGAAACTC
50553241 TAGTTGCAATTTAAGAGGTATTTTA
1 TAGTTGCAATTTAAGAGGTATTTTA
*
50553266 TAGTTGCAATTTAAGAGGTTTTTTA
1 TAGTTGCAATTTAAGAGGTATTTTA
50553291 TAGTTGCAATT
1 TAGTTGCAATT
50553302 CCAATAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (25 bp):
TAGTTGCAATTTAAGAGGTATTTTA
Found at i:50553731 original size:29 final size:29
Alignment explanation
Indices: 50553693--50553809 Score: 120
Period size: 29 Copynumber: 4.1 Consensus size: 29
50553683 GGACTATATA
50553693 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
50553722 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
* * * **
50553751 GAAAT-TAAAAT-ATTAAAATTTAT-ATAAAT
1 --AATCGATAATGATTGAAATACATCA-AAAT
50553780 -A--GATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
50553806 AATC
1 AATC
50553810 TAAAAATATT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
25 4 0.06
26 14 0.20
27 2 0.03
28 1 0.01
29 42 0.60
30 4 0.06
31 3 0.04
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.30
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:50554853 original size:52 final size:52
Alignment explanation
Indices: 50554775--50554878 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
50554765 AGTCGTCAAG
50554775 GCACATGCTTGTTGATGAGCAAGTTGCAATGTTTTTACATATCATTTCCCAT
1 GCACATGCTTGTTGATGAGCAAGTTGCAATGTTTTTACATATCATTTCCCAT
50554827 GCACATGCTTGTTGATGAGCAAGTTGCAATGTTTTTACATATCATTTCCCAT
1 GCACATGCTTGTTGATGAGCAAGTTGCAATGTTTTTACATATCATTTCCCAT
50554879 CACCTTAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (52 bp):
GCACATGCTTGTTGATGAGCAAGTTGCAATGTTTTTACATATCATTTCCCAT
Found at i:50556129 original size:49 final size:49
Alignment explanation
Indices: 50556072--50556175 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
50556062 TCATGTGTTA
* * ** * *
50556072 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
50556121 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
50556170 TAATTT
1 TAATTT
50556176 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:50557710 original size:15 final size:15
Alignment explanation
Indices: 50557685--50557720 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
50557675 CTTTAAAAAA
50557685 ATTCT-GCTAAGGGT
1 ATTCTAGCTAAGGGT
50557699 ATTCTAGCTAAGGGT
1 ATTCTAGCTAAGGGT
50557714 ATTCTAG
1 ATTCTAG
50557721 TCATTTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (15 bp):
ATTCTAGCTAAGGGT
Found at i:50557824 original size:44 final size:46
Alignment explanation
Indices: 50557757--50557851 Score: 158
Period size: 44 Copynumber: 2.1 Consensus size: 46
50557747 TTACACCTCT
*
50557757 ATTACATTCAACCAAACACAAGAA-TAC-CATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
*
50557801 ATTACATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
50557847 ATTAC
1 ATTAC
50557852 GCATCTATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.49
45 3 0.06
46 21 0.45
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTACATTCAACCAAACAAAAGAATTACTCATTACGCCTCTATTCC
Found at i:50557852 original size:16 final size:16
Alignment explanation
Indices: 50557831--50557898 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
50557821 AGAATTACTT
50557831 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
50557847 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
50557863 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
50557879 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
50557895 ATTA
1 ATTA
50557899 AAGCGAACCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:50558432 original size:16 final size:16
Alignment explanation
Indices: 50558411--50558446 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50558401 TTTGGTTCGC
50558411 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50558427 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50558443 TGTA
1 TGTA
50558447 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50559060 original size:16 final size:16
