Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 202 of 210
Found at i:67309931 original size:29 final size:29
Alignment explanation
Indices: 67309899--67309979 Score: 153
Period size: 29 Copynumber: 2.8 Consensus size: 29
67309889 TTTCTCTTAG
*
67309899 GTTACATTTTAGTCATTTATGTTTGCAAT
1 GTTACATTTTAGTCATTTATGTTTGAAAT
67309928 GTTACATTTTAGTCATTTATGTTTGAAAT
1 GTTACATTTTAGTCATTTATGTTTGAAAT
67309957 GTTACATTTTAGTCATTTATGTT
1 GTTACATTTTAGTCATTTATGTT
67309980 AATGTGTTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.53
Consensus pattern (29 bp):
GTTACATTTTAGTCATTTATGTTTGAAAT
Found at i:67311166 original size:13 final size:13
Alignment explanation
Indices: 67311150--67311189 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
67311140 TTTAAACCAA
67311150 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
67311163 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
67311176 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
67311189 A
1 A
67311190 TTGCAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:67311487 original size:16 final size:16
Alignment explanation
Indices: 67311466--67311514 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
67311456 TTCACTGTTT
*
67311466 TGGAATAGAGGCGTAA
1 TGGAATAGAGGTGTAA
67311482 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
67311498 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
67311514 T
1 T
67311515 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.37, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:67311764 original size:16 final size:16
Alignment explanation
Indices: 67311727--67311768 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
67311717 TTAATCATAT
*
67311727 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
67311743 TT-AAATATATTATAA
1 TTAAAATATATTATAA
67311758 TTAAAATATAT
1 TTAAAATATAT
67311769 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:67311775 original size:14 final size:15
Alignment explanation
Indices: 67311736--67311777 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
67311726 TTTAAACATA
*
67311736 ATTATTATTAAATAT
1 ATTATAATTAAATAT
67311751 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
67311765 A-TATAATTTAATA
1 ATTATAATTAAATA
67311778 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:67312011 original size:131 final size:132
Alignment explanation
Indices: 67311712--67311993 Score: 311
Period size: 131 Copynumber: 2.2 Consensus size: 132
67311702 TCAATAATAA
* * *
67311712 ATAATTTAATCAT-ATT-TAAACATAAT-TATTATTAAATATATTATAATTAAAATATATAATTT
1 ATAATTTAA-CATAATTATTAACATAATCAATGATTAAATATATTATAATTAAAATATATAATTT
67311774 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATA
65 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATA
*
67311839 AAN
130 AAG
***************** * *
67311842 NNNNNNNNNNNNNNNNNTTAACATAATTAATTATTAAAT-TATTATAATTAAAATATATAATTTA
1 ATAATTTAACATAATTATTAACATAATCAATGATTAAATATATTATAATTAAAATATATAATTTA
67311906 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-A
67311971 AAG
130 AAG
67311974 ATAATTTAACATAATTATTA
1 ATAATTTAACATAATTATTA
67311994 GACAACTGCC
Statistics
Matches: 113, Mismatches: 35, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
131 97 0.86
132 16 0.14
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.40
Consensus pattern (132 bp):
ATAATTTAACATAATTATTAACATAATCAATGATTAAATATATTATAATTAAAATATATAATTTA
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
AG
Found at i:67315159 original size:20 final size:20
Alignment explanation
Indices: 67315134--67315171 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
67315124 AAGAAACAGA
*
67315134 TGGAGCAAATTGGCAGAAAC
1 TGGAGCAAATCGGCAGAAAC
67315154 TGGAGCAAATCGGCAGAA
1 TGGAGCAAATCGGCAGAA
67315172 GCAAAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.32, T:0.13
Consensus pattern (20 bp):
TGGAGCAAATCGGCAGAAAC
Found at i:67333007 original size:18 final size:16
Alignment explanation
Indices: 67332984--67333018 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
67332974 GTTTAAAATT
67332984 TTTAATTAATTAAATTTA
1 TTTAATTAA--AAATTTA
67333002 TTTAATTAAAAATTTA
1 TTTAATTAAAAATTTA
67333018 T
1 T
67333019 CCTCATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATTAAAAATTTA
Found at i:67348107 original size:34 final size:34
Alignment explanation
Indices: 67348064--67348136 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
67348054 CCATGATTGA
67348064 AATTATGTCTAGAAGCATTATTCCGATAATTCAC
1 AATTATGTCTAGAAGCATTATTCCGATAATTCAC
67348098 AATTATGTCTAGAAGCATTATTCCGATAATTCAC
1 AATTATGTCTAGAAGCATTATTCCGATAATTCAC
67348132 AATTA
1 AATTA
67348137 CTTAATCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (34 bp):
AATTATGTCTAGAAGCATTATTCCGATAATTCAC
Found at i:67350569 original size:5 final size:5
Alignment explanation
Indices: 67350559--67350587 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
67350549 TATTAAATAT
67350559 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
67350588 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:67352239 original size:3 final size:3
Alignment explanation
Indices: 67352231--67352269 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
67352221 AGAATATATT
67352231 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67352270 GAATTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67354537 original size:263 final size:263
Alignment explanation
Indices: 67354069--67354572 Score: 882
Period size: 263 Copynumber: 1.9 Consensus size: 263
67354059 CGAGACGACG
67354069 ATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTATCAGATTTTGATTT
1 ATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTATCAGATTTTGATTT
* *
67354134 AAAGACGTGGTCATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGCACCAATAAAACTATCCT
66 AAAGACGTGGTAATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGAACCAATAAAACTATCCT
* * *
67354199 TGTTGGTAAACTGATTACCAACGTCAAGTTCACCGAAATTTACCCCCGAACTTGTACGATCGCAC
131 TATTGGTAAACTGATTACCAACGTCAAGTTCACCGAAATCTACCCCAGAACTTGTACGATCGCAC
*
67354264 AACCGGTGTGGTAGATCTGGAAACTCTAACGCATCATCTGCTGACAGATCGACATTATGCATGTG
196 AACCGGTGTGGTAGATCTGGAAACTCTAACGCATCATCCGCTGACAGATCGACATTATGCATGTG
67354329 ACC
261 ACC
* * *
67354332 ATTTTCCATGAACATGTGTCGTCTTGCACCGCACACTTTGCCTCAAACTTATCAGATTTTGATTT
1 ATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTATCAGATTTTGATTT
* *
67354397 AACGACGTGGTAATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGAACCAATAAAACTATCTT
66 AAAGACGTGGTAATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGAACCAATAAAACTATCCT
*
67354462 TATTGGTAAACTGATTACCAACTTCAAGTTCACCGAAATCTACCCCAGAACTTGTACGATCGCAC
131 TATTGGTAAACTGATTACCAACGTCAAGTTCACCGAAATCTACCCCAGAACTTGTACGATCGCAC
* *
67354527 ATCTGGTGTGGTAGATCTGGAAACTCTAACGCATCATCCGCTGACA
196 AACCGGTGTGGTAGATCTGGAAACTCTAACGCATCATCCGCTGACA
67354573 TTCACCGGTT
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
263 227 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (263 bp):
ATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTATCAGATTTTGATTT
AAAGACGTGGTAATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGAACCAATAAAACTATCCT
TATTGGTAAACTGATTACCAACGTCAAGTTCACCGAAATCTACCCCAGAACTTGTACGATCGCAC
AACCGGTGTGGTAGATCTGGAAACTCTAACGCATCATCCGCTGACAGATCGACATTATGCATGTG
ACC
Found at i:67355857 original size:124 final size:126
Alignment explanation
Indices: 67355635--67355911 Score: 470
Period size: 124 Copynumber: 2.2 Consensus size: 126
67355625 CCACGAGGGC
* *
67355635 GCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAATTTTATTTCTTACATGACCAACTATAG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATGTTATTTCTTACATGACCAACTATAG
* *
67355700 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGTTAGAA
66 CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* *
67355761 GCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAA-GTTATTTCTTACATGACTAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATGTTATTTCTTACATGACCAACTATAG
67355824 CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
67355885 GCGATTTTATACTATTTGAC-CAGAAAC
1 GCGATTTTATACTATTTG-CTCAGAAAC
67355912 ACCAACTCGA
Statistics
Matches: 144, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
124 107 0.74
125 8 0.06
126 29 0.20
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATGTTATTTCTTACATGACCAACTATAG
CGAAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:67362045 original size:24 final size:24
Alignment explanation
Indices: 67362017--67362068 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
67362007 TTTCTAGACG
* *
67362017 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
67362041 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
67362065 ATTT
1 ATTT
67362069 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:67366673 original size:33 final size:34
Alignment explanation
Indices: 67366636--67366708 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
67366626 ATGTATACTT
* *
67366636 AAATAACATTAAGATAGCT-AC-AAATTAACAATC
1 AAATAACATTAAAATAG-TAACAAAATTAACAATA
* *
67366669 AAATACCTTTAAAATAGTAACAAAATTAACAATA
1 AAATAACATTAAAATAGTAACAAAATTAACAATA
67366703 AAATAA
1 AAATAA
67366709 GATTTATACA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 1 0.03
33 16 0.48
34 16 0.48
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (34 bp):
AAATAACATTAAAATAGTAACAAAATTAACAATA
Found at i:67366840 original size:33 final size:34
Alignment explanation
Indices: 67366803--67366875 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
67366793 ATGTATACTT
