Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 188 of 290
Found at i:60342716 original size:30 final size:30
Alignment explanation
Indices: 60342680--60342784 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
60342670 TAAAGGTGAT
60342680 TTGGGCCAAATGGGCCATATGAATATGAAA
1 TTGGGCCAAATGGGCCATATGAATATGAAA
* *
60342710 TTGGGCCTAATGGGCCATATGAATGTG-AA
1 TTGGGCCAAATGGGCCATATGAATATGAAA
* * * *
60342739 TCGGGCC-GATTGGCCATAT-AA-ATGAGA
1 TTGGGCCAAATGGGCCATATGAATATGAAA
* *
60342766 TTGGGCCAAGTGGGTCATA
1 TTGGGCCAAATGGGCCATA
60342785 CGCATGTACG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.03
27 9 0.15
28 17 0.28
29 8 0.13
30 25 0.41
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (30 bp):
TTGGGCCAAATGGGCCATATGAATATGAAA
Found at i:60342725 original size:59 final size:56
Alignment explanation
Indices: 60342651--60342772 Score: 145
Period size: 59 Copynumber: 2.1 Consensus size: 56
60342641 GTAAGGTGAT
* *
60342651 TTGGGCCTAACGGGCCATATAAAGGTGATTTGGGCCAAATGGGCCATATGAATATGAAA
1 TTGGGCCTAACGGGCCATATAAAGGTGAATCGGGCC-AATGGGCCATAT-AA-ATGAAA
* * * * * *
60342710 TTGGGCCTAATGGGCCATATGAATGTGAATCGGGCCGATTGGCCATATAAATGAGA
1 TTGGGCCTAACGGGCCATATAAAGGTGAATCGGGCCAATGGGCCATATAAATGAAA
60342766 TTGGGCC
1 TTGGGCC
60342773 AAGTGGGTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 12 0.22
57 2 0.04
58 10 0.18
59 31 0.56
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (56 bp):
TTGGGCCTAACGGGCCATATAAAGGTGAATCGGGCCAATGGGCCATATAAATGAAA
Found at i:60342784 original size:28 final size:27
Alignment explanation
Indices: 60342651--60342784 Score: 106
Period size: 29 Copynumber: 4.7 Consensus size: 27
60342641 GTAAGGTGAT
* * *
60342651 TTGGGCCTAACGGGCCATATAAAGGTGA
1 TTGGGCC-AATGGGCCATATAAATGAGA
*
60342679 TTTGGGCCAAATGGGCCATATGAATATGAAA
1 -TTGGGCC-AATGGGCCATAT-AA-ATGAGA
* *
60342710 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCC-AATGGGCCATATAAATGAG-A
* * *
60342739 TCGGGCCGATTGGCCATATAAATGAGA
1 TTGGGCCAATGGGCCATATAAATGAGA
*
60342766 TTGGGCCAAGTGGGTCATA
1 TTGGGCCAA-TGGGCCATA
60342785 CGCATGTACG
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
27 8 0.10
28 25 0.30
29 26 0.31
30 21 0.25
31 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
TTGGGCCAATGGGCCATATAAATGAGA
Found at i:60347984 original size:42 final size:42
Alignment explanation
Indices: 60347867--60347963 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
60347857 ACTAAGATTA
* *
60347867 CGTGTAAGACCATATCTGGGTTATGGCATCAATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTT
* *
60347909 CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGGCTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTT
60347951 CGT-TAAGACCATA
1 CGTGTAAGACCATA
60347964 GCTAGGCTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 10 0.20
42 41 0.80
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTT
Found at i:60348220 original size:15 final size:16
Alignment explanation
Indices: 60348194--60348223 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60348184 ATGAACCTTC
60348194 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
60348210 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
60348224 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:60351220 original size:28 final size:28
Alignment explanation
Indices: 60351188--60351241 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
60351178 CATCCATAGA
*
60351188 GTAAGTCTGTTAAGA-CAGTAAACACGAG
1 GTAAGTCTG-CAAGAGCAGTAAACACGAG
*
60351216 GTAAGTCTGCCAGAGCAGTAAACACG
1 GTAAGTCTGCAAGAGCAGTAAACACG
60351242 GGAGTCCGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (28 bp):
GTAAGTCTGCAAGAGCAGTAAACACGAG
Found at i:60372085 original size:9 final size:8
Alignment explanation
Indices: 60372070--60372107 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
60372060 AGATACAATA
60372070 TTTTTATT
1 TTTTTATT
60372078 TCTTTTA-T
1 T-TTTTATT
*
60372086 TTTTAATT
1 TTTTTATT
60372094 TTTTTATT
1 TTTTTATT
60372102 TTTTTA
1 TTTTTA
60372108 ATTTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 17 0.65
9 5 0.19
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:60372088 original size:15 final size:15
Alignment explanation
Indices: 60372068--60372104 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
60372058 ATAGATACAA
60372068 TATTTTT-ATTTCTTT
1 TATTTTTAATTT-TTT
60372083 TATTTTTAATTTTTT
1 TATTTTTAATTTTTT
60372098 TATTTTT
1 TATTTTT
60372105 TTAATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTAATTTTTT
Found at i:60380721 original size:20 final size:20
Alignment explanation
Indices: 60380692--60380739 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
60380682 TTCTTTAATT
*
60380692 ATTTATCTAAATAAATTCAA
1 ATTTAACTAAATAAATTCAA
60380712 ATTTAACTAAATAAATTCAA
1 ATTTAACTAAATAAATTCAA
60380732 ATTTAACT
1 ATTTAACT
60380740 TATTCAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAACTAAATAAATTCAA
Found at i:60389803 original size:75 final size:75
Alignment explanation
Indices: 60389694--60389860 Score: 185
Period size: 75 Copynumber: 2.2 Consensus size: 75
60389684 ACTTTGCATT
* ** ** *
60389694 GAAGGTAACACCATGAATTCATTACAGAGTCATGTTTCATATA-TAGTGTTCTGCCAATTAAATA
1 GAAGGCAACACCATGAATTCATTACAGAAACATGTTTCATATACTACAG-TCTACCAATTAAATA
60389758 GATATTACATC
65 GATATTACATC
* * * * * * *
60389769 GAAGGCAACATCATGAATTTATTACATAAACATGTTTCATGTACTACAGTCTATCAGTTTAATAG
1 GAAGGCAACACCATGAATTCATTACAGAAACATGTTTCATATACTACAGTCTACCAATTAAATAG
*
60389834 ATATTCCATC
66 ATATTACATC
60389844 -AAGGCAACACCATGAAT
1 GAAGGCAACACCATGAAT
60389861 CCTTTTTCTT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
74 16 0.21
75 57 0.75
76 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (75 bp):
GAAGGCAACACCATGAATTCATTACAGAAACATGTTTCATATACTACAGTCTACCAATTAAATAG
ATATTACATC
Found at i:60399438 original size:75 final size:74
Alignment explanation
Indices: 60399271--60399467 Score: 225
Period size: 75 Copynumber: 2.6 Consensus size: 74
60399261 ATAACCATTA
* * * *
60399271 TTCATGTACCACGATCTGCCAGTTCAATGCACT-TTGCATCGAAGGAAACGTCATGAATTCATTA
1 TTCATATACCACGATCTGCCAGTTCAATG-A-TATTCCATCGAAGGCAACATCATGAATTCATTA
60399335 TAGAGTCATAT
64 TAGAGTCATAT
* * * *
60399346 TTTATGTACCACAATCTGCCAGTTCAATAGATATTTCATCGAAGGCAACATCATGAATTCATTAT
1 TTCATATACCACGATCTGCCAGTTCAAT-GATATTCCATCGAAGGCAACATCATGAATTCATTAT
*
60399411 AGAGTCATGT
65 AGAGTCATAT
* * * * *
60399421 TTCATATGCCTCGATCTGCTAATTCAATGGATATTCCATCAAAGGCA
1 TTCATATACCACGATCTGCCAGTTCAAT-GATATTCCATCGAAGGCA
60399468 GTGCCATGAA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.01
75 102 0.98
76 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
TTCATATACCACGATCTGCCAGTTCAATGATATTCCATCGAAGGCAACATCATGAATTCATTATA
GAGTCATAT
Found at i:60402851 original size:20 final size:20
Alignment explanation
Indices: 60402826--60402863 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
60402816 ACTCGGAAGT
60402826 AGACTTGTGATCTTCAATCG
1 AGACTTGTGATCTTCAATCG
60402846 AGACTTGTGATCTTCAAT
1 AGACTTGTGATCTTCAAT
60402864 TGAACTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
AGACTTGTGATCTTCAATCG
Found at i:60407321 original size:20 final size:19
Alignment explanation
Indices: 60407280--60407323 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
60407270 ATATATCTAA
* * *
60407280 ATTACAAATAAAATTAATT
1 ATTATAAATAAAAATAAAT
60407299 ATTATAAATAAAAATAGAAT
1 ATTATAAATAAAAATA-AAT
60407319 ATTAT
1 ATTAT
60407324 TTAAACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTATAAATAAAAATAAAT
Found at i:60408500 original size:25 final size:25
Alignment explanation
Indices: 60408472--60408522 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
60408462 AATCAAGATA
*
60408472 AATTAATCTACTTTACTATCTAGCT
1 AATTAATCTACTTTACCATCTAGCT
60408497 AATTAATCTACTTTACCATCTAGCT
1 AATTAATCTACTTTACCATCTAGCT
60408522 A
1 A
60408523 GCAGGGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTAATCTACTTTACCATCTAGCT
Found at i:60421786 original size:148 final size:148
Alignment explanation
Indices: 60421518--60421813 Score: 430
Period size: 148 Copynumber: 2.0 Consensus size: 148
60421508 TATTATCAGG
* * * *
60421518 CTTCAATTCTCACAACTGTTGTGACATGCGGAGCTTCCTTCAACCTTATCATCTGCTTCTTCAGA
1 CTTCAATTCTCACAACTATTGCGACATGCAGAGCTTCCTTCAACCTCATCATCTGCTTCTTCAGA
* * * * *
60421583 GCATCTGAAGAAAATGATGATATGGAAAGAGTAAGAATCGTTAAAAGAATTAAGAAAATTATGTC
66 GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
* *
60421648 TTCACACATACCTATATA
131 TTCACACACACCAATATA
* * * *
60421666 CTTCAATTCTCACGATTATTGCGACATGCAGAGCTTCCTTCAACCTCATCCTCTTCTTCTTCAGA
1 CTTCAATTCTCACAACTATTGCGACATGCAGAGCTTCCTTCAACCTCATCATCTGCTTCTTCAGA
* * *
60421731 GCAACTAAAGAAAATGATGTTATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTTTTTC
66 GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
60421796 TTCACACACACCAATATA
131 TTCACACACACCAATATA
60421814 TATACTCCCT
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 130 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (148 bp):