Alignment explanation
Indices: 50559039--50559071 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50559029 TTCGCTGTAT
50559039 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
50559055 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
50559071 T
1 T
50559072 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:50559115 original size:45 final size:44
Alignment explanation
Indices: 50559051--50559140 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
50559041 GAATAGAGGC
50559051 GTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* *
50559096 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
50559140 G
1 G
50559141 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:50559359 original size:16 final size:15
Alignment explanation
Indices: 50559334--50559380 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
50559324 TATAATTTAA
50559334 TAAAATTCTTAACAT
1 TAAAATTCTTAACAT
*
50559349 TAAATATTCTT-ATA-
1 TAAA-ATTCTTAACAT
50559363 T-AAATTCTTAACAT
1 TAAAATTCTTAACAT
50559377 TAAA
1 TAAA
50559381 TATAATTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTCTTAACAT
Found at i:50559380 original size:14 final size:14
Alignment explanation
Indices: 50559336--50559381 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
50559326 TAATTTAATA
50559336 AAATTCTTAACATT
1 AAATTCTTAACATT
*
50559350 AAATATTCTT-ATA-T
1 -AA-ATTCTTAACATT
50559364 AAATTCTTAACATT
1 AAATTCTTAACATT
50559378 AAAT
1 AAAT
50559382 ATAATTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 6 0.23
15 4 0.15
16 6 0.23
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTCTTAACATT
Found at i:50562624 original size:3 final size:3
Alignment explanation
Indices: 50562618--50562648 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
50562608 TTGTTATTTG
*
50562618 CAT CAT CAT CAT CAT CAT CAT CAT TAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
50562649 TTAATACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:50562771 original size:3 final size:3
Alignment explanation
Indices: 50562751--50562790 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
50562741 TCTCCTGTCT
* * *
50562751 CCA CCG CCA CCT CCA CCA CCA CCA CCA CCA TCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
50562791 GAGCCGCCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.28, C:0.65, G:0.03, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:50579628 original size:2 final size:2
Alignment explanation
Indices: 50579621--50579649 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50579611 AATTATCTCT
50579621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50579650 GATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50579656 original size:3 final size:3
Alignment explanation
Indices: 50579648--50579679 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
50579638 ATATATATAT
*
50579648 ATG ATG ATG ATG ATG ATG ATG CTG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
50579680 TATTTCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:50597345 original size:25 final size:25
Alignment explanation
Indices: 50597317--50597364 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50597307 ATACCAACTG
50597317 GGTCAATGAAAATTTTAAATTAATC
1 GGTCAATGAAAATTTTAAATTAATC
*
50597342 GGTCGATGAAAATTTTAAATTAA
1 GGTCAATGAAAATTTTAAATTAA
50597365 CTTTACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (25 bp):
GGTCAATGAAAATTTTAAATTAATC
Found at i:50598128 original size:16 final size:16
Alignment explanation
Indices: 50598107--50598174 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
50598097 TTTGGTTCGC
50598107 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
50598123 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
50598139 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50598155 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50598171 TGTA