* *
67366803 AAATAACATTAAGATAGCT-AC-AAATTAACAATC
1 AAATAACATTAAAATAG-TAACAAAATTAACAATA
* *
67366836 AAATACCTTTAAAATAGTAACAAAATTAACAATA
1 AAATAACATTAAAATAGTAACAAAATTAACAATA
67366870 AAATAA
1 AAATAA
67366876 GATTTATACA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 1 0.03
33 16 0.48
34 16 0.48
ACGTcount: A:0.59, C:0.12, G:0.04, T:0.25
Consensus pattern (34 bp):
AAATAACATTAAAATAGTAACAAAATTAACAATA
Found at i:67366863 original size:167 final size:168
Alignment explanation
Indices: 67366575--67366913 Score: 671
Period size: 167 Copynumber: 2.0 Consensus size: 168
67366565 AAATACTAAA
67366575 AATATTAAAATAAATATTTCCCAACCAATTAAAAATAAATTTAAAAAACATATGTATACTTAAAT
1 AATATTAAAATAAATATTTCCCAACCAATTAAAAATAAATTTAAAAAACATATGTATACTTAAAT
67366640 AACATTAAGATAGCTACAAATTAACAATCAAATACCTTTAAAATAGTAACAAAATTAACAATAAA
66 AACATTAAGATAGCTACAAATTAACAATCAAATACCTTTAAAATAGTAACAAAATTAACAATAAA
67366705 ATAAGATTTATACAATAACAATAAAATAGTAGCAATAT
131 ATAAGATTTATACAATAACAATAAAATAGTAGCAATAT
67366743 AATATTAAAAT-AATATTTCCCAACCAATTAAAAATAAATTTAAAAAACATATGTATACTTAAAT
1 AATATTAAAATAAATATTTCCCAACCAATTAAAAATAAATTTAAAAAACATATGTATACTTAAAT
67366807 AACATTAAGATAGCTACAAATTAACAATCAAATACCTTTAAAATAGTAACAAAATTAACAATAAA
66 AACATTAAGATAGCTACAAATTAACAATCAAATACCTTTAAAATAGTAACAAAATTAACAATAAA
67366872 ATAAGATTTATACAATAACAATAAAATAGTAGCAATAT
131 ATAAGATTTATACAATAACAATAAAATAGTAGCAATAT
67366910 AATA
1 AATA
67366914 GTGAAATGGT
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 160 0.94
168 11 0.06
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (168 bp):
AATATTAAAATAAATATTTCCCAACCAATTAAAAATAAATTTAAAAAACATATGTATACTTAAAT
AACATTAAGATAGCTACAAATTAACAATCAAATACCTTTAAAATAGTAACAAAATTAACAATAAA
ATAAGATTTATACAATAACAATAAAATAGTAGCAATAT
Found at i:67374584 original size:13 final size:13
Alignment explanation
Indices: 67374563--67374593 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
67374553 TGACACCTAA
67374563 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
*
67374576 TTTTTTTTTTCTT
1 TTTTCTTTTTCTT
67374589 TTTTC
1 TTTTC
67374594 CCTTAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:67383786 original size:114 final size:108
Alignment explanation
Indices: 67383624--67383901 Score: 443
Period size: 114 Copynumber: 2.5 Consensus size: 108
67383614 TACGAAAAAG
* *
67383624 AAAAAAA-CAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGTAC
1 AAAAAAATTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
67383688 AAAAAAAA-TTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATAAGA
66 AAAAAAAATTTTA-TTTTTTT-GTGTCAGAATCAGATAAAAAAT---A
67383735 AAAAAAATTTTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 AAAAAAA--TTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
*
67383800 ACAAAAAAAATTTTATTTTTTTGTGTCAGAATCAGATAAAAAATT
64 ACAAAAAAAATTTTATTTTTTTGTGTCAGAATCAGATAAAAAATA
*
67383845 AAAAAAATTAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
1 AAAAAAATTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
67383902 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 4, Indels: 11
0.91 0.02 0.06
Matches are distributed among these distances:
108 49 0.31
110 7 0.04
111 7 0.04
113 22 0.14
114 70 0.44
115 4 0.03
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (108 bp):
AAAAAAATTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
AAAAAAAATTTTATTTTTTTGTGTCAGAATCAGATAAAAAATA
Found at i:67384275 original size:114 final size:111
Alignment explanation
Indices: 67384035--67384275 Score: 308
Period size: 114 Copynumber: 2.1 Consensus size: 111
67384025 NNNNNNATAA
*
67384035 TTTTTTTCGTTTTTTATCTGATTCTGACACGAAAAAAAAATAATAAAAAAATTTTTGTACTGTGT
1 TTTTTTTCTTTTTTTATCTGATTCTGACACGAAAAAAAAATAAT-AAAAAATTTTTGTACTGTGT
67384100 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAT
65 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAT
* ***** *
67384147 TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAATAA-AAT-TTTTTTTTTCGTGTATT
1 TTTTTT--TCTTTTTTTATCTGATTCTGACACGAAAAAAA-AATAATAAAAAATTTT--TGTACT
67384210 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAATTTTTTTTT-T
61 GTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCC-AAAATTTTTTTTTAT
67384262 GTTTTTTTCTTTTT
1 -TTTTTTTCTTTTT
67384276 CGTATATCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
112 10 0.09
114 77 0.69
115 6 0.05
116 19 0.17
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (111 bp):
TTTTTTTCTTTTTTTATCTGATTCTGACACGAAAAAAAAATAATAAAAAATTTTTGTACTGTGTA
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAT
Found at i:67389111 original size:21 final size:21
Alignment explanation
Indices: 67389069--67389111 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
67389059 TGTAATCTTT
*
67389069 ACAGAGAACAAAGGAATACAA
1 ACAGAGAACAAAGCAATACAA
*
67389090 ACAGAGAACGAAATCAAT-CAA
1 ACAGAGAAC-AAAGCAATACAA
67389111 A
1 A
67389112 GTATCAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.07
Consensus pattern (21 bp):
ACAGAGAACAAAGCAATACAA
Found at i:67400000 original size:17 final size:18
Alignment explanation
Indices: 67399967--67400012 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
67399957 TATACATTCT
67399967 TTTTAATTATATAT-AAA
1 TTTTAATTATATATAAAA
*
67399984 TTTTAATTCA-ATGTAAAA
1 TTTTAATT-ATATATAAAA
67400002 TTTTACATTAT
1 TTTTA-ATTAT
67400013 CGAGGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 11 0.46
18 10 0.42
19 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTAATTATATATAAAA
Found at i:67401788 original size:75 final size:75
Alignment explanation
Indices: 67401662--67401817 Score: 258
Period size: 75 Copynumber: 2.1 Consensus size: 75
67401652 CCTTTAAGGG
* * *
67401662 CATGAATCCGAATCCCGCTAAGGCAAAAATGATAAAACATTTCCCTGGAGGACCTTAGGTGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
* *
67401727 CGATAAACTC
66 CAAGAAACTC
*
67401737 CATGAATCTGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
1 CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
67401802 CAAGAAACTC
66 CAAGAAACTC
67401812 CATGAA
1 CATGAA
67401818 CCCCTTTGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (75 bp):
CATGAATCCGAATCCCACTAAGGCAAAAATGATAAAACATTTCCCTAGAGGACCTTAGGCGCTCC
CAAGAAACTC
Found at i:67402125 original size:16 final size:16
Alignment explanation
Indices: 67402104--67402169 Score: 123
Period size: 16 Copynumber: 4.1 Consensus size: 16
67402094 TGGTTCGCTA
67402104 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
*
67402120 TATTGGATTAAAGGTG
1 TATTGGATTAGAGGTG
67402136 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
67402152 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
67402168 TA
1 TA
67402170 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:67410247 original size:32 final size:31
Alignment explanation
Indices: 67410200--67410277 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
67410190 AAAAATTTAG
67410200 AAAATATATATAAAAACATAAATATTTATAAA
1 AAAATATATATAAAAACATAAAT-TTTATAAA
**
67410232 AAAATATA-ATAAAAA-ATTTAAATTTTATATT
1 AAAATATATATAAAAACA--TAAATTTTATAAA
*
67410263 AATAT-TATATAAAAA
1 AAAATATATATAAAAA
67410278 AATCCCCACC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 3 0.08
31 24 0.60
32 13 0.32
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATATATATAAAAACATAAATTTTATAAA
Found at i:67411623 original size:9 final size:9
Alignment explanation
Indices: 67411596--67411632 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
67411586 TGAGTTTTCG
67411596 AATTCGAAT
1 AATTCGAAT
* *
67411605 AACTCAAAT
1 AATTCGAAT
67411614 AATTCGAAT
1 AATTCGAAT
67411623 AATTCGAAT
1 AATTCGAAT
67411632 A
1 A
67411633 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:67418940 original size:12 final size:12
Alignment explanation
Indices: 67418906--67418940 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
67418896 CGGACAGTAT
67418906 TAATTTTTTATA
1 TAATTTTTTATA
*
67418918 TTATTTGTTTATA
1 TAATTT-TTTATA
67418931 TAATTTTTTA
1 TAATTTTTTA
67418941 AAATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:67418982 original size:8 final size:9
Alignment explanation
Indices: 67418956--67418980 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67418946 TATATAATAC
67418956 ATTAAAAAT
1 ATTAAAAAT
67418965 ATTAAAAAT
1 ATTAAAAAT
67418974 ATTAAAA
1 ATTAAAA
67418981 TAAATATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:67419103 original size:19 final size:17
Alignment explanation
Indices: 67419069--67419104 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
67419059 CTAAAATAGT
67419069 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
67419086 AACAAGAATTATACAATAA
1 AACAA-AATTA-ACAATAA
67419105 CAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:67422813 original size:24 final size:24
Alignment explanation
Indices: 67422744--67422814 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
67422734 ATTTGGGAAT
* *
67422744 GGTGGAGGATATGGCGACGGTGAC
1 GGTGGTGGATATGGCGACGGTGGC
* *
67422768 GGAGGTGGATATGGCGGCGGTGGC
1 GGTGGTGGATATGGCGACGGTGGC
* *
67422792 GGTGGTGGATATGGTGATGGTGG
1 GGTGGTGGATATGGCGACGGTGG
67422815 GTCTCGTTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.15, C:0.08, G:0.55, T:0.21
Consensus pattern (24 bp):
GGTGGTGGATATGGCGACGGTGGC
Found at i:67425312 original size:72 final size:75
Alignment explanation
Indices: 67425236--67425383 Score: 212
Period size: 76 Copynumber: 2.0 Consensus size: 75
67425226 TATTTTCTAA
* * *
67425236 TTTTTTATAGTTTTGCA-CT-TGT-TTAGAATGAAATGGACAAATGTATATCCAGATTCAAATAT
1 TTTTTTATAGTTTTACACCTATGTATTAGAATGAAATGAACAAATGTATATCCAGATCCAAATAT