CTTCAATTCTCACAACTATTGCGACATGCAGAGCTTCCTTCAACCTCATCATCTGCTTCTTCAGA
GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
TTCACACACACCAATATA
Found at i:60423831 original size:43 final size:44
Alignment explanation
Indices: 60423783--60423935 Score: 177
Period size: 43 Copynumber: 3.5 Consensus size: 44
60423773 TATCGAGATG
*
60423783 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* *
60423826 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* * * * * * *
60423869 TGATTTCGTGTAAGACCCTGTCTGGCACAGTGGCACCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* *
60423912 TGATAACATGTAAGACCATATCTG
1 TGATTACATGTAAGACCATGTCTG
60423936 AGATATGGCA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 92 0.99
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
Found at i:60433885 original size:40 final size:40
Alignment explanation
Indices: 60433825--60434008 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
60433815 TATTCGAATC
* *
60433825 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
60433865 ATATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
60433905 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
60433945 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
60433985 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
60434009 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:60436779 original size:25 final size:25
Alignment explanation
Indices: 60436751--60436829 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
60436741 CGAATGGCCA
60436751 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
60436776 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
60436798 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
60436823 ATGTGAT
1 ATGTGAT
60436830 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:60436797 original size:47 final size:47
Alignment explanation
Indices: 60436706--60436899 Score: 325
Period size: 47 Copynumber: 4.1 Consensus size: 47
60436696 ATTTTGTTAC
60436706 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
60436755 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
60436802 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
* * * * *
60436849 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
60436896 GATG
1 GATG
60436900 GAAGTGGAAG
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
47 120 0.86
49 20 0.14
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:60438761 original size:39 final size:39
Alignment explanation
Indices: 60438688--60438805 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 39
60438678 TAATGGAGAA
* *
60438688 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
*
60438727 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
* *
60438766 TTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTG
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGTG
60438806 ATTGGATTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 35 0.49
40 36 0.51
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
Found at i:60442746 original size:18 final size:18
Alignment explanation
Indices: 60442724--60442801 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
60442714 TGCGACTAAG
*
60442724 GAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCAGGTGAA
* *
60442742 TAAGAAGATGC-GACTGAA
1 GAAGAAGATGCAG-GTGAA
* *
60442760 GAAGAAGATGTAGGTGAG
1 GAAGAAGATGCAGGTGAA
*
60442778 GAAGAAGATGCAGGTGAG
1 GAAGAAGATGCAGGTGAA
60442796 GAAGAA
1 GAAGAA
60442802 AATTCAGTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.38, T:0.14
Consensus pattern (18 bp):
GAAGAAGATGCAGGTGAA
Found at i:60442754 original size:36 final size:36
Alignment explanation
Indices: 60442706--60442788 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
60442696 CACAGATGAG
* *
60442706 GAAGAATATGCGACT-AAGGAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCGACTGAA-GAAGAAGATGCAGGTGAA
* * *
60442742 TAAGAAGATGCGACTGAAGAAGAAGATGTAGGTGAG
1 GAAGAAGATGCGACTGAAGAAGAAGATGCAGGTGAA
60442778 GAAGAAGATGC
1 GAAGAAGATGC
60442789 AGGTGAGGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.35, T:0.16
Consensus pattern (36 bp):
GAAGAAGATGCGACTGAAGAAGAAGATGCAGGTGAA
Found at i:60442800 original size:36 final size:36
Alignment explanation
Indices: 60442706--60442801 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 36
60442696 CACAGATGAG
* * *
60442706 GAAGAATATGCGACTAAGGAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
* * * *
60442742 TAAGAAGATGCGACTGAAGAAGAAGATGTAGGTGAG
1 GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
*
60442778 GAAGAAGATGC-AGGTGAGGAAGAA
1 GAAGAAGATGCGA-CTGAGGAAGAA
60442802 AATTCAGTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.43, C:0.06, G:0.36, T:0.15
Consensus pattern (36 bp):
GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
Found at i:60444688 original size:48 final size:48
Alignment explanation
Indices: 60444616--60445036 Score: 432
Period size: 48 Copynumber: 8.8 Consensus size: 48
60444606 AAAGGGTAAG
* * *
60444616 ATGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
60444664 ATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATATTT
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATAATA
* * * * *
60444712 AGGCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTTTCGTAACA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * * * * *
60444760 ATACCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
60444808 AGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
** * ** * *
60444856 ATATCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
60444904 AGGCCGATGACATCTCCCAAAACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTCCC-AAACATGGTCTTACACTAGCTCTCATAATA
* * * *
60444953 ATGCCGATGCCATGTCTCAAACATGGTCTTACACTGGCTCAT-GTATTA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATAATA
* * *
60445001 AGGCCAATGCCATGTCCCAGACATGGTCTTACACTA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
60445037 TGTAACATCC
Statistics
Matches: 295, Mismatches: 74, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.00
48 253 0.86
49 41 0.14
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
Found at i:60444782 original size:96 final size:96
Alignment explanation
Indices: 60444618--60445036 Score: 588
Period size: 96 Copynumber: 4.4 Consensus size: 96
60444608 AGGGTAAGAT
* * * * *
60444618 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAAAATGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACCGATGCCATGTTCCA
*
60444683 AACATGGTCTTACACTGGCTCATATATTTAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* * * *
60444714 GCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTTTCGTAACAATACCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACCGATGCCATGTTCCA
* *
60444779 AACATGGTCTTACATTGGCTCACATATTGAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* * * *
60444810 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATATCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACCGATGCCATGTTCCA
* *
60444875 AACATGGTCTTACACTAGCTCAAATATTGAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* * * *
60444906 GCCGATGACATCTCCCAAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATG-TCT
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCTCATAACAATACCGATGCCATGTTC-
* *
60444970 CAAACATGGTCTTACACTGGCTCATGTATTAAG
64 CAAACATGGTCTTACACTGGCTCATATATTGAG
*
60445003 GCCAATGCCATGTCCCAGACATGGTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
60445037 TGTAACATCC
Statistics
Matches: 284, Mismatches: 37, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
96 203 0.71
97 81 0.29
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATACCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCATATATTGAG
Found at i:60448888 original size:56 final size:55
Alignment explanation
Indices: 60448821--60448937 Score: 162
Period size: 56 Copynumber: 2.1 Consensus size: 55
60448811 AATAGTCCCC
* *
60448821 TCATTAGCTAGATTAAGCTATAAAGGTTCCAAAAGCACAAAAATCAACAAAAATGA
1 TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACAC-AAAATCAACAAAAATGA
* * * *
60448877 TCATCAGCTAGATTAAGCTATAAGGGTTTCAAAAACTCAAAATTAACAAAAATGA
1 TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACACAAAATCAACAAAAATGA
*
60448932 CCATCA
1 TCATCA
60448938 AAATCACTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 21 0.39
56 33 0.61
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (55 bp):
TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACACAAAATCAACAAAAATGA
Found at i:60461449 original size:20 final size:20
Alignment explanation
Indices: 60461409--60461450 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60461399 TATGAAAGAC
*
60461409 AAAAAAATTATTTTAATCTT
1 AAAAAAATTAATTTAATCTT
60461429 AAAAAAATTAAATTTAA-CTT
1 AAAAAAATT-AATTTAATCTT
60461449 AA
1 AA
60461451 TTGAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAAATTAATTTAATCTT
Found at i:60465064 original size:19 final size:19
Alignment explanation
Indices: 60465050--60465102 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
60465040 ACTATTATTT
* *
60465050 TTTTACTATTTTATTGCTA
1 TTTTATTATTTTTTTGCTA
60465069 TTTT-TTACTTTTTTTGCTA
1 TTTTATTA-TTTTTTTGCTA
*
60465088 TTTTATTGTTTTTTT
1 TTTTATTATTTTTTT
60465103 TCACTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.13, C:0.08, G:0.06, T:0.74
Consensus pattern (19 bp):
TTTTATTATTTTTTTGCTA
Found at i:60465083 original size:30 final size:30
Alignment explanation
Indices: 60465047--60465112 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
60465037 AAAACTATTA
60465047 TTTTTTTACTATTTTATTGCTATTTTTT-AC
1 TTTTTTTACTATTTTATTG-TATTTTTTCAC
* *
60465077 TTTTTTTGCTATTTTATTGTTTTTTTTCAC
1 TTTTTTTACTATTTTATTGTATTTTTTCAC
*
60465107 TATTTT
1 TTTTTT
60465113 GCTACCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (30 bp):
TTTTTTTACTATTTTATTGTATTTTTTCAC
Found at i:60465458 original size:16 final size:16
Alignment explanation
Indices: 60465437--60465467 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60465427 AGTTGAACCT
60465437 GAACATGTAGACCCCC
1 GAACATGTAGACCCCC
60465453 GAACATGTAGACCCC
1 GAACATGTAGACCCC
60465468 TAATGATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.35, G:0.19, T:0.13
Consensus pattern (16 bp):
GAACATGTAGACCCCC
Found at i:60467289 original size:18 final size:20
Alignment explanation
Indices: 60467268--60467308 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
60467258 TAATAGTTTA
60467268 AAATTA-AATAATTATT-TT
1 AAATTATAATAATTATTCTT
*
60467286 AAA-TATAATTATTATTCTT
1 AAATTATAATAATTATTCTT
60467305 AAAT
1 AAAT
60467309 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATAATAATTATTCTT
Found at i:60467531 original size:17 final size:17
Alignment explanation
Indices: 60467509--60467559 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
60467499 TGTACACACG
60467509 ATATAGGTAAAAAATAA
1 ATATAGGTAAAAAATAA
* *
60467526 ATATAGGCGTAAAAATTAT
1 ATATA-G-GTAAAAAATAA
*
60467545 ATATAAG-AAAAAATA
1 ATATAGGTAAAAAATA
60467560 TATCAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 1 0.04
19 14 0.50
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (17 bp):
ATATAGGTAAAAAATAA
Found at i:60467655 original size:19 final size:19
Alignment explanation
Indices: 60467624--60467661 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
60467614 ATATATATCG
60467624 AAAATATATTTTTCATTAT
1 AAAATATATTTTTCATTAT
60467643 AAAATTATATTTTT-ATTAT
1 AAAA-TATATTTTTCATTAT
60467662 TCTATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATATATTTTTCATTAT
Found at i:60469621 original size:7 final size:7
Alignment explanation
Indices: 60469609--60469643 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
60469599 TATTTTTTTA
60469609 TATATTG
1 TATATTG
60469616 TATATTG
1 TATATTG
*
60469623 TATATTT
1 TATATTG
60469630 TAATATTG
1 T-ATATTG
60469638 TATATT
1 TATATT
60469644 TTTATATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (7 bp):
TATATTG
Found at i:60469637 original size:15 final size:15
Alignment explanation
Indices: 60469568--60469650 Score: 62
Period size: 15 Copynumber: 5.3 Consensus size: 15
60469558 AATTATTGCA
60469568 AATATTAGTATATTTT
1 AATATT-GTATATTTT
*
60469584 TATATGTGTA-ATATTT
1 AATAT-TGTATAT-TTT
* * *
60469600 ATTTTTTTATATATTGT
1 AATATTGTATAT-TT-T
60469617 -ATATTGTATATTTT
1 AATATTGTATATTTT
60469631 AATATTGTATATTTT
1 AATATTGTATATTTT
*
60469646 TATAT
1 AATAT
60469651 GTGCATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.02
15 25 0.47
16 25 0.47
17 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (15 bp):
AATATTGTATATTTT
Found at i:60469638 original size:22 final size:22
Alignment explanation
Indices: 60469569--60469643 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 22
60469559 ATTATTGCAA
*
60469569 ATATTAGTATATTTTTATATGTGT
1 ATATT-GTATATTTTAATAT-TGT
*
60469593 AATATT-TATTTTTTTATATATTGT
1 -ATATTGTA-TATTTTA-ATATTGT
60469617 ATATTGTATATTTTAATATTGT
1 ATATTGTATATTTTAATATTGT
60469639 ATATT
1 ATATT
60469644 TTTATATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 12 0.27
23 13 0.30
24 10 0.23
25 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (22 bp):
ATATTGTATATTTTAATATTGT
Found at i:60469945 original size:18 final size:20
Alignment explanation
Indices: 60469922--60469965 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
60469912 ATAATGATAA
60469922 ATATAA-TAATATTTT-TTT
1 ATATAATTAATATTTTATTT
*
60469940 ATATAATTATTATTTTATTT
1 ATATAATTAATATTTTATTT
60469960 ATATAA
1 ATATAA
60469966 ATAAAGGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 8 0.35
20 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATAATTAATATTTTATTT
Found at i:60470575 original size:19 final size:19
Alignment explanation
Indices: 60470545--60470595 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
60470535 TTATAAATAA
60470545 ATAAATAAAATTCA-AGAAAT
1 ATAAA-AAAATT-AGAGAAAT
*
60470565 ATAAAAAAATTAGAGAATT
1 ATAAAAAAATTAGAGAAAT
*
60470584 ATAAAAACATTA
1 ATAAAAAAATTA
60470596 ATCAAAGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 22 0.79
20 5 0.18
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (19 bp):
ATAAAAAAATTAGAGAAAT
Found at i:60473279 original size:8 final size:8
Alignment explanation
Indices: 60473262--60473296 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
60473252 TTTGATTATG
60473262 ATTTTT-A
1 ATTTTTAA
60473269 ATTTTTAA
1 ATTTTTAA
60473277 ATTTTTATA
1 ATTTTTA-A
60473286 ATTTTTAA
1 ATTTTTAA
60473294 ATT
1 ATT
60473297 ATTTCTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:60473289 original size:17 final size:16
Alignment explanation
Indices: 60473263--60473296 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
60473253 TTGATTATGA
60473263 TTTTTAATTTTTAAAT
1 TTTTTAATTTTTAAAT
60473279 TTTTATAATTTTTAAAT
1 TTTT-TAATTTTTAAAT
60473296 T
1 T
60473297 ATTTCTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTTAAAT
Found at i:60489097 original size:19 final size:19
Alignment explanation
Indices: 60489046--60489097 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
60489036 GGGAAATTGA
60489046 CACACGAAATGCATCCTGC
1 CACACGAAATGCATCCTGC
* * * *
60489065 CACATGAAGTGCATCTTGG
1 CACACGAAATGCATCCTGC
*
60489084 CACACGAAACGCAT
1 CACACGAAATGCAT
60489098 AAACCCGCAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
CACACGAAATGCATCCTGC
Found at i:60491629 original size:24 final size:25
Alignment explanation
Indices: 60491576--60491632 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
60491566 CTTTTTTTAA
60491576 AATTTAAATTCGAATCAAGTTAAAT
1 AATTTAAATTCGAATCAAGTTAAAT
* *
60491601 -TTTTAAATTCGAAT-AA-TTCGAAT
1 AATTTAAATTCGAATCAAGTT-AAAT
60491624 AATTTAAAT
1 AATTTAAAT
60491633 AAACTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 20 0.74
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (25 bp):
AATTTAAATTCGAATCAAGTTAAAT
Found at i:60491947 original size:39 final size:36
Alignment explanation
Indices: 60491904--60491975 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
60491894 TTAATTTTTT
*
60491904 TTTCAAATTTATGTCTACTATTTATATTATTGAATTAAA
1 TTTCAAATTT-TG--TACTATTTAGATTATTGAATTAAA
*
60491943 TTTCACATTTTGTACTATTTAGATTATTGAATT
1 TTTCAAATTTTGTACTATTTAGATTATTGAATT
60491976 GTTTATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 20 0.65
38 2 0.06
39 9 0.29
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTCAAATTTTGTACTATTTAGATTATTGAATTAAA
Found at i:60493074 original size:8 final size:8
Alignment explanation
Indices: 60493051--60493084 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
60493041 TAAATAATGT
60493051 TATTATTA
1 TATTATTA
60493059 TA--ATTA
1 TATTATTA
60493065 TATTATTA
1 TATTATTA
60493073 TATTATTA
1 TATTATTA
60493081 TATT
1 TATT
60493085 TATAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:60510724 original size:58 final size:58
Alignment explanation
Indices: 60510662--60510780 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
60510652 TCAAAAACTA
60510662 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAA-ATTTAGTTTTGAATTTTCTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTT-GTTTTGAATTTTCTC
60510720 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
60510778 CTT
1 CTT
60510781 TTTCAAAAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 56 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (58 bp):
CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
Found at i:60510824 original size:131 final size:134
Alignment explanation
Indices: 60510590--60510935 Score: 482
Period size: 131 Copynumber: 2.5 Consensus size: 134
60510580 TTTTAGGGAT
*
60510590 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTATTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
* *
60510655 AAAACTACTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAATTTAG-TTTTGA-ATTTT-
66 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCATATTTTA
60510717 CTCC
131 CTCC
**
60510721 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
* *
60510786 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTTCATTTTCTC
66 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCA-----T-
*
60510851 CTTTTTCAAAAACTCC
125 -ATTTT-----ACTCC
*
60510867 TTCTATGTTTATAGAAATTAAAGCTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
60510932 AAAA
66 AAAA
60510936 ATTTGCTAGA
Statistics
Matches: 189, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
131 110 0.58
132 5 0.03
140 4 0.02
146 70 0.37
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (134 bp):
TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCATATTTTA
CTCC
Found at i:60510839 original size:73 final size:73
Alignment explanation
Indices: 60510720--60510935 Score: 369
Period size: 73 Copynumber: 3.0 Consensus size: 73
60510710 GAATTTTCTC
**
60510720 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
60510785 AAAAACTA
66 AAAAACTA
* **
60510793 CTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTTCATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
*
60510858 AAAAACTC
66 AAAAACTA
*
60510866 CTTCTATGTTTATAGAAATTAAAGCTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
60510931 AAAAA
66 AAAAA
60510936 ATTTGCTAGA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 133 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (73 bp):
CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
AAAAACTA
Found at i:60516944 original size:42 final size:42
Alignment explanation
Indices: 60516863--60517008 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 42
60516853 TTCCAGACAT
* * * *
60516863 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGATAG
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCTAGA-AG
* *
60516906 GGTCTTACACGAAATCATATA-CGATGACAATGTCCTAGACAT
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCTAGA-AG
* * * *
60516948 AGTCTTACACGTAAATC-TCAAATCGATGCCAACGTCCTAGACG
1 GGTCTTACACG-AAATCAT-ATATCGATGCCAATGTCCTAGAAG
*
60516991 TGGTCTTACACGATATCA
1 -GGTCTTACACGAAATCA
60517009 CATCTCGGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.34
43 29 0.35
44 26 0.31
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCATATATCGATGCCAATGTCCTAGAAG
Found at i:60516986 original size:44 final size:44
Alignment explanation
Indices: 60516844--60517002 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 44
60516834 AGCTCGTACA
* *
60516844 ATGCCAACGTTCC-AGACATGGTCTTACATGT-AATC-AAATATCG
1 ATGCCAACG-TCCTAGACATGGTCTTACACGTAAATCTCAA-ATCG
* * *
60516887 ATGCC-ACTGTCCTAGATAGGGTCTTACACG-AAA--TCATATACG
1 ATGCCAAC-GTCCTAGACATGGTCTTACACGTAAATCTCAAAT-CG
* * *
60516929 ATGACAATGTCCTAGACATAGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCTAGACATGGTCTTACACGTAAATCTCAAATCG
*
60516973 ATGCCAACGTCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCTAGACATGGTCTTACACG
60517003 ATATCACATC
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 26 0.28
44 28 0.30
45 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCTAGACATGGTCTTACACGTAAATCTCAAATCG
Found at i:60521567 original size:79 final size:81
Alignment explanation
Indices: 60521431--60521615 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
60521421 TTGAATGATG
* *
60521431 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
60521495 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
60521510 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
60521572 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
60521590 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60521616 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:60521629 original size:40 final size:40
Alignment explanation
Indices: 60521432--60521615 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
60521422 TGAATGATGT
* * * *
60521432 CCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
60521472 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
60521512 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
60521550 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
60521591 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60521616 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:60521637 original size:79 final size:79
Alignment explanation
Indices: 60521484--60521648 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
60521474 GGACTAAGAT
* * **
60521484 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
60521549 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60521563 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
60521626 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60521642 CCGAAGG
1 CCGAAGG
60521649 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60527649 original size:43 final size:42
Alignment explanation
Indices: 60527602--60527700 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
60527592 TCCCAAACGT
* *
60527602 GGTCTTACATGTAATTAAATATTGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATA-AGATGCCACTGTCCCAGACAG
* * * * *
60527645 GGTCTTACATGAAATCATATAAGATGGCAGTGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGCCACTGTCCCAGACAG
*
60527687 GGTCTTACACGTAA
1 GGTCTTACATGTAA
60527701 ATCTCAAATC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCCACTGTCCCAGACAG
Found at i:60529039 original size:43 final size:42
Alignment explanation
Indices: 60528976--60529130 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
60528966 GGGCTGGTAC
* * *
60528976 ATGCCATATCCCAGACATGGTCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATAG
* *
60529018 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
* * * *
60529061 ATGCCATATCCCAAATATGGTATTACACGAAGTCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
60529103 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
60529131 ATAGTCCTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:60537748 original size:30 final size:30
Alignment explanation
Indices: 60537714--60537774 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60537704 TTAAATTTTG
60537714 TAATTGATATTCAAGTTAAACTGAAAAACT
1 TAATTGATATTCAAGTTAAACTGAAAAACT
** * * *
60537744 TAATTTTTATTCAAGTTGATCTGAATAACT
1 TAATTGATATTCAAGTTAAACTGAAAAACT
60537774 T
1 T
60537775 GATTAACTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (30 bp):
TAATTGATATTCAAGTTAAACTGAAAAACT
Found at i:60550754 original size:42 final size:41
Alignment explanation
Indices: 60550635--60550754 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
60550625 CATCTATCTG
* * *
60550635 AGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCGATT
1 AGATTTCGTGTAAGACCATGTTTGGGACACAGGCATCGATT
*
60550676 GAGATTTACGTATAAGA-CATGTTTGGGACATC-GGCATCGTATCT
1 -AGATTT-CGTGTAAGACCATGTTTGGGACA-CAGGCATCG-AT-T
* *
60550720 -GATTTCGTGTAAGACCTTGTTTGGGACAGAGGCAT
1 AGATTTCGTGTAAGACCATGTTTGGGACACAGGCAT
60550755 TGATATTGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
41 8 0.12
42 45 0.69
43 11 0.17
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (41 bp):
AGATTTCGTGTAAGACCATGTTTGGGACACAGGCATCGATT
Found at i:60559598 original size:12 final size:12
Alignment explanation
Indices: 60559581--60559607 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60559571 ACACATGCCT
60559581 GTGTGCTAGGCC
1 GTGTGCTAGGCC
60559593 GTGTGCTAGGCC
1 GTGTGCTAGGCC
60559605 GTG
1 GTG
60559608 CCAAACCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:60561786 original size:39 final size:39
Alignment explanation
Indices: 60561742--60561862 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
60561732 AATTATGTTA
*
60561742 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
60561781 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
60561820 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
60561859 CCAG
1 CCAG
60561863 TGTCTTGCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:60565036 original size:40 final size:40
Alignment explanation
Indices: 60564845--60565029 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
60564835 TCGAATGATG
* * * * *
60564845 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
60564885 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
60564925 TTTGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60564964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60565005 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60565030 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60565051 original size:79 final size:79
Alignment explanation
Indices: 60564898--60565062 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
60564888 GGACTAAGAT
*** **
60564898 CCGAAGGCATTTGTGCGAGTTACTAATTTTGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
*
60564963 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60564977 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATTGGAACGAGTTA-C
* *
60565040 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
