Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 352 of 433
Found at i:110678754 original size:94 final size:94
Alignment explanation
Indices: 110678414--110678764 Score: 461
Period size: 94 Copynumber: 3.7 Consensus size: 94
110678404 ATATATGAGC
* * * * *
110678414 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
*
110678479 GTGATGAATGTGAACATGTACATATGTGA
66 GTGATGAATGTGAACATGCACATATGTGA
* * * *
110678508 TAAGGCCGAATGGCCAATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
*
110678573 GTGATGAATATGAACATGCACATATGTGA
66 GTGATGAATGTGAACATGCACATATGTGA
* * * * *
110678602 TAAGGCCGAATGGCCAATGTGATAAATGTAAACATGCATATATGTGATAAGGCAGAATGGCCAAT
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
* *
110678667 GTGATAAATGTGAACATGCATATATGTGA
66 GTGATGAATGTGAACATGCACATATGTGA
* * * * * **
110678696 TAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGGTTAA
1 TAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATATGTGAGAAAGCCGAATGGCCAA
110678760 TGTGA
65 TGTGA
110678765 AATGTGTATG
Statistics
Matches: 231, Mismatches: 25, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
94 229 0.99
95 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (94 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCGAATGGCCAAT
GTGATGAATGTGAACATGCACATATGTGA
Found at i:110678755 original size:47 final size:47
Alignment explanation
Indices: 110678383--110678721 Score: 498
Period size: 47 Copynumber: 7.2 Consensus size: 47
110678373 TTAGGATTTT
* ** * * * *
110678383 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
110678430 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
110678477 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
110678524 ATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
110678571 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
110678618 ATGTGATAAATGTAAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
110678665 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
110678712 ATGTGATGAA
1 ATGTGATGAA
110678722 CGTGGAAGTG
Statistics
Matches: 264, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 264 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:110678794 original size:46 final size:46
Alignment explanation
Indices: 110678735--110678825 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
110678725 GGAAGTGTAT
* * *
110678735 ATATGTGGGAAAGCCGAATGGTTAATGTGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGTGAAATATGTATGAGATGG
* *
110678781 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGTGAAATATGTATGAGATG
110678826 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGTGAAATATGTATGAGATGG
Found at i:110691543 original size:30 final size:30
Alignment explanation
Indices: 110691507--110691566 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
110691497 AATTAATACG
*
110691507 AACTTTTGCGA-AATTACATTTTTGCCCCTA
1 AACTTTTGC-ATAATTACACTTTTGCCCCTA
110691537 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCATAATTACACTTTTGCCCCTA
110691567 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTTGCATAATTACACTTTTGCCCCTA
Found at i:110696160 original size:13 final size:13
Alignment explanation
Indices: 110696142--110696167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110696132 GGGATTTGTT
110696142 TTAACTAAACTAA
1 TTAACTAAACTAA
110696155 TTAACTAAACTAA
1 TTAACTAAACTAA
110696168 GAATGCACAA
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:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:110699203 original size:13 final size:13
Alignment explanation
Indices: 110699185--110699209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110699175 GTAAGTGATT
110699185 TTGATGATTTTTC
1 TTGATGATTTTTC
110699198 TTGATGATTTTT
1 TTGATGATTTTT
110699210 GTACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:110700029 original size:50 final size:50
Alignment explanation
Indices: 110699913--110700144 Score: 226
Period size: 50 Copynumber: 4.8 Consensus size: 50
110699903 CCACATTATG
* * * **
110699913 AGAGCCAGTGTAAGACCATGTTTGGGACAT-GCATCAGCCTTA-AGATGT-
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACACAGAGATGTA
*
110699961 A-AGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTA
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTA
* * ** ** *
110700010 AGAGCCAGTGTGAGACCATGTCTATGACATGGCATCGGTACAGATTTGTG
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTA
* * * ** *
110700060 AGAGCCAGTGTAAGACTATGTCTGGGACATGGCAT-TA-AC-TTGATGGA
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTA
*
110700107 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
110700145 TATTACACCC