1 TGTA
50598175 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50598396 original size:28 final size:26
Alignment explanation
Indices: 50598365--50598417 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
50598355 TTATTAATAT
*
50598365 AAATAATAAATAATTTAATCATATTTTG
1 AAATAATAAAT-ATTAAAT-ATATTTTG
*
50598393 AAATAATTAATATTAAATATATTTT
1 AAATAATAAATATTAAATATATTTT
50598418 AATTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 6 0.26
28 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AAATAATAAATATTAAATATATTTTG
Found at i:50598397 original size:25 final size:26
Alignment explanation
Indices: 50598369--50598417 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
50598359 TAATATAAAT
50598369 AATAAATAAT-TT-AATCATATTTTGA
1 AATAAATAATATTAAAT-ATATTTTGA
*
50598394 AATAATTAATATTAAATATATTTT
1 AATAAATAATATTAAATATATTTT
50598418 AATTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 9 0.43
27 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAAATAATATTAAATATATTTTGA
Found at i:50599220 original size:13 final size:13
Alignment explanation
Indices: 50599202--50599231 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50599192 CAATCAGCTA
50599202 AATTCAGAAAAAC
1 AATTCAGAAAAAC
50599215 AATTCAGAAAAAC
1 AATTCAGAAAAAC
50599228 AATT
1 AATT
50599232 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:50605679 original size:14 final size:14
Alignment explanation
Indices: 50605662--50605688 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50605652 TCTTCTCACA
50605662 TTTCTTTTCTCCAT
1 TTTCTTTTCTCCAT
50605676 TTTCTTTTCTCCA
1 TTTCTTTTCTCCA
50605689 GATTTCTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTCTTTTCTCCAT
Found at i:50605790 original size:6 final size:6
Alignment explanation
Indices: 50605752--50605776 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50605742 CTGTAAAATC
50605752 GATTTT GATTTT GATTTT GATTTT G
1 GATTTT GATTTT GATTTT GATTTT G
50605777 TTATGCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (6 bp):
GATTTT
Found at i:50609623 original size:28 final size:30
Alignment explanation
Indices: 50609563--50609625 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
50609553 TATTTTTACT
* *
50609563 ATTAAATAGATTAATTTAATTTTTATATTA
1 ATTAAATAGATTAATTTAATATTTAAATTA
50609593 ATTAAATA-A-TAATTTAA-ATTTAAATTGA
1 ATTAAATAGATTAATTTAATATTTAAATT-A
50609621 ATTAA
1 ATTAA
50609626 CATTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 1 0.03
30 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTAAATAGATTAATTTAATATTTAAATTA
Found at i:50610555 original size:17 final size:17
Alignment explanation
Indices: 50610517--50610549 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50610507 ATAATAAATG
*
50610517 ATAATTTTTAATAAAAA
1 ATAACTTTTAATAAAAA
50610534 ATAACTTTT-ATAAAAA
1 ATAACTTTTAATAAAAA
50610550 TTTAACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAACTTTTAATAAAAA
Found at i:50632771 original size:11 final size:11
Alignment explanation
Indices: 50632757--50632783 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50632747 TAAAATTTAA
50632757 AAAAAAATCAT
1 AAAAAAATCAT
50632768 AAAAAAATCAT
1 AAAAAAATCAT
50632779 AAAAA
1 AAAAA
50632784 TTATAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:50633909 original size:11 final size:11
Alignment explanation
Indices: 50633895--50633921 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50633885 TAAAATTTAA
50633895 AAAAAAATCAT
1 AAAAAAATCAT
50633906 AAAAAAATCAT
1 AAAAAAATCAT
50633917 AAAAA
1 AAAAA
50633922 TTATAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATCAT
Found at i:50634625 original size:96 final size:96
Alignment explanation
Indices: 50634113--50634616 Score: 1008
Period size: 96 Copynumber: 5.2 Consensus size: 96
50634103 TTTTAGTACG
50634113 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
1 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