67425298 TATTTAATAT
66 TATTTAATAT
* * *
67425308 TTTTTTATAGTTTTACACCTATTTAATTAGAATGAAATGAAGAAATGTGTATCCAGATCCAAATA
1 TTTTTTATAGTTTTACACCTATGT-ATTAGAATGAAATGAACAAATGTATATCCAGATCCAAATA
67425373 TTATTTAATAT
65 TTATTTAATAT
67425384 ATTTGTATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
72 16 0.24
73 2 0.03
74 2 0.03
76 46 0.70
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (75 bp):
TTTTTTATAGTTTTACACCTATGTATTAGAATGAAATGAACAAATGTATATCCAGATCCAAATAT
TATTTAATAT
Found at i:67427171 original size:18 final size:17
Alignment explanation
Indices: 67427148--67427186 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
67427138 TAATAAAAAC
67427148 AAACAAAGAAAAAATATA
1 AAACAAA-AAAAAATATA
*
67427166 AAAC-AATAAAAATATA
1 AAACAAAAAAAAATATA
67427182 AAACA
1 AAACA
67427187 TATACATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (17 bp):
AAACAAAAAAAAATATA
Found at i:67428137 original size:19 final size:17
Alignment explanation
Indices: 67428103--67428142 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
67428093 AATAAACAAA
*
67428103 AAAATAAATAAATAAAT
1 AAAATAAAGAAATAAAT
67428120 AAAATAGAAGAAAGTAAAT
1 AAAATA-AAGAAA-TAAAT
67428139 AAAA
1 AAAA
67428143 AACGCAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAATAAAGAAATAAAT
Found at i:67428987 original size:44 final size:44
Alignment explanation
Indices: 67428939--67429703 Score: 356
Period size: 44 Copynumber: 17.8 Consensus size: 44
67428929 ATGTGGTTTT
* * * *
67428939 AATCTGCTCCGCTGCAA-CTTTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * *
67428983 AATCTACTCTGCTATAATCTCAGGGAGATAAGATTACTATCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * *
67429027 AATCTGTTCTGCTGTAATCTCAGGGAGATAAGATTACTATCTTT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * *
67429071 GATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGCAATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTA-TCTTC
** * * *
67429117 GGTCTGCTCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* ** ** *
67429158 GATCCACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C-AT-TT-
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * * * *
67429197 AATCCGTTCCACTATAATCTCAAGGAGATAGGATTACTATCTTT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * *
67429241 GATCTGTTCCGCTGTAATCTCTGGGAGATAAGATCT-GTAATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACT-A-TCTTC
** * * * *
67429287 GGTCTGCTCCACTGTAATCTCAAGGAGATAAGA--CCTGA--TAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* * ** * *
67429328 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * *
67429367 AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * * *
67429411 GATCTGTTCCGCTGTAATCTCTGGGAGATAAGATCTGCAATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTA-TCTTC
** * * * *
67429457 GGTCTGCTCCACTGTAATCTCAAGGAGATAAGA--CCTGA--TAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* * ** * *
67429498 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * *
67429537 AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATATTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* **
67429581 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * * *
67429625 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGA-TATTTTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * *
67429671 GGTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
67429704 CCTGTATAAT
Statistics
Matches: 556, Mismatches: 123, Indels: 82
0.73 0.16 0.11
Matches are distributed among these distances:
39 74 0.13
40 10 0.02
41 90 0.16
42 2 0.00
43 4 0.01
44 236 0.42
45 11 0.02
46 129 0.23
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
Found at i:67429234 original size:170 final size:170
Alignment explanation
Indices: 67429038--67429664 Score: 1044
Period size: 170 Copynumber: 3.7 Consensus size: 170
67429028 ATCTGTTCTG
* * *
67429038 CTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAA
1 CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
* *
67429103 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCT
66 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
* *
67429168 ACTGTAACTTCAGAGAGATAAGATCATTTAATCCGTTCCA
131 ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
* * *
67429208 CTATAATCTCAAGGAGATAGGATTACTATCTTTGATCTGTTCCGCTGTAATCTCTGGGAGATAAG
1 CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
*
67429273 ATCTGTAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
66 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
67429338 ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
131 ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
* *
67429378 CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGTTCCGCTGTAATCTCTGGGAGATAAG
1 CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
67429443 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
66 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
67429508 ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
131 ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
* *
67429548 CTGTAATCTCAAGGAGATAGGATTACTATATTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
1 CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
* ** * *
67429613 ATCT-C--TGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGATA
66 ATCTGCAAT-TCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATA
67429665 TTTTTCGGTC
Statistics
Matches: 434, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
167 1 0.00
168 40 0.09
169 1 0.00
170 392 0.90
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (170 bp):
CTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAG
ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCT
ACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCA
Found at i:67429431 original size:214 final size:211
Alignment explanation
Indices: 67428881--67429489 Score: 534
Period size: 214 Copynumber: 2.8 Consensus size: 211
67428871 CATTAGGGAT
* ** *
67428881 ATAAGGCCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATATGTGGTTTTAATCTGC
1 ATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAG--A--T-CCTTTAATCCGC
* * * * * ** *
67428946 TCCGCTGCAACTTTAGGGAGATAGGATTACTAGCTTCAATCTACTCTGCTATAATCTCAGGGAGA
61 TCCACTGTAACTTCAAGGAGATAGGATTACTA-CTTTAATCTGTTCCGCTATAATCTCAGGGAGA
* * *
67429011 TAAGATTACTATCTTCAATCTGTTCTGCTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCT
125 TAAGATTACTATCTTCAATCTGTTCCGCTGTAATCTCAGGGAGATAAGATTAATATCTTCGATCT
* *
67429076 GCTCCGCTGTAATCTCAGGGAG
190 GCTCCACTGTAATCTCAAGGAG
* * * * * * * *
67429098 ATAAAATCTGCAATTCTTCGGTCTGCTCCACTGTAA-TCTCAGGGAGATAAGA-CCTGATACGAT
1 ATAAGACCTG--A---TACGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTA--AT
* * * * * *
67429161 CCACTCTACTGTAACTTC-AGAGAGATAAGA-T-C-A-TTTAATCCGTTCCACTATAATCTCAAG
57 CCGCTCCACTGTAACTTCAAG-GAGATAGGATTACTACTTTAATCTGTTCCGCTATAATCTCAGG
* ** *
67429221 GAGATAGGATTACTATCTTTGATCTGTTCCGCTGTAATCTCTGGGAGATAAGATCTGTAAT-TCT
121 GAGATAAGATTACTATCTTCAATCTGTTCCGCTGTAATCTCAGGGAGATAAGA--T-TAATATCT
*
67429285 TCGGTCTGCTCCACTGTAATCTCAAGGAG
183 TCGATCTGCTCCACTGTAATCTCAAGGAG
67429314 ATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCAC
1 ATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCAC
* * *
67429379 TGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGTTCCGCTGTAATCTCTGGGAGATAAG
66 TGTAACT-TCAAGGAGATAGGATTACTA-CTTTAATCTGTTCCGCTATAATCTCAGGGAGATAAG
* * ** * * *
67429443 ATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAAGGAGATAAGA
129 AT-TACTA-TCTTCAATCTGTTCCGCTGTAATCTCAGGGAGATAAGA
67429490 CCTGATACGA
Statistics
Matches: 306, Mismatches: 62, Indels: 49
0.73 0.15 0.12
Matches are distributed among these distances:
208 1 0.00
209 24 0.08
210 3 0.01
211 32 0.10
212 5 0.02
214 99 0.32
215 3 0.01
216 71 0.23
217 13 0.04
218 2 0.01
219 23 0.08
220 1 0.00
221 1 0.00
222 28 0.09
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (211 bp):
ATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCAC
TGTAACTTCAAGGAGATAGGATTACTACTTTAATCTGTTCCGCTATAATCTCAGGGAGATAAGAT
TACTATCTTCAATCTGTTCCGCTGTAATCTCAGGGAGATAAGATTAATATCTTCGATCTGCTCCA
CTGTAATCTCAAGGAG
Found at i:67442409 original size:25 final size:20
Alignment explanation
Indices: 67442361--67442398 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
67442351 AAAAAGTTAT
67442361 AGAAAATAAACAAAAAAGGA
1 AGAAAATAAACAAAAAAGGA
67442381 AGAAAATAAACAAAAAAG
1 AGAAAATAAACAAAAAAG
67442399 AAACGCAAGA
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:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (20 bp):
AGAAAATAAACAAAAAAGGA
Found at i:67443870 original size:21 final size:20
Alignment explanation
Indices: 67443822--67443882 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
67443812 GAACCCCAAA
* *
67443822 CCTAAACCCTAAATGTTGAAT
1 CCTAAACCCTAAATCTTG-AG
*
67443843 CCCAAACCCTAAATCTTGAG
1 CCTAAACCCTAAATCTTGAG
*
67443863 CCTTAAACCTTAAATCTTGA
1 CC-TAAACCCTAAATCTTGA
67443883 ACTTAAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (20 bp):
CCTAAACCCTAAATCTTGAG
Found at i:67446928 original size:19 final size:21
Alignment explanation
Indices: 67446900--67446948 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
67446890 GGATTTTTAC
*
67446900 TAAAATAATA-CAAAAGAA-A
1 TAAAAAAATACCAAAAGAATA
*
67446919 TAAAAAAATACCAAAATAATA
1 TAAAAAAATACCAAAAGAATA
67446940 TATAAAAAA
1 TA-AAAAAA
67446949 ATTATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 7 0.28
21 3 0.12
22 6 0.24
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (21 bp):
TAAAAAAATACCAAAAGAATA