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
47 62 0.42
48 15 0.10
49 1 0.01
50 71 0.48
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTA
Found at i:110700112 original size:97 final size:100
Alignment explanation
Indices: 110699965--110700143 Score: 256
Period size: 97 Copynumber: 1.8 Consensus size: 100
110699955 AGATGTAAGT
* *
110699965 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGTAAGAGCCAGTGTGAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGGAAGAGCCAGTGTAAGACCATG
*
110700030 TCTATGACATGGCATCGGTACAGATTTGTGAGAGC
66 TCTAGGACATGGCATCGGTACAGATTTGTGAGAGC
* * * ** *
110700065 CAGTGTAAGACTATGTCTGGGACATGGCAT-TA-AC-TTGATGGATGAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGGAAGAGCCAGTGTAAGACCATG
110700127 TCTAGGACATGGCATCG
66 TCTAGGACATGGCATCG
110700144 ATATTACACC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
97 39 0.56
98 2 0.03
99 1 0.01
100 28 0.40
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (100 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAGAGATGGAAGAGCCAGTGTAAGACCATG
TCTAGGACATGGCATCGGTACAGATTTGTGAGAGC
Found at i:110706754 original size:13 final size:13
Alignment explanation
Indices: 110706736--110706760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110706726 GTAAGTGATT
110706736 TTGATGATTTTTC
1 TTGATGATTTTTC
110706749 TTGATGATTTTT
1 TTGATGATTTTT
110706761 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:110707580 original size:46 final size:48
Alignment explanation
Indices: 110707436--110707798 Score: 304
Period size: 46 Copynumber: 7.7 Consensus size: 48
110707426 TTTGTGTGCT
* * * *
110707436 AGTGTAAGA-CATGTCTAGGATAT-GCATCGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-GATGAGAGCC
* * ** * *
110707482 AGTGTAAGACCATGTCTAGGACATAGTATCGGTATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGAGAGCC
*
110707530 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATG-AGAGCC
* * * * *
110707576 AGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACAAGAT--GTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGAGAGCC
* *
110707620 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGAGATGTGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGA--TGAGAGCC
* * ** * *
110707670 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGAT-GAGAGCC
* * * *
110707719 AATGTAAAACCATGTCTAGGACATGGCATC-GACT--TGATGGATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGAT-GA-GAGCC
110707766 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
110707799 ATTACACCCT
Statistics
Matches: 256, Mismatches: 45, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
44 11 0.04
45 14 0.05
46 72 0.28
47 59 0.23
48 30 0.12
49 33 0.13
50 37 0.14
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGAGAGCC
Found at i:110707781 original size:146 final size:138
Alignment explanation
Indices: 110707438--110707800 Score: 388
Period size: 140 Copynumber: 2.6 Consensus size: 138
110707428 TGTGTGCTAG
* * * * *
110707438 TGTAAGACATGTCTAGGATATGCATCGGCCACATTATGA-GAGCTAGTGTAAGACCATGTCTAGG
1 TGTAAAACATGTCTAGGACATGCATCGACTACA--A-GATGAGCCAGTGTAAGACCATGTCTAGG
* * * * * *
110707502 ACATAGTATCGGTATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
63 ACATGGCATCGGCATGGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG
*
110707567 ATGTAAGCCAG
128 ATGTAAGCCAA
* * * * * *
110707578 TGTAAGACATGTTTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCTAGGACA
1 TGTAAAACATGTCTAGGACATGCATCGACTACAAGATGAGCCAGTGTAAGACCATGTCTAGGACA
110707643 TGGCATCGGCATGGAGATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
66 TGGCATCGGCATGGAGA--TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA
** *
110707708 TTTCG-ATAGTCAA
127 GAT-GTA-AGCCAA
** *
110707721 TGTAAAACCATGTCTAGGACATGGCATCGACTTGATGGATGAGCCAGTGTAAGACCATGTCTAGG
1 TGTAAAA-CATGTCTAGGACAT-GCATCGACTACA-AGATGAGCCAGTGTAAGACCATGTCTAGG
110707786 ACATGGCATCGGCAT
63 ACATGGCATCGGCAT
110707801 TACACCCTAT
Statistics
Matches: 187, Mismatches: 26, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
137 2 0.01
138 39 0.21
140 45 0.24
141 14 0.07
142 14 0.07
143 11 0.06
144 12 0.06
145 9 0.05
146 41 0.22
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (138 bp):
TGTAAAACATGTCTAGGACATGCATCGACTACAAGATGAGCCAGTGTAAGACCATGTCTAGGACA
TGGCATCGGCATGGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG
TAAGCCAA
Found at i:110707788 original size:96 final size:98
Alignment explanation
Indices: 110707617--110707795 Score: 274
Period size: 96 Copynumber: 1.8 Consensus size: 98
110707607 TACAAGATGT
* * *