50634178 TTATAATTTTTTCTATATTTCTATATATATT
66 TTATAATTTTTTCTATATTTCTATATATATT
50634209 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
1 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
50634274 TTATAATTTTTTCTATATTTCTATATATATT
66 TTATAATTTTTTCTATATTTCTATATATATT
50634305 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
1 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
50634370 TTATAATTTTTTCTATATTTCTATATATATT
66 TTATAATTTTTTCTATATTTCTATATATATT
50634401 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
1 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
50634466 TTATAATTTTTTCTATATTTCTATATATATT
66 TTATAATTTTTTCTATATTTCTATATATATT
50634497 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
1 ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
50634562 TTATAATTTTTTCTATATTTCTATATATATT
66 TTATAATTTTTTCTATATTTCTATATATATT
50634593 ATAATTTTTTTTACGAATTTTATA
1 ATAATTTTTTTTACGAATTTTATA
50634617 AAATTTTACA
Statistics
Matches: 408, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 408 1.00
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (96 bp):
ATAATTTTTTTTACGAATTTTATATTTCTTTACCTTTTTATAATTTTTTATGACGTTATAAAATT
TTATAATTTTTTCTATATTTCTATATATATT
Found at i:50634695 original size:53 final size:51
Alignment explanation
Indices: 50634594--50634691 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 51
50634584 ATATATATTA
50634594 TAATTTTTTTTACGAATTTTATAAAATTTTACAATTTTTTAATAAATTTGG
1 TAATTTTTTTTACGAATTTTATAAAATTTTACAATTTTTTAATAAATTTGG
* *
50634645 TAATTTTTTCTT-CTAACTTTTAATAAAA-TTTA-AATATTTTTATTAAA
1 TAATTTTTT-TTACGAA-TTTT-ATAAAATTTTACAAT-TTTTTAATAAA
50634692 ATTTAATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
51 15 0.37
52 20 0.49
53 6 0.15
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (51 bp):
TAATTTTTTTTACGAATTTTATAAAATTTTACAATTTTTTAATAAATTTGG
Found at i:50639319 original size:16 final size:16
Alignment explanation
Indices: 50639298--50639330 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50639288 TTGCCTTTTA
50639298 TTTGTATGCTTGTGGG
1 TTTGTATGCTTGTGGG
50639314 TTTGTATGCTTGTGGG
1 TTTGTATGCTTGTGGG
50639330 T
1 T
50639331 GTGTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.36, T:0.52
Consensus pattern (16 bp):
TTTGTATGCTTGTGGG
Found at i:50660356 original size:185 final size:185
Alignment explanation
Indices: 50660044--50660404 Score: 542
Period size: 185 Copynumber: 2.0 Consensus size: 185
50660034 CATACATCAG
* * * *
50660044 TAAAAAAATTGATGATGATGATACTAAAGAATAAATGATCATGTTTGCATGCATTTACAGCAACA
1 TAAAAAAACTAATGATGATAATAATAAAGAATAAATGATCATGTTTGCATGCATTTACAGCAACA
* * * * *
50660109 AAGATGAGACAGCAAGTGTCTATTTTGGTGAATATCGTTGAAACGACAGAGGTAACAACGAGAGC
66 AAGAAGAGACAGCAAGTGTCTATATTGGTGAATATCGTTGAAACAACAAAGGCAACAACGAGAGC
50660174 TTATCAAATATATGCATGCAATGGCCTTGAATCATTAGAATGTTATAAATGCCAT
131 TTATCAAATATATGCATGCAATGGCCTTGAATCATTAGAATGTTATAAATGCCAT
* * * **
50660229 TAAAAAAACTAATGATGATAATAATAATGAATGAATGATCATGTTTGCATGCATTTACAGCTATG
1 TAAAAAAACTAATGATGATAATAATAAAGAATAAATGATCATGTTTGCATGCATTTACAGCAACA
* * * *
50660294 AAGAAGAGCCAGTAAGTGTCTATATTGGTGAATATTGTTGGAACAACAAAGGCAACAACGAGAGC
66 AAGAAGAGACAGCAAGTGTCTATATTGGTGAATATCGTTGAAACAACAAAGGCAACAACGAGAGC
* *
50660359 TTATCACATATATGCATGCAGTGGCCTTGAATCATTAGAATGTTAT
131 TTATCAAATATATGCATGCAATGGCCTTGAATCATTAGAATGTTAT
50660405 GATCATTAGT
Statistics
Matches: 156, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
185 156 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (185 bp):
TAAAAAAACTAATGATGATAATAATAAAGAATAAATGATCATGTTTGCATGCATTTACAGCAACA
AAGAAGAGACAGCAAGTGTCTATATTGGTGAATATCGTTGAAACAACAAAGGCAACAACGAGAGC
TTATCAAATATATGCATGCAATGGCCTTGAATCATTAGAATGTTATAAATGCCAT
Found at i:50661069 original size:124 final size:125
Alignment explanation
Indices: 50660837--50661086 Score: 412
Period size: 124 Copynumber: 2.0 Consensus size: 125
50660827 AAAACCATAA