Found at i:67452788 original size:16 final size:16
Alignment explanation
Indices: 67452764--67452802 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
67452754 TAGATGTATT
67452764 CATTAGAAAAATGATA
1 CATTAGAAAAATGATA
*
67452780 CATTGGAAAAATGATA
1 CATTAGAAAAATGATA
*
67452796 AATTAGA
1 CATTAGA
67452803 CTGGACCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (16 bp):
CATTAGAAAAATGATA
Found at i:67452942 original size:51 final size:51
Alignment explanation
Indices: 67452887--67452989 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
67452877 TAAATCCTGA
67452887 GTTAGTCATTAACCATGCATATGTAACTCATGTGCTTTTATATAAGTGGAG
1 GTTAGTCATTAACCATGCATATGTAACTCATGTGCTTTTATATAAGTGGAG
*
67452938 GTTAGTCATTAACTATGCATATGTAACTCATGTGCTTTTATATAAGTGGAG
1 GTTAGTCATTAACCATGCATATGTAACTCATGTGCTTTTATATAAGTGGAG
67452989 G
1 G
67452990 CTTATGCTCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (51 bp):
GTTAGTCATTAACCATGCATATGTAACTCATGTGCTTTTATATAAGTGGAG
Found at i:67454197 original size:25 final size:25
Alignment explanation
Indices: 67454123--67454209 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 25
67454113 ACAATATTAT
*
67454123 TTTTA-TAGATTTAATATTAAATTTA
1 TTTTATTA-ATTTAATATTAAAGTTA
* * * *
67454148 ATTTAAT-ACTT-ATCTTAATAG-TA
1 TTTTATTAATTTAATATTAA-AGTTA
67454171 TTTTATTAATTTAATATTAAAGTTA
1 TTTTATTAATTTAATATTAAAGTTA
* *
67454196 TTATATTAAATTAA
1 TTTTATTAATTTAA
67454210 ATTTAATATG
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
23 13 0.28
24 9 0.19
25 24 0.51
26 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTTATTAATTTAATATTAAAGTTA
Found at i:67454213 original size:62 final size:63
Alignment explanation
Indices: 67454136--67454254 Score: 179
Period size: 62 Copynumber: 1.9 Consensus size: 63
67454126 TATAGATTTA
* * * *
67454136 ATATTAAATTTAATTTAATACT-TATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTTATT
1 ATATTAAATTAAATTTAATA-TGGATCTTAATAAGTATTATATTAATTGAATATTAAAGTTATT
67454198 ATATTAAATTAAATTTAATATGGATCTTAATAAGTATTATATTAATTGAATATTAAA
1 ATATTAAATTAAATTTAATATGGATCTTAATAAGTATTATATTAATTGAATATTAAA
67454255 ATGATTAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 1 0.02
62 27 0.53
63 23 0.45
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (63 bp):
ATATTAAATTAAATTTAATATGGATCTTAATAAGTATTATATTAATTGAATATTAAAGTTATT
Found at i:67455363 original size:43 final size:43
Alignment explanation
Indices: 67455273--67455534 Score: 219
Period size: 43 Copynumber: 6.1 Consensus size: 43
67455263 TTATGTGGAA
* * * *
67455273 AAACGCCAG-TATAGAACATGATC-TTTAGTGACG-TTTCTCACAA
1 AAACGCC-GCTATAGAACATGA-CATTTAGCGGCGCTTT-TCCCAC
* *
67455316 AAACGCCTCTATAGAACATGGCATTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCCAC
* * * *
67455359 AAACGCTGTTATAGAACATGACCTCTAGCGGCGC-TTTCCCTAC
1 AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCC-AC
* **
67455402 AAACGCCGCTATAGGACATGACATTTAGCGATG-TTTTCCCTAC
1 AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCC-AC
** * * * * *
67455445 AAACGTAGCTAAAGAACATGACTTTTAGCAGCTCTTTTACCAC
1 AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCCAC
* * ** *
67455488 AAATGCCGCTATAGAACATGACCTTTAATGGCGCTTTTCCCAA
1 AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCCAC
67455531 AAAC
1 AAAC
67455535 ACCGTTAAAA
Statistics
Matches: 172, Mismatches: 41, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
42 7 0.04
43 156 0.91
44 9 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACATTTAGCGGCGCTTTTCCCAC
Found at i:67464053 original size:22 final size:22
Alignment explanation
Indices: 67464028--67464070 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
67464018 TAGCTTTTTC
67464028 TAAAA-TATATACTTTATTAATG
1 TAAAATTATATA-TTTATTAATG
67464050 TAAAATTTATATATTTATTAA
1 TAAAA-TTATATATTTATTAA
67464071 ATTTTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAAATTATATATTTATTAATG
Found at i:67464855 original size:19 final size:18
Alignment explanation
Indices: 67464822--67464864 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
67464812 AAGGATTATA
*
67464822 TAAAAGTTTTCAAAAAAT
1 TAAAATTTTTCAAAAAAT
* *
67464840 TATAAATTTTTTAAAATAT
1 TA-AAATTTTTCAAAAAAT
67464859 TAAAAT
1 TAAAAT
67464865 ATCTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAATTTTTCAAAAAAT
Found at i:67464893 original size:21 final size:22
Alignment explanation
Indices: 67464855--67464895 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67464845 ATTTTTTAAA
* *
67464855 ATATTAAAATATCTTAAAATTT
1 ATATAAAAATAACTTAAAATTT
67464877 ATATAAAAATAAC-TAAAAT
1 ATATAAAAATAACTTAAAAT
67464896 GAAAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAAAAATAACTTAAAATTT
Found at i:67465366 original size:20 final size:17
Alignment explanation
Indices: 67465329--67465368 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
67465319 TTATTAAAAT
67465329 ATTATAAAAATTTGAAA
1 ATTATAAAAATTTGAAA
67465346 ATTATAGAAAATCTATGAAA
1 ATTATA-AAAAT-T-TGAAA
67465366 ATT
1 ATT
67465369 GTTAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 1 0.05
20 8 0.40
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (17 bp):
ATTATAAAAATTTGAAA
Found at i:67465455 original size:19 final size:20
Alignment explanation
Indices: 67465408--67465455 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
67465398 AAAAAATAGT
*
67465408 AAATGTTATAAAATATTATTA
1 AAATGTTATAAAATA-TATGA
* *
67465429 ATATGTTATGAAATA-ATGA
1 AAATGTTATAAAATATATGA
67465448 AAATGTTA
1 AAATGTTA
67465456 AATAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
21 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATGTTATAAAATATATGA
Found at i:67465519 original size:20 final size:20
Alignment explanation
Indices: 67465486--67465523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67465476 GAAATTATAG
* *
67465486 AAAATTATATAAAAATAATT
1 AAAATGATAAAAAAATAATT
67465506 AAAATGATAAAAAAATAA
1 AAAATGATAAAAAAATAA
67465524 AAAAAAAAGT
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:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATGATAAAAAAATAATT
Found at i:67465529 original size:20 final size:20
Alignment explanation
Indices: 67465486--67465529 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
67465476 GAAATTATAG
* * **
67465486 AAAATTATATAAAAATAATT
1 AAAATGATAAAAAAATAAAA
67465506 AAAATGATAAAAAAATAAAA
1 AAAATGATAAAAAAATAAAA
67465526 AAAA
1 AAAA
67465530 AAGTTATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAATGATAAAAAAATAAAA
Found at i:67481230 original size:24 final size:23
Alignment explanation
Indices: 67481202--67481253 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
67481192 AGTATAACAT
67481202 TTTTTTTATAAATAAAAATATTAA
1 TTTTTTTATAAATAAAAATATT-A
*
67481226 TTTTTTTATAAATAACAATATTA
1 TTTTTTTATAAATAAAAATATTA
67481249 TTTTT
1 TTTTT
67481254 ATAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTTTATAAATAAAAATATTA
Found at i:67481264 original size:24 final size:25
Alignment explanation
Indices: 67481204--67481266 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
67481194 TATAACATTT
67481204 TTTTTATAA-ATA-AA-AATATTAA
1 TTTTTATAATATATAACAATATTAA
* *
67481226 TTTTT-TTATAAATAACAATATT-A
1 TTTTTATAATATATAACAATATTAA
67481249 TTTTTATAATATATAACA
1 TTTTTATAATATATAACA
67481267 TTGATACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 7 0.21
23 8 0.24
24 16 0.48
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
TTTTTATAATATATAACAATATTAA
Found at i:67481947 original size:18 final size:20
Alignment explanation
Indices: 67481925--67481966 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
67481915 CAATTCTTAA
67481925 AAATTTA-AAT-AAATATTT
1 AAATTTAGAATGAAATATTT
*
67481943 TAA-TTAGAATGAAATATTT
1 AAATTTAGAATGAAATATTT
67481962 AAATT
1 AAATT
67481967 AACTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 3 0.16
18 5 0.26
19 10 0.53
20 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
AAATTTAGAATGAAATATTT
Found at i:67483556 original size:15 final size:15
Alignment explanation
Indices: 67483516--67483563 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
67483506 CACTACTTAA
67483516 TATTTATAAAAGAAT
1 TATTTATAAAAGAAT
* * *
67483531 T-TCTACCAAAAAAAT
1 TATTTA-TAAAAGAAT
67483546 TATTTATAAAAGAAT
1 TATTTATAAAAGAAT
67483561 TAT
1 TAT
67483564 AATTACTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (15 bp):
TATTTATAAAAGAAT
Found at i:67485040 original size:19 final size:19
Alignment explanation
Indices: 67485012--67485048 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67485002 CGCATATTTG
67485012 ATTATCTAATTTAATTTTA
1 ATTATCTAATTTAATTTTA
* *
67485031 ATTATTTAATTTTATTTT
1 ATTATCTAATTTAATTTT
67485049 TGCATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATCTAATTTAATTTTA
Found at i:67488555 original size:41 final size:41
Alignment explanation
Indices: 67488498--67488575 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
67488488 NNTAATACAT
*
67488498 TTCACCGGCACAAAGCCTGCTAGACATAAAGTCTGAATTAA
1 TTCACCGGCACAAAGCCTGCTAGACATAAAGCCTGAATTAA
* *
67488539 TTCACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAA
1 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGCCTGAA
67488576 AATCTCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
TTCACCGGCACAAAGCCTGCTAGACATAAAGCCTGAATTAA
Found at i:67488783 original size:64 final size:64
Alignment explanation
Indices: 67488662--67488783 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
67488652 TCGAACCATA
* * * *
67488662 CACATATGTCTGTAAAATTCATAAATTGAATTCAGCTCAAGAACTTTATAACCTATATTTGAAT