60565056 CCGAAGG
1 CCGAAGG
60565063 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60568766 original size:37 final size:37
Alignment explanation
Indices: 60568716--60568831 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
60568706 TTATTACGAA
* * * *
60568716 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
60568753 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
60568790 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
60568827 GTCTT
1 GTCTT
60568832 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:60569028 original size:47 final size:47
Alignment explanation
Indices: 60568950--60569507 Score: 927
Period size: 47 Copynumber: 11.7 Consensus size: 47
60568940 CCCTTCGGGA
* * * * * *
60568950 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
60568997 CCTGTCACATATATAAACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569044 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569091 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569138 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569234 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60569281 CTTATCACATATATACACTTTTACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60569328 CTTATCACATATATACACTTTTACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60569375 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569471 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
60569508 AGAATCCTAA
Statistics
Matches: 489, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 367 0.75
49 122 0.25
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60569365 original size:237 final size:235
Alignment explanation
Indices: 60568950--60569507 Score: 927
Period size: 237 Copynumber: 2.3 Consensus size: 235
60568940 CCCTTCGGGA
* * * * * * * * *
60568950 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAAAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
60569015 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
60569080 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
60569145 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
60569252 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTTACGTTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
60569317 GGCCATTAGGCCTTATCACATATATACACTTTTACGTTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
60569382 CATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60569422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
60569487 ACACTTTCACATTCATCACAT
62 ACACTTTCACATTCATCACAT
60569508 AGAATCCTAA
Statistics
Matches: 302, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
235 46 0.15
237 229 0.76
239 27 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60580214 original size:43 final size:43
Alignment explanation
Indices: 60580169--60580523 Score: 310
Period size: 43 Copynumber: 8.3 Consensus size: 43
60580159 AGACCACGTT
* *
60580169 TGGGACATTGGCATCGATATGTGATTACGTGTAAAACCCTATT
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
* * * * * * *
60580212 TGGTACAGTGGAATCAATATGTG-TTCTCTTGTAAGACCATATC
1 TGGGACATTGGCATCGATATGTGATT-ACGTGTAAGACCCTATC
* ** * *
60580255 TGGAATGTTGGTATCGATATGTGATTACATGTAAGACCACGT-T-
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACC-C-TATC
* * *
60580298 TGGGACGTTGGCATCGATATGTGATTACATGTAAGACCCTACC
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
* * *
60580341 TGGGATAGTGGCATCGATATGTG-TTACGTGTAAGACCAC-GTC
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACC-CTATC
* * * * *
60580383 TAGGACGTTGGCATCGATATGTGATTATGTGTAAGACCATGTC
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
* * * * *
60580426 TAGGACATCGGCATC-ATATTTGATT-CGTGTAAGACCTTATT
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
* * * *
60580467 TGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTC
1 TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
*
60580510 TGGGACGTTGGCAT
1 TGGGACATTGGCAT
60580524 TGTACGATAT
Statistics
Matches: 250, Mismatches: 51, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
41 25 0.10
42 54 0.22
43 167 0.67
44 3 0.01
45 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATC
Found at i:60580398 original size:85 final size:86
Alignment explanation
Indices: 60580154--60580514 Score: 344
Period size: 86 Copynumber: 4.2 Consensus size: 86
60580144 ATTGTAAAAA
** * * * * * *
60580154 ATGTAAGACCACGTTTGGGACATTGGCATCGATATGTGATTACGTGTAAAACC-CTATTTGGTAC
1 ATGTAAGACCATATCTGGGATAGTGGCATCGATATGTGATTACGTGTAAGACCAC-GTTTGGGAC
* * *
60580218 AG-TGGAATCAATATGTG-TTCTC
65 -GTTGGCATCGATATGTGATT-AC
* * * *
60580240 TTGTAAGACCATATCTGGAAT-GTTGGTATCGATATGTGATTACATGTAAGACCACGTTTGGGAC
1 ATGTAAGACCATATCTGGGATAG-TGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGAC
60580304 GTTGGCATCGATATGTGATTAC
65 GTTGGCATCGATATGTGATTAC
* * * *
60580326 ATGTAAGACCCTACCTGGGATAGTGGCATCGATATGTG-TTACGTGTAAGACCACGTCTAGGACG
1 ATGTAAGACCATATCTGGGATAGTGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGACG
*
60580390 TTGGCATCGATATGTGATTAT
66 TTGGCATCGATATGTGATTAC
* * * * * ***
60580411 GTGTAAGACCATGTCTAGGACA-TCGGCATC-ATATTTGATT-CGTGTAAGACCTTATTTGGGAC
1 ATGTAAGACCATATCTGGGATAGT-GGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGAC
60580473 AG-TGGCATCGATATGTGATTAC
65 -GTTGGCATCGATATGTGATTAC
*
60580495 ATGTAAGACCATGTCTGGGA
1 ATGTAAGACCATATCTGGGA
60580515 CGTTGGCATT
Statistics
Matches: 228, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
84 61 0.27
85 69 0.30
86 94 0.41
87 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (86 bp):
ATGTAAGACCATATCTGGGATAGTGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGACG
TTGGCATCGATATGTGATTAC
Found at i:60581877 original size:50 final size:51
Alignment explanation
Indices: 60581817--60581921 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
60581807 TATGCATAAT
* * *
60581817 AGAATTTGTATTCAATGAATTGGTCTTATGTATGACCTTTGATACATTGTA
1 AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGCA
60581868 AGAA-TTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGCA
1 AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGCA
60581918 AGAA
1 AGAA
60581922 AGGAGATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 47 0.92
51 4 0.08
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (51 bp):
AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGCA
Found at i:60583758 original size:40 final size:39
Alignment explanation
Indices: 60583674--60583877 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 39
60583664 TCAAATGATG
* * *
60583674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60583714 TCCGGACTAAGATCCGAAGGAATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60583754 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
60583793 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* ** * *
60583834 T-CGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
60583873 TCCGG
1 TCCGG
60583878 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 36 0.26
40 92 0.66
41 11 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60583810 original size:79 final size:80
Alignment explanation
Indices: 60583674--60583891 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
60583664 TCAAATGATG
* * **
60583674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGAATT
*
60583738 TGTGCGAGTTACTA-AT
64 TGTGCGAGTTACTATAA
* * *
60583754 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGAATTT
60583818 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
* ** * *
60583834 T-CGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTT-AAGTCCGAAGG
60583892 TACGTGATTC
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.58
80 48 0.41
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGAATTTG
TGCGAGTTACTATAA
Found at i:60592126 original size:30 final size:30
Alignment explanation
Indices: 60592092--60592149 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
60592082 CCATATACAT
*
60592092 ATATTTAGGATATTTT-ACAAATTAGTCCTC
1 ATATTT-GCATATTTTGACAAATTAGTCCTC
* *
60592122 ATATTTTCATATTTTGACAATTTAGTCC
1 ATATTTGCATATTTTGACAAATTAGTCC
60592150 CTAATTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (30 bp):
ATATTTGCATATTTTGACAAATTAGTCCTC
Found at i:60594658 original size:48 final size:49
Alignment explanation
Indices: 60594578--60594703 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
60594568 TATGATATCT
* * * * **
60594578 AGTGTAAGACCATGTCTGGGACATGGTATTAGCATTGATATGTG-TGCC
1 AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
* * * **
60594626 AGTGTAAGACCATATTTGGGATATGGCGTTAGCCTCAATATGTGATTTC
1 AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
60594675 A-TGTAAGACCATATATGGGATATGGCATT
1 AGTGTAAGACCATATATGGGATATGGCATT
60594704 GATAGGATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 62 0.95
49 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (49 bp):
AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