*
50660837 AACATACTTTTAATTAAGCTAAAATTTTACTAAATTCCAATGGCCACCTTAGGTTCAGCCCACTA
1 AACATACTTTTAATTAAGCTAAAATTTTACTAAATTCCAATAGCCACCTTAGGTTCAGCCCACTA
* *
50660902 CGTAAACTCATACATTTTGTCCAAGGGTTAAACCCAAAACCTAATGTGTGATGATTATAG
66 CGTAAACTCATACACTTGGTCCAAGGGTTAAACCCAAAACCTAATGTGTGATGATTATAG
* * *
50660962 AACATACTTTTAATTAAGCTAAACTTTTAGTAAATTCCAATAGTCACCTTA-GTTCAGCCCACTA
1 AACATACTTTTAATTAAGCTAAAATTTTACTAAATTCCAATAGCCACCTTAGGTTCAGCCCACTA
* * *
50661026 TGTAAACTCATACACTTGGTCCAAGGGTTAAACCCAAAGCCTAATGTTTGATGATTATAG
66 CGTAAACTCATACACTTGGTCCAAGGGTTAAACCCAAAACCTAATGTGTGATGATTATAG
50661086 A
1 A
50661087 TAATTTCAGA
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 69 0.59
125 47 0.41
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (125 bp):
AACATACTTTTAATTAAGCTAAAATTTTACTAAATTCCAATAGCCACCTTAGGTTCAGCCCACTA
CGTAAACTCATACACTTGGTCCAAGGGTTAAACCCAAAACCTAATGTGTGATGATTATAG
Found at i:50667956 original size:30 final size:30
Alignment explanation
Indices: 50667922--50667993 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
50667912 GTTTAATAAT
* * *
50667922 AATTTTCAAAAATTTGAGGGGCCTAATTAA
1 AATTTTCAAAAATTTGAAGGGCATAACTAA
* *
50667952 AA-TTTCAGAAAATTTTAAGGGTATAACTAA
1 AATTTTCA-AAAATTTGAAGGGCATAACTAA
50667982 AATTTTCAAAAA
1 AATTTTCAAAAA
50667994 CTTGGGGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 5 0.14
30 25 0.71
31 5 0.14
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (30 bp):
AATTTTCAAAAATTTGAAGGGCATAACTAA
Found at i:50670739 original size:63 final size:64
Alignment explanation
Indices: 50670640--50670772 Score: 225
Period size: 63 Copynumber: 2.1 Consensus size: 64
50670630 ATAATAAAAT
* *
50670640 AAATAATACATTAAATTAAAAAACAACTCTTAATTTAAAGAAAATAAAT-GTACTTATCTAAGAA
1 AAATTATACATTAAATTAAAAAACAACTCTTAATTTAAAGAAAAT-AATCGTAATTATCTAAGAA
50670704 AAATTATACATTAAATTAAAAAA-AACTCTTAATTTAAAGAAAATAATCGTAATTATCTAAGAA
1 AAATTATACATTAAATTAAAAAACAACTCTTAATTTAAAGAAAATAATCGTAATTATCTAAGAA
50670767 AAATTA
1 AAATTA
50670773 ACTCTTAATT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
62 3 0.05
63 41 0.62
64 22 0.33
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (64 bp):
AAATTATACATTAAATTAAAAAACAACTCTTAATTTAAAGAAAATAATCGTAATTATCTAAGAA
Found at i:50677817 original size:95 final size:94
Alignment explanation
Indices: 50677654--50677853 Score: 348
Period size: 95 Copynumber: 2.1 Consensus size: 94
50677644 CATAAGTTAT
*
50677654 TTTTGATAAAATTTGTCGACTTTAAATTTTGATTAGATTATTCTCATATGATATGACATATGATT
1 TTTTGATAAAATTTGTCAACTTTAAATTTTGATTAGATTATTCTCATATGATATGACATATGATT
50677719 AATAAAAAATAAATATGATAAATTAATAAA
66 AAT-AAAAATAAATATGATAAATTAATAAA
50677749 TTTTGATAAAATTTGTCAACTTTAAATTTTGATTAGATTACTT-TCATATGATATGACATATGAT
1 TTTTGATAAAATTTGTCAACTTTAAATTTTGATTAGATTA-TTCTCATATGATATGACATATGAT
*
50677813 TAATAAAAATAAATATGATAAGTTAATAAA
65 TAATAAAAATAAATATGATAAATTAATAAA
*
50677843 TTTTAATAAAA
1 TTTTGATAAAA
50677854 ACTACCAATA
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
94 35 0.35
95 64 0.63
96 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (94 bp):
TTTTGATAAAATTTGTCAACTTTAAATTTTGATTAGATTATTCTCATATGATATGACATATGATT
AATAAAAATAAATATGATAAATTAATAAA
Found at i:50682071 original size:20 final size:20
Alignment explanation
Indices: 50682046--50682088 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
50682036 ATATATAACC
50682046 TTAAAAA-ACATAAAAAATTA
1 TTAAAAATA-ATAAAAAATTA
*
50682066 TTAAAAATAATATAAAATTA
1 TTAAAAATAATAAAAAATTA
50682086 TTA
1 TTA
50682089 GTAATAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAAAAATAATAAAAAATTA
Found at i:50685878 original size:230 final size:230
Alignment explanation
Indices: 50685475--50685930 Score: 885
Period size: 230 Copynumber: 2.0 Consensus size: 230
50685465 GTATTGTACA
*
50685475 TAGTTGTGACAAAATTCAGCTCACACTGTTCACTTAATTAATTATGAAGGAACTTAACTGCACAA
1 TAGTTGTGACAAAATTCAGCTCACACTGTTCACTTAATTAATTAAGAAGGAACTTAACTGCACAA