1 CACATATGTATATAAAATTCATAAATTGAATTCAGCTCAAGAACTTTAAAACATATATTTGAAT
* * *
67488726 CACATATGTATATAAAATTCGTACATT-AATTTCAGCTCAAGAACTTTAAAATATATAT
1 CACATATGTATATAAAATTCATAAATTGAA-TTCAGCTCAAGAACTTTAAAACATATAT
67488784 ATATTCAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.04
64 48 0.96
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (64 bp):
CACATATGTATATAAAATTCATAAATTGAATTCAGCTCAAGAACTTTAAAACATATATTTGAAT
Found at i:67488926 original size:58 final size:61
Alignment explanation
Indices: 67488812--67488937 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
67488802 TGTGTATATA
* * * **
67488812 TATATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTC-AAC
1 TATATATATATAATTCATAATATTAAGATCAACTCAAAGAAATTAAATCATACATTCGAAC
* *
67488872 TATATATATATAATTCATAACT-TTAA-ATCAACTC-ATGAAATTAAATCTTACATTCGAAC
1 TATATATATATAATTCATAA-TATTAAGATCAACTCAAAGAAATTAAATCATACATTCGAAC
*
67488931 TACATAT
1 TATATAT
67488938 CCATGTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 16 0.29
59 16 0.29
60 23 0.41
61 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (61 bp):
TATATATATATAATTCATAATATTAAGATCAACTCAAAGAAATTAAATCATACATTCGAAC
Found at i:67502990 original size:168 final size:169
Alignment explanation
Indices: 67502701--67503037 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 169
67502691 ATTTTATATT
67502701 AAATTACTTTATATTTATCAGATAAAAATATTAAAAATAATCATATTACTTTTGTTTTAATTAGC
1 AAATTACTTTATATTTATCAGATAAAAATATTAAAAATAATCATATTACTTTTGTTTTAATTAGC
67502766 AAATTCTAATTTACCAAAATAGTTTAAAAGACTAATCAGATAATGGTCTGCTACCCTAGCACGCT
66 AAATTCTAATTTACCAAAATAGTTTAAAAGACTAATCAGATAATGGTCTGCTACCCTAGCACGCT
67502831 ATTGTCTGTCTTCTCTGGCAAGGTTTTAGGTTTTTTTTG
131 ATTGTCTGTCTTCTCTGGCAAGGTTTTAGGTTTTTTTTG
67502870 AAATTACTTT-TATTTATCAGATAAAAATATTAAAAATAATCATATTACTTTTGTTTTAATTAGC
1 AAATTACTTTATATTTATCAGATAAAAATATTAAAAATAATCATATTACTTTTGTTTTAATTAGC
67502934 AAATTCTAATTTACCAAAATAGTTTAAAAGACTAATCAGATAATGGTCTGCTACCCTAGCACGCT
66 AAATTCTAATTTACCAAAATAGTTTAAAAGACTAATCAGATAATGGTCTGCTACCCTAGCACGCT
67502999 ATTGTCTGTCTTCTCTGGCAAGGTTTTAGGTTTTTTTTG
131 ATTGTCTGTCTTCTCTGGCAAGGTTTTAGGTTTTTTTTG
67503038 TTTACTGTGG
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 158 0.94
169 10 0.06
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (169 bp):
AAATTACTTTATATTTATCAGATAAAAATATTAAAAATAATCATATTACTTTTGTTTTAATTAGC
AAATTCTAATTTACCAAAATAGTTTAAAAGACTAATCAGATAATGGTCTGCTACCCTAGCACGCT
ATTGTCTGTCTTCTCTGGCAAGGTTTTAGGTTTTTTTTG
Found at i:67506187 original size:26 final size:26
Alignment explanation
Indices: 67506151--67506201 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
67506141 GAGCCCATTC
67506151 CTATTTTTATTTTGTGGGAAAGGTCA
1 CTATTTTTATTTTGTGGGAAAGGTCA
67506177 CTATTTTTATTTTGTGGGAAAGGTC
1 CTATTTTTATTTTGTGGGAAAGGTC
67506202 TTTTTAGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.47
Consensus pattern (26 bp):
CTATTTTTATTTTGTGGGAAAGGTCA
Found at i:67506746 original size:106 final size:106
Alignment explanation
Indices: 67506561--67506770 Score: 420
Period size: 106 Copynumber: 2.0 Consensus size: 106
67506551 TTTAAGTAAT
67506561 AAATCGATGACTAGAGTATAAGGCATCTTTCTCAAGGAGAGAAAGTGGTGTTCATAAAGGCTATT
1 AAATCGATGACTAGAGTATAAGGCATCTTTCTCAAGGAGAGAAAGTGGTGTTCATAAAGGCTATT
67506626 CTTCAATCCATCCCAACCTACATTATGGCTTGTTTCTTATA
66 CTTCAATCCATCCCAACCTACATTATGGCTTGTTTCTTATA
67506667 AAATCGATGACTAGAGTATAAGGCATCTTTCTCAAGGAGAGAAAGTGGTGTTCATAAAGGCTATT
1 AAATCGATGACTAGAGTATAAGGCATCTTTCTCAAGGAGAGAAAGTGGTGTTCATAAAGGCTATT
67506732 CTTCAATCCATCCCAACCTACATTATGGCTTGTTTCTTA
66 CTTCAATCCATCCCAACCTACATTATGGCTTGTTTCTTA
67506771 CTCTTTAAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (106 bp):
AAATCGATGACTAGAGTATAAGGCATCTTTCTCAAGGAGAGAAAGTGGTGTTCATAAAGGCTATT
CTTCAATCCATCCCAACCTACATTATGGCTTGTTTCTTATA
Found at i:67508219 original size:16 final size:16
Alignment explanation
Indices: 67508198--67508229 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
67508188 GACAGATCGA
67508198 TTATTGGGGCACTCAT
1 TTATTGGGGCACTCAT
67508214 TTATTGGGGCACTCAT
1 TTATTGGGGCACTCAT
67508230 CAGAGATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (16 bp):
TTATTGGGGCACTCAT
Found at i:67515562 original size:13 final size:13
Alignment explanation
Indices: 67515544--67515569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67515534 CATATTTGAT
67515544 TAAGTAAATATGG
1 TAAGTAAATATGG
67515557 TAAGTAAATATGG
1 TAAGTAAATATGG
67515570 AATGTATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
TAAGTAAATATGG
Found at i:67516048 original size:50 final size:50
Alignment explanation
Indices: 67515834--67516109 Score: 278
Period size: 50 Copynumber: 5.6 Consensus size: 50
67515824 TATGTGATTT
67515834 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA-GTC
* * * * * * *
67515884 CC-CGTAAGATCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTC
* * * * * * * *
67515933 CCATATAAGACCATATCTGGGATATGACATTGGCA--GTACAAGA-AACATC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAA-GTC
67515982 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTC
* * *
67516032 CCATGTAAGACTATGTCTGGGACATGGTGTTGGCACC-AGGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATGAGAAGTC
* *
67516082 CTC-CGTAAGACCATGTCTAGGACATGGC
1 C-CATGTAAGACCATGTCTGGGACATGGC
67516110 ATGGGCANNN
Statistics
Matches: 184, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.02
49 76 0.41
50 101 0.55
51 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTC
Found at i:67516065 original size:99 final size:98
Alignment explanation
Indices: 67515834--67516116 Score: 289
Period size: 99 Copynumber: 2.8 Consensus size: 98
67515824 TATGTGATTT
* * ** *
67515834 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGGTCCCCGTAAGATCATGT
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CGACAAGAAACATCCCCGTAAGACCATGT
* *
67515899 TTGGGACATGGCATGGGCACCGATATGAGAACTC
65 CTGGGACATGGCATGGGCACCGAGATGAGAACTC
* * * * * *
67515933 CCATATAAGACCATATCTGGGATATGACATTGGCA-GTACAAGAAACATCCCATGTAAGACCATG
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACG-ACAAGAAACATCCC-CGTAAGACCATG
* * *
67515997 TCTGGGACATGGCGTTGGCACCGAGATGAGAAGTC
64 TCTGGGACATGGCATGGGCACCGAGATGAGAACTC
* * * * * * **
67516032 CCATGTAAGACTATGTCTGGGACATGGTGTTGGCACCAGGATGAGAGGTCCTCCGTAAGACCATG
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACGA-CAAGAAACATCC-CCGTAAGACCATG
*
67516097 TCTAGGACATGGCATGGGCA
64 TCTGGGACATGGCATGGGCA
67516117 NNNNNNNNNN
Statistics
Matches: 146, Mismatches: 33, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
97 1 0.01
98 10 0.07
99 99 0.68
100 35 0.24
101 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (98 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACGACAAGAAACATCCCCGTAAGACCATGTC
TGGGACATGGCATGGGCACCGAGATGAGAACTC
Found at i:67517732 original size:23 final size:23
Alignment explanation
Indices: 67517705--67517755 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
67517695 CAAATTTACG
*
67517705 TGTAATATCCTGAAAATTACTAC
1 TGTAATACCCTGAAAATTACTAC
67517728 TGTAATACCCTGAAAATTACTAC
1 TGTAATACCCTGAAAATTACTAC
*
67517751 AGTAA
1 TGTAA
67517756 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATACCCTGAAAATTACTAC
Found at i:67525231 original size:9 final size:9
Alignment explanation
Indices: 67525209--67525244 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
67525199 CTTCCTTTAT
67525209 AATGCCTAGC
1 AATG-CTAGC
*
67525219 AATGCTGGC
1 AATGCTAGC
67525228 AATGCTAGC
1 AATGCTAGC
67525237 AATGCTAG
1 AATGCTAG
67525245 AAATTCACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (9 bp):
AATGCTAGC
Found at i:67526354 original size:29 final size:30
Alignment explanation
Indices: 67526314--67526379 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
67526304 ACATATTGTA
**
67526314 TTTAGGGATTGCTCACATATGGGTCAAA-T
1 TTTAGGGATTGCTCACATAAAGGTCAAATT
*
67526343 TTTAGGGATTGCTCCCATAAAGGTCAAATT
1 TTTAGGGATTGCTCACATAAAGGTCAAATT
67526373 TTTAGGG
1 TTTAGGG
67526380 CCCAACCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTAGGGATTGCTCACATAAAGGTCAAATT
Found at i:67527046 original size:6 final size:7
Alignment explanation
Indices: 67527016--67527044 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
67527006 TTATTCATTT
67527016 AATAAAA
1 AATAAAA
67527023 AATAAAA
1 AATAAAA
67527030 AATAAAA
1 AATAAAA
67527037 AATAAAA
1 AATAAAA
67527044 A
1 A
67527045 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:67539208 original size:18 final size:18
Alignment explanation
Indices: 67539185--67539220 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67539175 AGTAAGTAAT
* *
67539185 GTGTTTTTGATGTATTTA
1 GTGTTTTTCATGCATTTA
67539203 GTGTTTTTCATGCATTTA
1 GTGTTTTTCATGCATTTA
67539221 ATTTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.58
Consensus pattern (18 bp):
GTGTTTTTCATGCATTTA
Found at i:67541142 original size:111 final size:112
Alignment explanation
Indices: 67541005--67541228 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 112
67540995 ATTTAATTAA
67541005 TTATAATTAAATAATTGAAGTTTGAAGATTGAATTAAATTAATTAGTCTTTATAAATTTGTTTAG
1 TTATAATTAAATAATTGAAGTTTGAAGATTGAATTAAATTAATTAGTCTTTATAAATTTGTTTAG
67541070 TACATAAATTAAATATATTTTCCTCATAGATTCTATTACGGTAAAGT
66 TACATAAATTAAATATATTTTCCTCATAGATTCTATTACGGTAAAGT
67541117 TTATAATT-AATAATTGAAGTTTGAAGATTGAATTAAATTAATTAGTCTTTATAAATTTGTTTAG
1 TTATAATTAAATAATTGAAGTTTGAAGATTGAATTAAATTAATTAGTCTTTATAAATTTGTTTAG
67541181 TACATAAATTAAATATATTTTCCTCATAGATTCTATTACGGTAAAGT
66 TACATAAATTAAATATATTTTCCTCATAGATTCTATTACGGTAAAGT
67541228 T
1 T
67541229 GTTATGACTT
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 104 0.93