Found at i:60602935 original size:19 final size:19
Alignment explanation
Indices: 60602889--60602936 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
60602879 GTATATATTT
60602889 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
60602907 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
60602926 TAAGTTTTATT
1 TAAATTTTATT
60602937 AATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:60602997 original size:42 final size:42
Alignment explanation
Indices: 60602946--60603039 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 42
60602936 TAATATTCTA
** * * *
60602946 GAAA-TATTTTATTTTATCTTTTAGTGGTTCATTAGAATAAG
1 GAAACTATTTTACCTTATATTTTAGTAGTTCATTAAAATAAG
* * *
60602987 GGAACTATTTTCCCTTATATTTTAGTAGTTTATTAAAATAAG
1 GAAACTATTTTACCTTATATTTTAGTAGTTCATTAAAATAAG
*
60603029 GAAATTATTTT
1 GAAACTATTTT
60603040 CCCAATTAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 3 0.07
42 39 0.93
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (42 bp):
GAAACTATTTTACCTTATATTTTAGTAGTTCATTAAAATAAG
Found at i:60603040 original size:42 final size:42
Alignment explanation
Indices: 60602959--60603042 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
60602949 ATATTTTATT
* * * *
60602959 TTATCTTTTAGTGGTTCATTAGAATAAGGGAACTATTTTCCC
1 TTATATTTTAGTAGTTCATTAAAATAAGGAAACTATTTTCCC
* *
60603001 TTATATTTTAGTAGTTTATTAAAATAAGGAAATTATTTTCCC
1 TTATATTTTAGTAGTTCATTAAAATAAGGAAACTATTTTCCC
60603043 AATTAAGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (42 bp):
TTATATTTTAGTAGTTCATTAAAATAAGGAAACTATTTTCCC
Found at i:60614608 original size:10 final size:10
Alignment explanation
Indices: 60614593--60614642 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
60614583 TAATTTTAGG
60614593 ATTTAT-TTT
1 ATTTATCTTT
60614602 CATTTATCTTT
1 -ATTTATCTTT
60614613 ATTTATCTTT
1 ATTTATCTTT
60614623 ATTTAT-TTGT
1 ATTTATCTT-T
60614633 ATTTATCTTT
1 ATTTATCTTT
60614643 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:60616703 original size:17 final size:18
Alignment explanation
Indices: 60616671--60616704 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60616661 TATTCCTCAT
60616671 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
60616689 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
60616705 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:60617737 original size:30 final size:30
Alignment explanation
Indices: 60617679--60617737 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
60617669 TTTACGAGCC
* * *
60617679 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* *
60617709 TAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
60617738 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:60618429 original size:50 final size:50
Alignment explanation
Indices: 60618352--60618696 Score: 379
Period size: 50 Copynumber: 6.9 Consensus size: 50
60618342 TCCGTTGTGA
* *
60618352 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
60618402 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* *
60618453 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
60618503 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CACATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* * * * * * *
60618554 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * ** *
60618604 GTCATATGTGTAGTACTAAGTGCAGGATACTACATGTACCGGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
** *
60618654 GTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
60618697 GAGCTTCGGT
Statistics
Matches: 239, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
49 10 0.04
50 148 0.62
51 73 0.31
52 8 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:60618530 original size:101 final size:101
Alignment explanation
Indices: 60618353--60618635 Score: 476
Period size: 101 Copynumber: 2.8 Consensus size: 101
60618343 CCGTTGTGAG
60618353 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
*
60618418 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
* *
60618454 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
*
60618519 TAAGTGCAGGCTACTATGCGTACACATTAACTTCGA
66 TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
* * * * *
60618555 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
*
60618620 TAAGTGCAGGATACTA
66 TAAGTGCAGGCTACTA
60618636 CATGTACCGG
Statistics
Matches: 170, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 170 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCATTAACTTCGA
Found at i:60618917 original size:16 final size:16
Alignment explanation
Indices: 60618896--60618927 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60618886 AGAATAGAGT
60618896 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
60618912 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
60618928 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:60622391 original size:38 final size:40
Alignment explanation
Indices: 60622281--60622458 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
60622271 CGTTCAAACA
*
60622281 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTG
1 CCTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATG
* *
60622321 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATG
* *
60622361 CCTTCGGG-C-TAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATG
* * * * * *
60622399 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCACAAATG
*
60622439 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACATAGCCCGGA
60622459 CATCATTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.02
38 31 0.26
39 2 0.02
40 70 0.59
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATG
Found at i:60622392 original size:78 final size:81
Alignment explanation
Indices: 60622281--60622458 Score: 206
Period size: 78 Copynumber: 2.2 Consensus size: 81
60622271 CGTTCAAACA
* * *
60622281 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTT
1 CCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATAT
*
60622344 AGTAAC-TCGCACAAATG
65 AGTAACTTAGCACAAA-G
* ** *
60622361 CCTTCGGG-C-TAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATG
1 CCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATA
*
60622423 GTCACTTAGCACAAAG
66 GTAACTTAGCACAAAG
*
60622439 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACATAGCCCGGA
60622459 CATCATTCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
77 3 0.04
78 53 0.63
79 11 0.13
80 17 0.20
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CCTTCGGGACATAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATA
GTAACTTAGCACAAAG
Found at i:60630169 original size:39 final size:39
Alignment explanation
Indices: 60630133--60630314 Score: 185
Period size: 39 Copynumber: 4.6 Consensus size: 39
60630123 GCTACTCGTT
*
60630133 CAAAGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
60630172 CAATTGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAA-AGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
60630211 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
60630250 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60630290 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
60630315 CATCATTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 6 0.05
39 78 0.66
40 35 0.29
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60630231 original size:78 final size:77
Alignment explanation
Indices: 60630100--60630314 Score: 222
Period size: 78 Copynumber: 2.7 Consensus size: 77
60630090 CAATCACGTA
* * ** * *
60630100 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAAGCCTTCGGGACATAGCCCGG-TTATAGT
1 CCTTCGGGACTTAACCGGATATAG-TACTCGCACAAAGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
60630164 AACTCGCACAATTG
64 AACTCGCACAAATG
*
60630178 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGT
1 CCTTCGGGACTTAACCGGATATAGT-ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGT
*
60630242 ATCTCGCACAAATG
64 AACTCGCACAAATG
* * *
60630256 CCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
60630315 CATCATTCAA
Statistics
Matches: 116, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
77 4 0.03
78 81 0.70
79 31 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (77 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAA
CTCGCACAAATG
Found at i:60633082 original size:20 final size:21
Alignment explanation
Indices: 60633043--60633090 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
60633033 ATTTTGATAT
*
60633043 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
*
60633064 ACATGATATG-TATGTTATGC
1 ACATGATATGATATGATATGC
60633084 ACATGAT
1 ACATGAT
60633091 GTATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:60634732 original size:40 final size:40
Alignment explanation
Indices: 60634658--60634840 Score: 280
Period size: 40 Copynumber: 4.6 Consensus size: 40
60634648 AACCCAAGTA
* * *
60634658 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
60634697 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