50685540 TCTGTCAGCAAATGTTTCTGTATTCAGGATAGTTCATACAATAAATATCCAAAAGTGGGCAATCA
66 TCTGTCAGCAAATGTTTCTGTATTCAGGATAGTTCATACAATAAATATCCAAAAGTGGGCAATCA
50685605 TTGGTCTGCTAATAAACTCTATGCTACTTAAGTTGGATTGAACTTAATTAACCATTATATATGCC
131 TTGGTCTGCTAATAAACTCTATGCTACTTAAGTTGGATTGAACTTAATTAACCATTATATATGCC
50685670 CTTAGACTGAATACAAGTGGACATAGCCACTTAAT
196 CTTAGACTGAATACAAGTGGACATAGCCACTTAAT
*
50685705 TAGTTGTGACAAAATTCAGCTCACACTGTTCACTTAATTAATTAAGTAGGAACTTAACTGCACAA
1 TAGTTGTGACAAAATTCAGCTCACACTGTTCACTTAATTAATTAAGAAGGAACTTAACTGCACAA
*
50685770 TTTGTCAGCAAATGTTTCTGTATTCAGGATAGTTCATACAATAAATATCCAAAAGTGGGCAATCA
66 TCTGTCAGCAAATGTTTCTGTATTCAGGATAGTTCATACAATAAATATCCAAAAGTGGGCAATCA
50685835 TTGGTCTGCTAATAAACTCTATGCTACTTAAGTTGGATTGAACTTAATTAACCATTATATATGCC
131 TTGGTCTGCTAATAAACTCTATGCTACTTAAGTTGGATTGAACTTAATTAACCATTATATATGCC
50685900 CTTAGACTGAATACAAGTGGACATAGCCACT
196 CTTAGACTGAATACAAGTGGACATAGCCACT
50685931 CAGGTTCGCG
Statistics
Matches: 223, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 223 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (230 bp):
TAGTTGTGACAAAATTCAGCTCACACTGTTCACTTAATTAATTAAGAAGGAACTTAACTGCACAA
TCTGTCAGCAAATGTTTCTGTATTCAGGATAGTTCATACAATAAATATCCAAAAGTGGGCAATCA
TTGGTCTGCTAATAAACTCTATGCTACTTAAGTTGGATTGAACTTAATTAACCATTATATATGCC
CTTAGACTGAATACAAGTGGACATAGCCACTTAAT
Found at i:50698313 original size:82 final size:82
Alignment explanation
Indices: 50698176--50698340 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
50698166 AATCCTGAGG
50698176 AGTGCTGCTGAATTGAACTATCAAAAATTACAAAGGGAACCAGTAGTTAGAGGAGAACATTCTCT
1 AGTGCTGCTGAATTGAACTATCAAAAATTACAAAGGGAACCAGTAGTTAGAGGAGAACATTCTCT
50698241 TGAGCTTATTTTTACTT
66 TGAGCTTATTTTTACTT
50698258 AGTGCTGCTGAATTGAACTATCAAAAATTACAAAGGGAACCAGTAGTTAGAGGAGAACATTCTCT
1 AGTGCTGCTGAATTGAACTATCAAAAATTACAAAGGGAACCAGTAGTTAGAGGAGAACATTCTCT
50698323 TGAGCTTATTTTTACTT
66 TGAGCTTATTTTTACTT
50698340 A
1 A
50698341 CATAAAGAAG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (82 bp):
AGTGCTGCTGAATTGAACTATCAAAAATTACAAAGGGAACCAGTAGTTAGAGGAGAACATTCTCT
TGAGCTTATTTTTACTT
Found at i:50702742 original size:35 final size:35
Alignment explanation
Indices: 50702695--50702773 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
50702685 AAATCATGAA
* * *
50702695 AAAAATTGATGGGCAGGGTAATCATAATGCAA-CAT
1 AAAAATTAATGGGCAGGATAATCATAAAG-AACCAT
50702730 AAAAATTAATGGGCAGGATAATCATAAAGAACCAT
1 AAAAATTAATGGGCAGGATAATCATAAAGAACCAT
50702765 AAAAATTAA
1 AAAAATTAA
50702774 GTATAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 2 0.05
35 38 0.95
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.22
Consensus pattern (35 bp):
AAAAATTAATGGGCAGGATAATCATAAAGAACCAT
Found at i:50704071 original size:27 final size:27
Alignment explanation
Indices: 50704037--50704091 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
50704027 GGCATCATGG
50704037 ATCAAGTAATGTTGTGTTCCATGTATC
1 ATCAAGTAATGTTGTGTTCCATGTATC
*
50704064 ATCAAGTAATGTTTTGTTCCATGTATC
1 ATCAAGTAATGTTGTGTTCCATGTATC
50704091 A
1 A
50704092 ATTTCATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
ATCAAGTAATGTTGTGTTCCATGTATC
Found at i:50704447 original size:14 final size:14
Alignment explanation
Indices: 50704428--50704456 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50704418 CCCAATAAAA
50704428 ACTACCGCAAAAGC
1 ACTACCGCAAAAGC
50704442 ACTACCGCAAAAGC
1 ACTACCGCAAAAGC
50704456 A
1 A
50704457 AATACTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.34, G:0.14, T:0.07
Consensus pattern (14 bp):
ACTACCGCAAAAGC
Found at i:50706097 original size:430 final size:430
Alignment explanation
Indices: 50705297--50706158 Score: 1724
Period size: 430 Copynumber: 2.0 Consensus size: 430
50705287 TTTTCAATAT
50705297 GTTTTAACCCCCTAAATCCTAATTGCCTCTCATAATCACCATATTTTGAAGTTGGAAAAACTTGT
1 GTTTTAACCCCCTAAATCCTAATTGCCTCTCATAATCACCATATTTTGAAGTTGGAAAAACTTGT