112 8 0.07
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (112 bp):
TTATAATTAAATAATTGAAGTTTGAAGATTGAATTAAATTAATTAGTCTTTATAAATTTGTTTAG
TACATAAATTAAATATATTTTCCTCATAGATTCTATTACGGTAAAGT
Found at i:67541304 original size:17 final size:17
Alignment explanation
Indices: 67541264--67541296 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67541254 TGAGTTGAGA
67541264 AAATT-ATTTAATTAAT
1 AAATTAATTTAATTAAT
*
67541280 AAATTAATTTAGTTAAT
1 AAATTAATTTAATTAAT
67541297 TATTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
AAATTAATTTAATTAAT
Found at i:67541309 original size:21 final size:21
Alignment explanation
Indices: 67541271--67541318 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
67541261 AGAAAATTAT
* *
67541271 TTAATTAATAAATTAATTTAG
1 TTAATTAATAAATCAATTAAG
* * *
67541292 TTAATTATTTAATCAATTAAT
1 TTAATTAATAAATCAATTAAG
67541313 TTAATT
1 TTAATT
67541319 GATTAAATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTAATAAATCAATTAAG
Found at i:67541323 original size:13 final size:13
Alignment explanation
Indices: 67541265--67541324 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 13
67541255 GAGTTGAGAA
*
67541265 AATTATTTAA-TT
1 AATTAATTAATTT
*
67541277 AATAAATTAATTT
1 AATTAATTAATTT
*
67541290 AGTTAATT-ATTT
1 AATTAATTAATTT
*
67541302 AATCAATTAATTT
1 AATTAATTAATTT
*
67541315 AATTGATTAA
1 AATTAATTAA
67541325 ATAAACAACA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 18 0.47
13 20 0.53
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:67541323 original size:25 final size:25
Alignment explanation
Indices: 67541265--67541323 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
67541255 GAGTTGAGAA
* *
67541265 AATTATTTAATTAATAAATTAATTT
1 AATTAATTATTTAATAAATTAATTT
* *
67541290 AGTTAATTATTTAATCAATTAATTT
1 AATTAATTATTTAATAAATTAATTT
*
67541315 AATTGATTA
1 AATTAATTA
67541324 AATAAACAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (25 bp):
AATTAATTATTTAATAAATTAATTT
Found at i:67546864 original size:23 final size:25
Alignment explanation
Indices: 67546834--67546881 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
67546824 ACTTTAGTGC
67546834 TTAAAGTG-AACA-ACACTTCGATG
1 TTAAAGTGTAACATACACTTCGATG
*
67546857 TTAAAGTGTAACATGCACTTCGATG
1 TTAAAGTGTAACATACACTTCGATG
67546882 CTTTAGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 4 0.18
25 10 0.45
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
TTAAAGTGTAACATACACTTCGATG
Found at i:67546953 original size:16 final size:16
Alignment explanation
Indices: 67546932--67547004 Score: 74
Period size: 16 Copynumber: 4.6 Consensus size: 16
67546922 TACTAAGGGC
**
67546932 TAAGTGAAGCAAGTGG
1 TAAGTGAAATAAGTGG
**
67546948 TAAGTGAAATAAGTTC
1 TAAGTGAAATAAGTGG
* *
67546964 TAAGTTAAATAAATGG
1 TAAGTGAAATAAGTGG
**
67546980 TAAGTGATGTAAGTGG
1 TAAGTGAAATAAGTGG
67546996 TAAGTGAAA
1 TAAGTGAAA
67547005 ATTTTATGTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.27
Consensus pattern (16 bp):
TAAGTGAAATAAGTGG
Found at i:67548371 original size:26 final size:26
Alignment explanation
Indices: 67548355--67548407 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
67548345 AGATAAATAT
67548355 TAGTTAGTACAAATTTAAATAAAGAA
1 TAGTTAGTACAAATTTAAATAAAGAA
67548381 TAGTTAGTACAAATTTAAATAAAGAA
1 TAGTTAGTACAAATTTAAATAAAGAA
67548407 T
1 T
67548408 CATGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (26 bp):
TAGTTAGTACAAATTTAAATAAAGAA
Found at i:67548373 original size:22 final size:22
Alignment explanation
Indices: 67548348--67548402 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
67548338 TGTTTTTAGA
*
67548348 TAAATATTAGTTAGTACAAATT
1 TAAATAATAGTTAGTACAAATT
67548370 TAAATAAAGAATAGTTAGTACAAATT
1 TAAAT----AATAGTTAGTACAAATT
67548396 TAAATAA
1 TAAATAA
67548403 AGAATCATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
22 7 0.25
26 21 0.75
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (22 bp):
TAAATAATAGTTAGTACAAATT
Found at i:67558520 original size:14 final size:14
Alignment explanation
Indices: 67558498--67558529 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
67558488 ATCCGGTACG
*
67558498 CATAGTAGCCTGCA
1 CATAATAGCCTGCA
67558512 CATAATAGCCTGCA
1 CATAATAGCCTGCA
67558526 CATA
1 CATA
67558530 GTACTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (14 bp):
CATAATAGCCTGCA
Found at i:67558557 original size:65 final size:65
Alignment explanation
Indices: 67558445--67558580 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 65
67558435 ATACCTAGTT
* * * * * *
67558445 CACATAGTAGCTTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAGCCTG
1 CACATAATAGCCTGCACATAGTACTACACACGTGATCCAAACTATCCGATACACATACTAGCCTG
*** *
67558510 CACATAATAGCCTGCACATAGTACTACACACGTGA-CCATTTTCATCCGATACACGTACTAGCCT
1 CACATAATAGCCTGCACATAGTACTACACACGTGATCCAAACT-ATCCGATACACATACTAGCCT
67558574 G
65 G
67558575 CACATA
1 CACATA
67558581 GTACTACACA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 3 0.05
65 57 0.95
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (65 bp):
CACATAATAGCCTGCACATAGTACTACACACGTGATCCAAACTATCCGATACACATACTAGCCTG
Found at i:67558593 original size:51 final size:50
Alignment explanation
Indices: 67558517--67558698 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 50
67558507 CTGCACATAA
* *
67558517 TAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAC
1 TAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATACACGTAG
* * * * * *
67558568 TAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATTCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATACACGTAG
* * * *
67558619 TAGCCTGCACATTGTACTACACATGCGACC-TATCATTCCGTTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGATACACGTAG
*
67558669 TAGCCTGCACATAGTACTACACATGTGACC
1 TAGCCTGCACATAGTACTACACACGTGACC
67558699 TAGCAACTTC
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 42 0.39
51 63 0.58
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACACGTAG
Found at i:67560720 original size:4 final size:4
Alignment explanation
Indices: 67560711--67560745 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
67560701 AAAATGTAAT
*
67560711 TTAA TTAA TTAA TTAA TTAG TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
67560746 TATCAACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:67574636 original size:12 final size:13
Alignment explanation
Indices: 67574603--67574628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67574593 TTATAAATAT
67574603 ATATACAAGTAAA
1 ATATACAAGTAAA
67574616 ATATACAAGTAAA
1 ATATACAAGTAAA
67574629 TTTACAAGCA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATATACAAGTAAA
Found at i:67575269 original size:13 final size:13
Alignment explanation
Indices: 67575246--67575283 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
67575236 AGCCGAATCT
*
67575246 TAAAGAAATAACAA
1 TAAA-AAATAAAAA
67575260 TAAAAAATAAAAA
1 TAAAAAATAAAAA
67575273 T-AAAAATAAAA
1 TAAAAAATAAAA
67575284 TCCCTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 9 0.39
14 4 0.17
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:67576153 original size:44 final size:44
Alignment explanation
Indices: 67576103--67576766 Score: 480
Period size: 44 Copynumber: 15.0 Consensus size: 44
67576093 ACCGATATAG
* * *
67576103 GAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
** * ***
67576147 GAAGACAAGATCCACT-T-TTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTT-GATCTACTTC-ACACCAGTACAT
* *
67576191 GAAGATAAGATCTG-T-TCCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTAT-CTTTGATCTACTTCACACCAGTACAT
* * * ***
67576234 GAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAGTACAT
*
67576279 GAAGACAAGATCTGCTATCTTTGATCTACTTCACTCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
* ***
67576323 GAAGACAAGATCTGCT-T-TTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTT-GATCTACTTC-ACACCAGTACAT
* * * *
67576367 GGAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
* * * ** * * * *
67576411 GAAGACAAGATCTGTTTTATTCAATCTGCTTTACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
* * * * * * * ***
67576455 AAAGATAGGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACACCAGTACAT
* * * * * ***
67576500 GAAGACGAGATCTGCTTTCTTCGATATACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAGTACAT
* * * * * * *
67576545 GGAGACAATATATGTTGTATTTGATCTACTTCACGCC-GATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAG-TACAT
* * * * * ***
67576589 GAAGACAAGATCAGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACACCAGTACAT
* *
67576634 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
* ***
67576678 GAAGACAAGATCTGCTTTCTTTGATCTACTTTGC-CACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTAC-TT-CACACCAGTACAT
* *
67576723 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
67576767 NNNNNNNNNN
Statistics
Matches: 475, Mismatches: 126, Indels: 38
0.74 0.20 0.06
Matches are distributed among these distances:
42 6 0.01
43 46 0.10
44 234 0.49
45 185 0.39
46 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTACAT
Found at i:67576333 original size:89 final size:89
Alignment explanation
Indices: 67576077--67576766 Score: 831
Period size: 89 Copynumber: 7.8 Consensus size: 89
67576067 AATCTGTGTA
* * * * *
67576077 TTCGATCCACTTCGCTACC-GATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCA
1 TTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
**
67576141 GTACATGAAGACAAGATCCACTTT-
65 GTACATGAAGACAAGATCTGCTTTC
*
67576165 TTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTG-T-TCCTTTGATCTACTTCACGCCA