60634737 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
60634777 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
*
60634818 CCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
60634841 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 11 0.08
40 94 0.71
41 28 0.21
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:60636761 original size:31 final size:30
Alignment explanation
Indices: 60636726--60636807 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 30
60636716 CGTTTACAGT
60636726 AAAGGCTTCGGCCCAGTGATATGAATT-ATG
1 AAAGGCTTCGGCCCAGT-ATATGAATTAATG
* *
60636756 AAAAGGCTTCGGCCCAGTA-ATCATTTAATG
1 -AAAGGCTTCGGCCCAGTATATGAATTAATG
*
60636786 AAAGACTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
60636808 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 22 0.49
30 6 0.13
31 17 0.38
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATTAATG
Found at i:60657261 original size:22 final size:23
Alignment explanation
Indices: 60657213--60657263 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60657203 TTTGTAATTT
*
60657213 AATTCTTGTATTTTTATTTTGAGA
1 AATT-TTGTATTTTTATTTTGACA
* *
60657237 AATTTTGTTTTTTTATTTT-TCA
1 AATTTTGTATTTTTATTTTGACA
60657259 AATTT
1 AATTT
60657264 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.65
Consensus pattern (23 bp):
AATTTTGTATTTTTATTTTGACA
Found at i:60660695 original size:15 final size:15
Alignment explanation
Indices: 60660675--60660706 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60660665 GTGTGGGATA
*
60660675 TAATTTAATTAATTT
1 TAATTTAATAAATTT
60660690 TAATTTAATAAATTT
1 TAATTTAATAAATTT
60660705 TA
1 TA
60660707 GAATATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTAATAAATTT
Found at i:60663237 original size:20 final size:20
Alignment explanation
Indices: 60663201--60663258 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
60663191 TAGCTCGTCC
* * *
60663201 AGCTCACAACCATCTCAGCA
1 AGCTCACATCCAGCTCAACA
**
60663221 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
60663241 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
60663259 TTTCAGCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:60664939 original size:11 final size:11
Alignment explanation
Indices: 60664923--60664961 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
60664913 GTATATACAA
60664923 AAAAAAATTCG
1 AAAAAAATTCG
*
60664934 AAAAAAATTTG
1 AAAAAAATTCG
60664945 -AAAAAATTCG
1 AAAAAAATTCG
60664955 AAAAAAA
1 AAAAAAA
60664962 AGGTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:60664948 original size:9 final size:10
Alignment explanation
Indices: 60664924--60664960 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
60664914 TATATACAAA
60664924 AAAAAATTCG
1 AAAAAATTCG
*
60664934 AAAAAAATTTG
1 -AAAAAATTCG
60664945 AAAAAATTCG
1 AAAAAATTCG
60664955 AAAAAA
1 AAAAAA
60664961 AAGGTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAAAATTCG
Found at i:60669794 original size:26 final size:26
Alignment explanation
Indices: 60669758--60669811 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
60669748 CCGAAAGGAG
60669758 ATGGGCTGTTTCAAGTTTTGGAACGA
1 ATGGGCTGTTTCAAGTTTTGGAACGA
* *
60669784 ATGGGTTGTTTCAAGTTTTGGAATGA
1 ATGGGCTGTTTCAAGTTTTGGAACGA
60669810 AT
1 AT
60669812 AAATGATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.07, G:0.30, T:0.39
Consensus pattern (26 bp):
ATGGGCTGTTTCAAGTTTTGGAACGA
Found at i:60670174 original size:20 final size:20
Alignment explanation
Indices: 60670151--60670208 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
60670141 TAGCTTGTCC
*
60670151 AGCTCACAACCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
** *
60670171 AGCTCAGTTCCAGCTTAACA
1 AGCTCACATCCAGCTCAACA
*
60670191 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
60670209 TTTCAGCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:60672848 original size:36 final size:36
Alignment explanation
Indices: 60672796--60672873 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
60672786 TTTAAAAGTT
* *
60672796 TTATGTCAATAAGAAAGTTTAGTTTAAAACTACTTC
1 TTATTTCAACAAGAAAGTTTAGTTTAAAACTACTTC
60672832 TTATTTCAACAAGAAAGTTTAGTTTAAAACTACTTC
1 TTATTTCAACAAGAAAGTTTAGTTTAAAACTACTTC
60672868 TTATTT
1 TTATTT
60672874 AGGTTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (36 bp):
TTATTTCAACAAGAAAGTTTAGTTTAAAACTACTTC
Found at i:60673226 original size:20 final size:20
Alignment explanation
Indices: 60673203--60673250 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
60673193 ATCCATCTTC
**
60673203 TTTATTTTTTTCCTTATTGT
1 TTTATTTTTTGACTTATTGT
* *
60673223 TTTAATCTTTGACTTATTGT
1 TTTATTTTTTGACTTATTGT
*
60673243 TCTATTTT
1 TTTATTTT
60673251 ATTTATCTTA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTATTTTTTGACTTATTGT
Found at i:60673265 original size:13 final size:13
Alignment explanation
Indices: 60673249--60673280 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60673239 TTGTTCTATT
60673249 TTATTTATCTTAA
1 TTATTTATCTTAA
*
60673262 TTATTTATTTTAA
1 TTATTTATCTTAA
60673275 TTATTT
1 TTATTT
60673281 TACCTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:60675866 original size:37 final size:37
Alignment explanation
Indices: 60675816--60675894 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
60675806 TTATTACGAA
* * * *
60675816 GTCTTACCCGGACATAATCTCCATACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60675853 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60675890 GTCTT
1 GTCTT
60675895 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60676100 original size:47 final size:47
Alignment explanation
Indices: 60676013--60676423 Score: 680
Period size: 47 Copynumber: 8.7 Consensus size: 47
60676003 CCCTTCGGGA
* * * * * *
60676013 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60676060 CCTGTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60676107 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60676154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60676201 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60676248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60676295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60676342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60676389 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
60676424 AGAATCCTAA
Statistics
Matches: 344, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 343 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60679202 original size:79 final size:82
Alignment explanation
Indices: 60679091--60679275 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
60679081 GCTACTCGTT
* * *
60679091 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60679154 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
60679171 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
60679234 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
60679251 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60679276 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:60679275 original size:40 final size:40
Alignment explanation
Indices: 60679072--60679275 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
60679062 CGGAATTTAA
** *
60679072 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60679112 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60679152 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60679191 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60679231 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60679271 CCGGA
1 CCGGA
60679276 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60687160 original size:79 final size:82
Alignment explanation
Indices: 60687049--60687233 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
60687039 GCTACTCGTT
* *
60687049 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60687112 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
60687129 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
60687192 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
60687209 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60687234 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:60687233 original size:40 final size:40
Alignment explanation
Indices: 60687030--60687233 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
60687020 CGGAATTTAA
** *
60687030 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60687070 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60687110 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60687149 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60687189 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60687229 CCGGA
1 CCGGA
60687234 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60690387 original size:30 final size:30
Alignment explanation
Indices: 60690342--60690402 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
60690332 ATTTAATACG
*