50705362 GTTGAGAAATGTGTCTCTTTTAGTAGACTTCCTATAAATTCAAATGCCTCAACTAAATAGTAGAC
66 GTTGAGAAATGTGTCTCTTTTAGTAGACTTCCTATAAATTCAAATGCCTCAACTAAATAGTAGAC
50705427 TTCTCCAAATGAAATATATTCTAGAATAGCCCTGAAGTTTACTATAGCCTAATATCACTATTTTG
131 TTCTCCAAATGAAATATATTCTAGAATAGCCCTGAAGTTTACTATAGCCTAATATCACTATTTTG
50705492 ACAAATGAAACTGTAAAAAAGTACAACAGAAATAAATATAAACAATGCACCTTCATTACTATTTC
196 ACAAATGAAACTGTAAAAAAGTACAACAGAAATAAATATAAACAATGCACCTTCATTACTATTTC
50705557 AGATATGTCATGCCACTTATAAACTTGACATTAAACCAATTAACCTTTCAACAAGTGAAATAAGA
261 AGATATGTCATGCCACTTATAAACTTGACATTAAACCAATTAACCTTTCAACAAGTGAAATAAGA
50705622 ATTAAGATTGTGTATATTGTCCTTAACACTTTAATTTAAGTAAACTGGCTTCTCAAAAAAATAAA
326 ATTAAGATTGTGTATATTGTCCTTAACACTTTAATTTAAGTAAACTGGCTTCTCAAAAAAATAAA
50705687 ATAAATCCTACTTACCCCATGTCATCATATCCCATAACCA
391 ATAAATCCTACTTACCCCATGTCATCATATCCCATAACCA
50705727 GTTTTAACCCCCTAAATCCTAATTGCCTCTCATAATCACCATATTTTGAAGTTGGAAAAACTTGT
1 GTTTTAACCCCCTAAATCCTAATTGCCTCTCATAATCACCATATTTTGAAGTTGGAAAAACTTGT
50705792 GTTGAGAAATGTGTCTCTTTTAGTAGACTTCCTATAAATTCAAATGCCTCAACTAAATAGTAGAC
66 GTTGAGAAATGTGTCTCTTTTAGTAGACTTCCTATAAATTCAAATGCCTCAACTAAATAGTAGAC
50705857 TTCTCCAAATGAAATATATTCTAGAATAGCCCTGAAGTTTACTATAGCCTAATATCACTATTTTG
131 TTCTCCAAATGAAATATATTCTAGAATAGCCCTGAAGTTTACTATAGCCTAATATCACTATTTTG
50705922 ACAAATGAAACTGTAAAAAAGTACAACAGAAATAAATATAAACAATGCACCTTCATTACTATTTC
196 ACAAATGAAACTGTAAAAAAGTACAACAGAAATAAATATAAACAATGCACCTTCATTACTATTTC
50705987 AGATATGTCATGCCACTTATAAACTTGACATTAAACCAATTAACCTTTCAACAAGTGAAATAAGA
261 AGATATGTCATGCCACTTATAAACTTGACATTAAACCAATTAACCTTTCAACAAGTGAAATAAGA
50706052 ATTAAGATTGTGTATATTGTCCTTAACACTTTAATTTAAGTAAACTGGCTTCTCAAAAAAATAAA
326 ATTAAGATTGTGTATATTGTCCTTAACACTTTAATTTAAGTAAACTGGCTTCTCAAAAAAATAAA
50706117 ATAAATCCTACTTACCCCATGTCATCATATCCCATAACCA
391 ATAAATCCTACTTACCCCATGTCATCATATCCCATAACCA
50706157 GT
1 GT
50706159 GCTTCACCCT
Statistics
Matches: 432, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
430 432 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (430 bp):
GTTTTAACCCCCTAAATCCTAATTGCCTCTCATAATCACCATATTTTGAAGTTGGAAAAACTTGT
GTTGAGAAATGTGTCTCTTTTAGTAGACTTCCTATAAATTCAAATGCCTCAACTAAATAGTAGAC
TTCTCCAAATGAAATATATTCTAGAATAGCCCTGAAGTTTACTATAGCCTAATATCACTATTTTG
ACAAATGAAACTGTAAAAAAGTACAACAGAAATAAATATAAACAATGCACCTTCATTACTATTTC
AGATATGTCATGCCACTTATAAACTTGACATTAAACCAATTAACCTTTCAACAAGTGAAATAAGA
ATTAAGATTGTGTATATTGTCCTTAACACTTTAATTTAAGTAAACTGGCTTCTCAAAAAAATAAA
ATAAATCCTACTTACCCCATGTCATCATATCCCATAACCA
Found at i:50711129 original size:22 final size:22
Alignment explanation
Indices: 50711085--50711129 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50711075 CAAAAAACAA
* *
50711085 ATCCCTACAAATCAGTTCTATG
1 ATCCCTACAAATCAGCTCCATG
50711107 ATCCCTACAAATCAGCTCCATG
1 ATCCCTACAAATCAGCTCCATG
50711129 A
1 A
50711130 ATCAGCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.09, T:0.27
Consensus pattern (22 bp):
ATCCCTACAAATCAGCTCCATG
Found at i:50714679 original size:22 final size:22
Alignment explanation
Indices: 50714637--50714680 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
50714627 AAGCCATAAT
*
50714637 AATTTTTATATTCATTTTTTATA
1 AATTTTTATATT-ATTCTTTATA
50714660 AATTTATTATATT-TTCTTTAT
1 AATTT-TTATATTATTCTTTAT
50714681 TCATCTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 5 0.26
24 7 0.37
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
AATTTTTATATTATTCTTTATA
Found at i:50725329 original size:2 final size:2
Alignment explanation
Indices: 50725322--50725400 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
50725312 CCTTAGGGTT
50725322 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
50725364 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
50725401 ATTATATATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:50731999 original size:43 final size:43
Alignment explanation
Indices: 50731938--50732083 Score: 240
Period size: 43 Copynumber: 3.4 Consensus size: 43