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCACGCCA
67576228 GTACATGAAGACAAGATCTGCTTTC
65 GTACATGAAGACAAGATCTGCTTTC
* * *
67576253 TTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACTCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
67576318 TACATGAAGACAAGATCTGCTTT-
66 TACATGAAGACAAGATCTGCTTTC
* * *
67576341 TTCGATCTACTTCGCCACCAGTATGGGGAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
* *
67576406 TACATGAAGACAAGATCTGTTTTA
66 TACATGAAGACAAGATCTGCTTTC
* * **** * * * * * * *
67576430 TTCAATCTGCTTTACGCCA--A-TACATAAAGATAGGATTTGCTCTCTTCGATCTACTTCGCCAC
1 TTCGATCTAC-TT-CGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGC
*** *
67576492 CAGTATGGGAAGACGAGATCTGCTTTC
63 CAGTACATGAAGACAAGATCTGCTTTC
* * * * * * * * *
67576519 TTCGATATACTCCACCACCAGTATGGGGAGACAATATATGTTGTATTTGATCTACTTCACGCC-G
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
* *
67576583 ATACATGAAGACAAGATCAGTTTTC
66 -TACATGAAGACAAGATCTGCTTTC
*
67576608 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
67576673 TACATGAAGACAAGATCTGCTTTC
66 TACATGAAGACAAGATCTGCTTTC
* * *
67576697 TTTGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
67576762 TACAT
66 TACAT
67576767 NNNNNNNNNN
Statistics
Matches: 508, Mismatches: 80, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 47 0.09
88 177 0.35
89 250 0.49
90 28 0.06
91 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
TACATGAAGACAAGATCTGCTTTC
Found at i:67577010 original size:44 final size:45
Alignment explanation
Indices: 67576884--67577014 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 45
67576874 GACCTGATGT
* *
67576884 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTACTTTTC
1 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTA-GTTAC
* *** *** *
67576930 CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-GTTAC
1 CTTTGATCTACTTC-ATGCCAGTACATGAAGACAAGATCTAGTTAC
67576975 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTA
1 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTA
67577015 CTTTCTTCGA
Statistics
Matches: 65, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
44 18 0.28
45 16 0.25
46 13 0.20
47 18 0.28
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTAGTTAC
Found at i:67577208 original size:44 final size:44
Alignment explanation
Indices: 67577139--67577233 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 44
67577129 TTATGGAGAT
* * * *
67577139 AAGATCTGTTTCTTTGATCTACTTCA-CGCCAGTACATGAAGAC
1 AAGATCTGTTTCATGGATCTACTTCACCACCAGTACAGGAAGAC
**
67577182 AAGATCTGTTTTCATGGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTG-TTTCATGGATCTACTTCACCACCAGTACAGGAAGAC
67577227 AAGATCT
1 AAGATCT
67577234 TTTGCATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 8 0.18
44 16 0.36
45 20 0.45
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
AAGATCTGTTTCATGGATCTACTTCACCACCAGTACAGGAAGAC
Found at i:67581168 original size:19 final size:20
Alignment explanation
Indices: 67581144--67581183 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
67581134 AAAGGTTTTT
* *
67581144 AATGCATATG-ATGCAATGA
1 AATGCAAATGCATGAAATGA
67581163 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
67581183 A
1 A
67581184 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:67582969 original size:12 final size:13
Alignment explanation
Indices: 67582943--67582968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67582933 TTACAAATAT
67582943 ATATACAAGTAAA
1 ATATACAAGTAAA
67582956 ATATACAAGTAAA
1 ATATACAAGTAAA
67582969 TTTACAAGCA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATATACAAGTAAA
Found at i:67582974 original size:12 final size:12
Alignment explanation
Indices: 67582943--67582976 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67582933 TTACAAATAT
67582943 ATATACAAGTAAA
1 ATATACAAGT-AA
67582956 ATATACAAGTAA
1 ATATACAAGTAA
*
67582968 ATTTACAAG
1 ATATACAAG
67582977 CATGTGTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (12 bp):
ATATACAAGTAA
Found at i:67583313 original size:62 final size:60
Alignment explanation
Indices: 67583236--67583363 Score: 211
Period size: 62 Copynumber: 2.1 Consensus size: 60
67583226 ATGTACTTAT
* *
67583236 AAAATATAAATAAAAATAGGTAAAATATATTAGTAAAGTATGAGTATATAAATATGTATAAA
1 AAAATATAAATAAAAATAAGTAAAATATATTAATAAAGTATGAGTATAT--ATATGTATAAA
*
67583298 ATAATATAAATAAAAATAAGTAAAATATATTAATAAAGTATGAGTATATATATGTATAAA
1 AAAATATAAATAAAAATAAGTAAAATATATTAATAAAGTATGAGTATATATATGTATAAA
67583358 AAAATA
1 AAAATA
67583364 CGAAAATAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 16 0.26
62 46 0.74
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (60 bp):
AAAATATAAATAAAAATAAGTAAAATATATTAATAAAGTATGAGTATATATATGTATAAA
Found at i:67583504 original size:18 final size:19
Alignment explanation
Indices: 67583465--67583524 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
67583455 GTGTAAGTGT
* *
67583465 ATAAAAATAATG-ATGATG
1 ATAAAAATAATGAATAATA
67583483 ATAAAAATAATGAATAAT-
1 ATAAAAATAATGAATAATA
* *
67583501 ATAATAATAAT-AAAAATA
1 ATAAAAATAATGAATAATA
67583519 ATAAAA
1 ATAAAA
67583525 TAGTTAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.14
18 27 0.75
19 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
ATAAAAATAATGAATAATA
Found at i:67583518 original size:9 final size:9
Alignment explanation
Indices: 67583483--67583524 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
67583473 AATGATGATG
67583483 ATAAAAATA
1 ATAAAAATA
*
67583492 ATGAATAAT-
1 AT-AAAAATA
*
67583501 ATAATAATA
1 ATAAAAATA
67583510 ATAAAAATA
1 ATAAAAATA
67583519 ATAAAA
1 ATAAAA
67583525 TAGTTAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.21
9 18 0.62
10 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:67584257 original size:13 final size:13
Alignment explanation
Indices: 67584234--67584273 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
67584224 AGCCGAATCT
*
67584234 TAAAGAAATAACAA
1 TAAA-AAATAAAAA
67584248 TAAAAAATAAAAA
1 TAAAAAATAAAAA
67584261 T-AAAAATAAAAA
1 TAAAAAATAAAAA
67584273 T
1 T
67584274 CAAATCCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.48
13 9 0.36
14 4 0.16
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:67584259 original size:6 final size:6
Alignment explanation
Indices: 67584239--67584273 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
67584229 AATCTTAAAG
*
67584239 AAATAA CAATAAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAAT-AA AAATAA AAATAA AAATAA AAAT
67584274 CAAATCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:67594523 original size:27 final size:27
Alignment explanation
Indices: 67594493--67594555 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
67594483 AATTTTTCAT
**
67594493 AAAGG-TATCCCTTTTAGAGTTTGCCAC
1 AAAGGCTAT-CCTTTTAGAGTTCACCAC
*
67594520 AAAGGCTATTCTTTTAGAGTTCACCAC
1 AAAGGCTATCCTTTTAGAGTTCACCAC
67594547 AAAGGCTAT
1 AAAGGCTAT
67594556 TCTTAGTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (27 bp):
AAAGGCTATCCTTTTAGAGTTCACCAC
Found at i:67594556 original size:27 final size:27
Alignment explanation
Indices: 67594503--67594559 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
67594493 AAAGGTATCC
**
67594503 CTTTTAGAGTTTGCCACAAAGGCTATT
1 CTTTTAGAGTTCACCACAAAGGCTATT
67594530 CTTTTAGAGTTCACCACAAAGGCTATT
1 CTTTTAGAGTTCACCACAAAGGCTATT
67594557 CTT
1 CTT
67594560 AGTTGTCGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (27 bp):
CTTTTAGAGTTCACCACAAAGGCTATT
Found at i:67600383 original size:64 final size:64
Alignment explanation
Indices: 67600275--67600399 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
67600265 TACCAAACTA
* * * *
67600275 ATATATAGTTTGTTAAGAAATTAAAAATTAGACTATAAATATATGTGTGAAAAATATTTAAATGT
1 ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGT-AAAAATATTTAAATGT
*
67600340 ATATATAATTTATCAAGAAACT-AAAATTAGGCTATAAATATATGTGTAAAAATATTTAAA
1 ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGTAAAAATATTTAAA
67600400 AATATCGACA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 13 0.24
64 24 0.44
65 18 0.33
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (64 bp):
ATATATAATTTATCAAGAAACTAAAAATTAGACTATAAATATATGTGTAAAAATATTTAAATGT
Found at i:67600663 original size:18 final size:16
Alignment explanation
Indices: 67600637--67600675 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
67600627 ATTTTAAGAA
*
67600637 ATATTTTTTTATAATTTT
1 ATATATTTTTAT--TTTT
67600655 ATATATTTTTATTTTT
1 ATATATTTTTATTTTT
67600671 ATATA
1 ATATA
67600676 ATTGTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATATATTTTTATTTTT
Found at i:67600667 original size:26 final size:27
Alignment explanation
Indices: 67600638--67600688 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
67600628 TTTTAAGAAA
*
67600638 TATTTTTTTATAATT-TTATATATTTT
1 TATTTTTATATAATTGTTATATATTTT
67600664 TATTTTTATATAATTGTTATATATT
1 TATTTTTATATAATTGTTATATATT
67600689 ACAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TATTTTTATATAATTGTTATATATTTT
Found at i:67604725 original size:13 final size:13
Alignment explanation
Indices: 67604709--67604734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67604699 GTCAACAAGA
67604709 ACAACCAAATCAT
1 ACAACCAAATCAT
67604722 ACAACCAAATCAT
1 ACAACCAAATCAT
67604735 TCTTACTCAA
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:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
ACAACCAAATCAT
Found at i:67617453 original size:31 final size:31
Alignment explanation
Indices: 67617418--67617478 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