60690342 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
60690372 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
60690402 A
1 A
60690403 GCTCGGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:60695328 original size:12 final size:12
Alignment explanation
Indices: 60695311--60695339 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
60695301 GCATAGTCAG
60695311 ATACAGATACAA
1 ATACAGATACAA
60695323 ATACAGATACAA
1 ATACAGATACAA
60695335 ATACA
1 ATACA
60695340 AATTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (12 bp):
ATACAGATACAA
Found at i:60695331 original size:18 final size:18
Alignment explanation
Indices: 60695308--60695342 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60695298 TATGCATAGT
*
60695308 CAGATACAGATACAAATA
1 CAGATACAAATACAAATA
60695326 CAGATACAAATACAAAT
1 CAGATACAAATACAAAT
60695343 TTAATTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (18 bp):
CAGATACAAATACAAATA
Found at i:60696803 original size:19 final size:19
Alignment explanation
Indices: 60696779--60696818 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
60696769 GGAGGTCGAC
60696779 CGTGGGAAACGAAAGGTTT
1 CGTGGGAAACGAAAGGTTT
60696798 CGTGGGAAACGAAAGGTTT
1 CGTGGGAAACGAAAGGTTT
60696817 CG
1 CG
60696819 GACTAACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.38, T:0.20
Consensus pattern (19 bp):
CGTGGGAAACGAAAGGTTT
Found at i:60698950 original size:32 final size:32
Alignment explanation
Indices: 60698914--60698993 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
60698904 GGCCCACACA
*
60698914 CCCGTGTGACTCACACGCCCCACTTGGCCTTG
1 CCCGTGTGACCCACACGCCCCACTTGGCCTTG
* *
60698946 CCCGTGTGGCCCACACGCCCCACTTGGCCTAG
1 CCCGTGTGACCCACACGCCCCACTTGGCCTTG
* * *
60698978 ACCATGCGACCCACAC
1 CCCGTGTGACCCACAC
60698994 AGTCGTGTGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (32 bp):
CCCGTGTGACCCACACGCCCCACTTGGCCTTG
Found at i:60705672 original size:43 final size:41
Alignment explanation
Indices: 60705584--60705705 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 41
60705574 TAGGGTTATT
* * *
60705584 TGAGATTACGTGTAAGACCAAATTTGGGATATGACATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
60705626 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
60705669 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGGCAT
60705706 TGGTATGGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:60708759 original size:18 final size:18
Alignment explanation
Indices: 60708728--60708762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60708718 CAAAACTACG
**
60708728 GGCCCACATGCCCGTGTT
1 GGCCCACACACCCGTGTT
60708746 GGCCCACACACCCGTGT
1 GGCCCACACACCCGTGT
60708763 GACTCACACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
GGCCCACACACCCGTGTT
Found at i:60719776 original size:29 final size:29
Alignment explanation
Indices: 60719743--60719802 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60719733 CATCTAAGAC
60719743 AAATTACTTGGTACATCATTATTATGACT
1 AAATTACTTGGTACATCATTATTATGACT
60719772 AAATTACTTGGTACATCATTATTATGACT
1 AAATTACTTGGTACATCATTATTATGACT
60719801 AA
1 AA
60719803 CTTGTTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (29 bp):
AAATTACTTGGTACATCATTATTATGACT
Found at i:60725798 original size:43 final size:42
Alignment explanation
Indices: 60725707--60725811 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
60725697 ATGATTTATG
* * *
60725707 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
*
60725749 TATAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGATTACA
*
60725792 TGTAAGACCACGTTTGGGAC
1 TGTAAGACCACGTCTGGGAC
60725812 GTTGACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 26 0.48
43 26 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:60727020 original size:7 final size:7
Alignment explanation
Indices: 60727004--60727052 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
60726994 CGAATAATAA
60727004 TAAAATT
1 TAAAATT
*
60727011 TAATATT
1 TAAAATT
60727018 T--AA-T
1 TAAAATT
60727022 TAAAATT
1 TAAAATT
60727029 TAAAATT
1 TAAAATT
60727036 T-AAATT
1 TAAAATT
60727042 TAAAATAT
1 TAAAAT-T
60727050 TAA
1 TAA
60727053 TACTAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 8 0.23
7 20 0.57
8 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAAATT
Found at i:60727040 original size:13 final size:13
Alignment explanation
Indices: 60727004--60727052 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
60726994 CGAATAATAA
60727004 TAAAATTTAATATT
1 TAAAATTTAA-ATT
*
60727018 T--AATTAAAATT
1 TAAAATTTAAATT
60727029 TAAAATTTAAATT
1 TAAAATTTAAATT
60727042 TAAAATATTAA
1 TAAAAT-TTAA
60727053 TACTAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 4 0.13
12 6 0.20
13 15 0.50
14 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATTTAAATT
Found at i:60731543 original size:40 final size:40
Alignment explanation
Indices: 60731481--60731588 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
60731471 TGGAAAAAAA
60731481 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
60731521 TATGACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
60731561 TATAACCGGGTTAAGTCCCGAAGGCATT
1 TATAACCGGGTTAAGTCCCGAAGGCATT
60731589 TGTGTTGGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:60733571 original size:15 final size:15
Alignment explanation
Indices: 60733551--60733589 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
60733541 TATCATTTCA
60733551 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
60733566 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
60733582 ATAT-TAAT
1 ATATATAAT
60733590 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:60733594 original size:11 final size:11
Alignment explanation
Indices: 60733578--60733660 Score: 99
Period size: 10 Copynumber: 8.2 Consensus size: 11
60733568 ATATAAATTT
60733578 TAATATATTAA
1 TAATATATTAA
60733589 TAATAT-TT--
1 TAATATATTAA
60733597 TAATATATTAA
1 TAATATATTAA
60733608 TAATAT-TTAA
1 TAATATATTAA
60733618 TAATAT-TTAA
1 TAATATATTAA
*
60733628 TAATATATAAA
1 TAATATATTAA
60733639 T-A-ATATTAA
1 TAATATATTAA
*
60733648 TAATATAATAA
1 TAATATATTAA
60733659 TA
1 TA
60733661 TAGAAAGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
8 6 0.10
9 9 0.14
10 24 0.38
11 24 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATATATTAA
Found at i:60733598 original size:19 final size:19
Alignment explanation
Indices: 60733558--60733653 Score: 110
Period size: 19 Copynumber: 5.1 Consensus size: 19
60733548 TCAATATATA
*
60733558 ATTTAAATATA-T-ATAA-
1 ATTTTAATATATTAATAAT
60733574 ATTTTAATATATTAATAAT
1 ATTTTAATATATTAATAAT
60733593 ATTTTAATATATTAATAAT
1 ATTTTAATATATTAATAAT
60733612 A-TTTAATAATATTTAATAAT
1 ATTTTAAT-ATA-TTAATAAT
* *
60733632 ATATAAATAATATTAATAAT
1 ATTTTAAT-ATATTAATAAT
60733652 AT
1 AT
60733654 AATAATATAG
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
16 10 0.14
17 1 0.01
18 10 0.14
19 23 0.32
20 19 0.27
21 8 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTAATATATTAATAAT
Found at i:60735052 original size:31 final size:33
Alignment explanation
Indices: 60734988--60735094 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 33
60734978 GAACAGGCCT
*
60734988 TTAAATTAATAATTTATTTTAATTATACTTAAA
1 TTAAATTAATAATTTATTCTAATTATACTTAAA
* *
60735021 TTAAATTATTAATTT-TTCTATTTA-ACTTAAA
1 TTAAATTAATAATTTATTCTAATTATACTTAAA
** *
60735052 TTAAA-TAATAATAAATTCTAAATATAC-TAAA
1 TTAAATTAATAATTTATTCTAATTATACTTAAA
60735083 TATAAA-TAATAA
1 T-TAAATTAATAA
60735095 CTAAATAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 6 0.10
31 24 0.38
32 19 0.30
33 14 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.46
Consensus pattern (33 bp):
TTAAATTAATAATTTATTCTAATTATACTTAAA
Found at i:60735101 original size:11 final size:11
Alignment explanation
Indices: 60735085--60735142 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
60735075 ATACTAAATA
60735085 TAAATAATAAC
1 TAAATAATAAC
*
60735096 TAAATAATAAG
1 TAAATAATAAC
60735107 TAAATAGA-AATC
1 TAAATA-ATAA-C
60735119 T-AA-AAT--C
1 TAAATAATAAC
60735126 TAAATAATAAC
1 TAAATAATAAC
60735137 TAAATA
1 TAAATA
60735143 GAAATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 4 0.11
10 1 0.03
11 27 0.71
12 2 0.05
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:60735166 original size:3 final size:3
Alignment explanation
Indices: 60735158--60735255 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
60735148 AAATATATAT
*
60735158 ATA ATA AT- ATA TATA ATA ATA ATA TATA AAA ATA ATA TATAA ATA GATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA -AT-A ATA -ATA
60735207 ATA GATA ATA GATA AT- ATA ATA ATA GATCGA ATA ATA A-A ATAA ATA
1 ATA -ATA ATA -ATA ATA ATA ATA ATA -AT--A ATA ATA ATA AT-A ATA
60735253 ATA
1 ATA
60735256 TAGAAATATA
Statistics
Matches: 79, Mismatches: 2, Indels: 28
0.72 0.02 0.26
Matches are distributed among these distances:
2 6 0.08
3 45 0.57
4 24 0.30
5 3 0.04
6 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Done.