50731928 TTTCTGATAA
* *
50731938 GTGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
*
50731981 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
* *
50732024 GTGTTTTCATGTAAGACCACATCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
50732067 GTGTTTTC-TGTAAGACC
1 GTGTTTTCGTGTAAGACC
50732084 CTGTCCGGGA
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 9 0.09
43 88 0.91
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
Found at i:50732136 original size:85 final size:86
Alignment explanation
Indices: 50731947--50732145 Score: 235
Period size: 85 Copynumber: 2.3 Consensus size: 86
50731937 AGTGTTTTCG
* * *
50731947 TGTAAGACCACGTCTAGGATGTTGGCATCGACTTGTGTTTTCGTGTAAGACCACGTCTGGGACGT
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTTCGTGTAAGACCACGTCCGGGACGT
* * * *
50732012 TGGCATCAACTTGTGTTTTCA
66 CGGCATCAACTCGTGATTACA
*
50732033 TGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTTTTC-TGTAAGACC-CTGTCCGGGACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTTCGTGTAAGACCAC-GTCCGGGAC-
* *
50732096 G-CGGCGTCGA-TCCGTGATTACA
64 GTCGGCATCAACT-CGTGATTACA
* *
50732118 TGTAAGACCATGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
50732146 TGTACGAATC
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
84 2 0.02
85 55 0.57
86 40 0.41
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (86 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTTCGTGTAAGACCACGTCCGGGACGT
CGGCATCAACTCGTGATTACA
Found at i:50732846 original size:19 final size:20
Alignment explanation
Indices: 50732801--50732847 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
50732791 TTGGGTGAAT
50732801 TATGGTTTAAGCATATTTTGG
1 TATGG-TTAAGCATATTTTGG
50732822 TTATGGTTAAGCAT-TTTATGG
1 -TATGGTTAAGCATATTT-TGG
50732843 -ATGGT
1 TATGGT
50732848 ATTATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 11 0.46
22 5 0.21
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.47
Consensus pattern (20 bp):
TATGGTTAAGCATATTTTGG
Found at i:50732927 original size:27 final size:27
Alignment explanation
Indices: 50732894--50732949 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
50732884 TTAGTAGTAA
50732894 AGTGAATATATGATATGATTTATAAAT
1 AGTGAATATATGATATGATTTATAAAT
50732921 AGTGAATATATGATATGATTTATAAAT
1 AGTGAATATATGATATGATTTATAAAT
50732948 AG
1 AG
50732950 AAGTGTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (27 bp):
AGTGAATATATGATATGATTTATAAAT
Found at i:50738164 original size:35 final size:35
Alignment explanation
Indices: 50738125--50738196 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
50738115 AATATTATGT
50738125 CAATAATTTATACCTGATTTCAAAAAAGACTGTGC
1 CAATAATTTATACCTGATTTCAAAAAAGACTGTGC
50738160 CAATAATTTATACCTGATTTCAAAAAAGACTGTGC
1 CAATAATTTATACCTGATTTCAAAAAAGACTGTGC
50738195 CA
1 CA
50738197 TATAGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (35 bp):
CAATAATTTATACCTGATTTCAAAAAAGACTGTGC
Found at i:50741128 original size:17 final size:16
Alignment explanation
Indices: 50741090--50741126 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50741080 ATAAAAACAA
50741090 TTTTTATTATTTTTAT
1 TTTTTATTATTTTTAT
50741106 TTTTTA-TATATTTTAT
1 TTTTTATTAT-TTTTAT
50741122 TTTTT
1 TTTTT
50741127 TAAAAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTATTTTTAT
Found at i:50748440 original size:15 final size:15
Alignment explanation
Indices: 50748368--50748442 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 15
50748358 TGGTAATATT
*
50748368 TTTATTAT-AAAAAT
1 TTTATTATAAAAAAA
50748382 TTGTATTA-ACAAACAAA
1 TT-TATTATA-AAA-AAA
* *
50748399 TTTATGA-AAAACAA
1 TTTATTATAAAAAAA
**
50748413 TTTACGATAAAAAAA
1 TTTATTATAAAAAAA
50748428 TTTATTATAAAAAAA
1 TTTATTATAAAAAAA
50748443 CAATAAAAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.20
15 27 0.55
16 8 0.16
17 4 0.08
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (15 bp):
TTTATTATAAAAAAA
Done.