67617408 TTAGTAATAT
* * *
67617418 TCTTCTCATATTAATTTGATTGAGAACTTAA
1 TCTTCCCACATTAATTTAATTGAGAACTTAA
67617449 TCTTCCCACATTAATTTAATTGAGAACTTA
1 TCTTCCCACATTAATTTAATTGAGAACTTA
67617479 TCGTAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (31 bp):
TCTTCCCACATTAATTTAATTGAGAACTTAA
Found at i:67620017 original size:156 final size:156
Alignment explanation
Indices: 67619733--67620048 Score: 605
Period size: 156 Copynumber: 2.0 Consensus size: 156
67619723 TCGGGCAACA
*
67619733 CTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGAGAACCCTAAGAGG
1 CTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAGG
67619798 TATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAAC
66 TATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAAC
67619863 CGGTGTTGTTAGCCAATTTATGACAG
131 CGGTGTTGTTAGCCAATTTATGACAG
67619889 CTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAGG
1 CTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAGG
* *
67619954 TATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACTTGTCTAGATATCGCATATGCAAC
66 TATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAAC
67620019 CGGTGTTGTTAGCCAATTTATGACAG
131 CGGTGTTGTTAGCCAATTTATGACAG
67620045 CTCC
1 CTCC
67620049 AACCATTCAT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (156 bp):
CTCCTATGATTCCTAATCTACATCTCACAAAAGAAGATGGTGGTTTATTTGACAACCCTAAGAGG
TATAGAAGATTGGTAGAAAAGTTGAACTATCTCACACTAACCTGTCTAGATATCGCACATGCAAC
CGGTGTTGTTAGCCAATTTATGACAG
Found at i:67623293 original size:2 final size:2
Alignment explanation
Indices: 67623286--67623311 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67623276 ATTTTCTGCT
67623286 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
67623312 CACACGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67634093 original size:30 final size:31
Alignment explanation
Indices: 67634039--67634096 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
67634029 GAAATTTATA
*
67634039 TTTATTTACATTTTGTATATTTTTTTACAAC
1 TTTATTTACATTTTATATATTTTTTTACAAC
*
67634070 TTTATTTATATTTTATA-ATTTTTTTAC
1 TTTATTTACATTTTATATATTTTTTTAC
67634097 GATTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTATTTACATTTTATATATTTTTTTACAAC
Found at i:67634105 original size:20 final size:20
Alignment explanation
Indices: 67634080--67634154 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 20
67634070 TTTATTTATA
67634080 TTTTATAATTTTTTTACGAT
1 TTTTATAATTTTTTTACGAT
** *
67634100 TTTTATAA-AATTTTACAAT
1 TTTTATAATTTTTTTACGAT
*
67634119 TTTT-TATATATTGTTTACGAT
1 TTTTATA-AT-TTTTTTACGAT
67634140 TTTTAT-ATTTTTTTA
1 TTTTATAATTTTTTTA
67634155 TTTTTAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.05
19 19 0.44
20 10 0.23
21 11 0.26
22 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTACGAT
Found at i:67634105 original size:31 final size:30
Alignment explanation
Indices: 67634039--67634123 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
67634029 GAAATTTATA
* *
67634039 TTTATTTACATTTTGTATATTTTTTTACAAC
1 TTTATTTAAATTTTATA-ATTTTTTTACAAC
* *
67634070 TTTATTTATATTTTATAATTTTTTTACGA-
1 TTTATTTAAATTTTATAATTTTTTTACAAC
*
67634099 TTT-TTATAAAATTTTACAATTTTTT
1 TTTATT-T-AAATTTTATAATTTTTT
67634124 ATATATTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.04
29 4 0.09
30 26 0.55
31 15 0.32
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTATTTAAATTTTATAATTTTTTTACAAC
Found at i:67634183 original size:26 final size:28
Alignment explanation
Indices: 67634154--67634205 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
67634144 ATATTTTTTT
*
67634154 ATTTTTAAT-AAATTT-TTAATATTTGG
1 ATTTTTAATAAAATTTAATAATATTTGG
*
67634180 ATTTTTATTAAAATTTAATAATATTT
1 ATTTTTAATAAAATTTAATAATATTT
67634206 ATATCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 6 0.27
28 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (28 bp):
ATTTTTAATAAAATTTAATAATATTTGG
Found at i:67634398 original size:89 final size:89
Alignment explanation
Indices: 67634262--67634452 Score: 267
Period size: 89 Copynumber: 2.1 Consensus size: 89
67634252 TAATAAAAGC
** * *
67634262 AGGGGCTTAATTGCTTTTTTGAAAAAATTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAGGA
1 AGGGGCTTAATTGCTTTTTTGAAAAAATTTGAGGACTTTTTTAATGCATTTTGAAAGTTCAAAGA
* * *
67634327 CCCAATTGAGTGC-AAAAAAAATT
66 CCAAAATGAGTGCAAAAAAAAAAT
** *
67634350 AGGGGCTTAATTGCTTTTCTTGAAAAGGTTTGAGGACTTTTTTAATGCATTTTGAAAGTTCAAAT
1 AGGGGCTTAATTGCTTTT-TTGAAAAAATTTGAGGACTTTTTTAATGCATTTTGAAAGTTCAAAG
67634415 ACCAAAATGAGTGCAAAAAAAAAAAT
65 ACCAAAATGAGTGC-AAAAAAAAAAT
67634441 AGGGGCTTAATT
1 AGGGGCTTAATT
67634453 TTATTTTATT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 18 0.20
89 51 0.57
91 21 0.23
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (89 bp):
AGGGGCTTAATTGCTTTTTTGAAAAAATTTGAGGACTTTTTTAATGCATTTTGAAAGTTCAAAGA
CCAAAATGAGTGCAAAAAAAAAAT
Found at i:67635145 original size:29 final size:29
Alignment explanation
Indices: 67635103--67635161 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
67635093 CGTATTAACT
67635103 TTAAGTCATCTAAATCTCAATCAATCTTA
1 TTAAGTCATCTAAATCTCAATCAATCTTA
67635132 TTAAGTCATCTAAATCTCAATCAATCTTA
1 TTAAGTCATCTAAATCTCAATCAATCTTA
67635161 T
1 T
67635162 AAGATGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (29 bp):
TTAAGTCATCTAAATCTCAATCAATCTTA
Found at i:67635979 original size:30 final size:31
Alignment explanation
Indices: 67635938--67635998 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
67635928 GGGTTGGGAG
*
67635938 GGGAGAGGAGTAAAAGTTTTGGGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
67635969 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
67635999 AAAAAAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:67636144 original size:9 final size:9
Alignment explanation
Indices: 67636127--67636157 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
67636117 TCGAGTTGAT
67636127 TCGAATAAC
1 TCGAATAAC
*
67636136 TCGATTAAC
1 TCGAATAAC
67636145 TCGAATAAC
1 TCGAATAAC
67636154 TCGA
1 TCGA
67636158 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:67638759 original size:83 final size:83
Alignment explanation
Indices: 67638620--67638786 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
67638610 AAAAAGACTG
*
67638620 TGTATTTCTTATAAGTTCTCCTGTACTGTTACTTTTTTATAATTTATTTAGCTTACTGCCATACA
1 TGTATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACA
67638685 AGATTACAAGTTCAGGAA
66 AGATTACAAGTTCAGGAA
67638703 TGTATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACA
1 TGTATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACA
67638768 AGATTACAAGTTCAGGAA
66 AGATTACAAGTTCAGGAA
67638786 T
1 T
67638787 TTAGTAGCTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (83 bp):
TGTATTTCTTATAAGTTCTCCTGTACTGTAACTTTTTTATAATTTATTTAGCTTACTGCCATACA
AGATTACAAGTTCAGGAA
Found at i:67645970 original size:27 final size:29
Alignment explanation
Indices: 67645931--67645985 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
67645921 GACTTTATAT
* *
67645931 TTTTTTTCTTAATTTAATG-TTTAATTTC
1 TTTTTATCTTAATTTAATGCTTGAATTTC
67645959 TTTTTATC-TAATTTAATGCTTGAATTT
1 TTTTTATCTTAATTTAATGCTTGAATTT
67645986 GACTCTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (29 bp):
TTTTTATCTTAATTTAATGCTTGAATTTC
Found at i:67647257 original size:20 final size:19
Alignment explanation
Indices: 67647221--67647386 Score: 76
Period size: 20 Copynumber: 8.5 Consensus size: 19
67647211 AATATTTTTC
*
67647221 TCATAAAAA-TATTAAAAAG
1 TCATAAAAATTA-TAAAAAA
67647240 TCATAAAAATTATAAAAAAA
1 TCATAAAAATTAT-AAAAAA
67647260 TCA-AACAAATTATAAAAAA
1 TCATAA-AAATTATAAAAAA
*
67647279 T-AT-AAAATTA-ATAAAAC
1 TCATAAAAATTATA-AAAAA
* *
67647296 TTATTTAAAATTA-AAAAAA
1 TCA-TAAAAATTATAAAAAA
* * *
67647315 ACATATTAGAATTCTTAAAAAA
1 TCATA--AAAATT-ATAAAAAA
* *
67647337 TAATAAAAAATTGTAAAAAATTA
1 TCAT-AAAAATTAT-AAAAA--A
* *
67647360 TTATAAAAATT-TTAAAAA
1 TCATAAAAATTATAAAAAA
67647378 TCATAAAAA
1 TCATAAAAA
67647387 CTTGAGTTGG
Statistics
Matches: 116, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
16 1 0.01
17 11 0.09
18 13 0.11
19 25 0.22
20 35 0.30
21 11 0.09
22 15 0.13
23 5 0.04
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
TCATAAAAATTATAAAAAA
Found at i:67647258 original size:10 final size:10
Alignment explanation
Indices: 67647244--67647386 Score: 59
Period size: 10 Copynumber: 14.4 Consensus size: 10
67647234 AAAAAGTCAT
67647244 AAAAATTATA
1 AAAAATTATA
67647254 AAAAA--ATCA
1 AAAAATTAT-A
67647263 AACAAATTATA
1 AA-AAATTATA
67647274 AAAAA-TAT-
1 AAAAATTATA
67647282 -AAAATTA-A
1 AAAAATTATA
* *
67647290 TAAAACTTATT
1 -AAAAATTATA
*
67647301 TAAAATTA-A
1 AAAAATTATA
**
67647310 AAAAAACATA
1 AAAAATTATA
* * *
67647320 TTAGAATTCTTA
1 -AAAAATT-ATA
*
67647332 AAAAATAATA
1 AAAAATTATA
*
67647342 AAAAATTGTA
1 AAAAATTATA
67647352 AAAAATTATTA
1 AAAAATTA-TA
*
67647363 TAAAAATT-TT
1 -AAAAATTATA
*
67647373 AAAAATCATA
1 AAAAATTATA
67647383 AAAA
1 AAAA
67647387 CTTGAGTTGG
Statistics
Matches: 95, Mismatches: 23, Indels: 30
0.64 0.16 0.20
Matches are distributed among these distances:
7 4 0.04
8 4 0.04
9 17 0.18
10 47 0.49
11 12 0.13
12 11 0.12
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:67647321 original size:21 final size:20
Alignment explanation
Indices: 67647281--67647321 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
67647271 ATAAAAAATA
* *
67647281 TAAAATTAATAAAACTTATT
1 TAAAATTAAAAAAACATATT
67647301 TAAAATTAAAAAAAACATATT
1 TAAAATT-AAAAAAACATATT
67647322 AGAATTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATTAAAAAAACATATT
Done.