110707617 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGAGATGTGAGAGCCAGTGTAAGACCA
1 GTCAATGTAAAACCATGTCTAGGACATGGCATCGACAT-GAGATGTGAGAGCCAGTGTAAGACCA
*
110707682 TGTCTGGGACATGGCATCAGCCTCGATTTCGATA
65 TGTCTAGGACATGGCATCAGCCTCGATTTCGATA
*
110707716 GTCAATGTAAAACCATGTCTAGGACATGGCATCGAC-T-TGATG-GATGAGCCAGTGTAAGACCA
1 GTCAATGTAAAACCATGTCTAGGACATGGCATCGACATGAGATGTGA-GAGCCAGTGTAAGACCA
110707778 TGTCTAGGACATGGCATC
65 TGTCTAGGACATGGCATC
110707796 GGCATTACAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 38 0.51
98 1 0.01
99 33 0.45
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (98 bp):
GTCAATGTAAAACCATGTCTAGGACATGGCATCGACATGAGATGTGAGAGCCAGTGTAAGACCAT
GTCTAGGACATGGCATCAGCCTCGATTTCGATA
Found at i:110709851 original size:40 final size:40
Alignment explanation
Indices: 110709807--110710032 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
110709797 GCTACTCGTT
* * *
110709807 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
110709847 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
110709887 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
110709927 CAAATGCCTTC-GAATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
110709967 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* * *
110710008 CAGA-GCCTTTGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
110710033 CATCATTCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:110717987 original size:40 final size:40
Alignment explanation
Indices: 110717879--110718088 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
110717869 CGGGATTTAA
* * * * *
110717879 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
110717919 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
110717959 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
110717999 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
110718039 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
110718079 CCGGATATAT
1 CCGGATATAT
110718089 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:110723289 original size:14 final size:14
Alignment explanation
Indices: 110723256--110723283 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110723246 AATCAATCGA
110723256 ATTTTCCCAAAATT
1 ATTTTCCCAAAATT
110723270 ATTTTCCCAAAATT
1 ATTTTCCCAAAATT
110723284 TCTTTCTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTTCCCAAAATT
Found at i:110725721 original size:25 final size:25
Alignment explanation
Indices: 110725671--110725724 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
110725661 GATGAATTTC
*
110725671 AAAACAATTAAATGGAGGACGCTAT
1 AAAACAATTAAATGGAGCACGCTAT
* *
110725696 AAAACAATTACATGGTA-CACGTTAT
1 AAAACAATTAAATGG-AGCACGCTAT
110725721 AAAA
1 AAAA
110725725 TATTTAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (25 bp):
AAAACAATTAAATGGAGCACGCTAT
Found at i:110727075 original size:19 final size:19
Alignment explanation
Indices: 110727051--110727094 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
110727041 TATGAGCCAA
110727051 ATCTCATGGCTAATATTTT
1 ATCTCATGGCTAATATTTT
110727070 ATCTCATGGCTAATATTTT
1 ATCTCATGGCTAATATTTT
110727089 ATCTCA
1 ATCTCA
110727095 AAACACATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (19 bp):
ATCTCATGGCTAATATTTT
Found at i:110735611 original size:55 final size:54
Alignment explanation
Indices: 110735503--110735757 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
110735493 ATTAGGGTTT
* * * * *
110735503 AAGGATACCTTGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
110735558 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGG-C
* * * *
110735614 AAGG-TCCCATGTAAGACCATGGCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* *
110735666 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * * *
110735715 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
110735758 GTACCCACGT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 6 0.04
53 44 0.26
54 9 0.05
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:110735706 original size:108 final size:110
Alignment explanation
Indices: 110735513--110735710 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
110735503 AAGGATACCT
*
110735513 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
110735578 TGTCAAGACATGGCATTGGTAAGTTACTATAAGGAAAAGGTCCCA
66 TGTCAAGACATGGCAATGGTAAGTTACTATAAGGAAAAGGTCCCA
* * * *
110735623 TGTAAGACCATGGCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
110735685 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGGTAAGTT
110735711 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.60
109 7 0.09
110 22 0.27
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGGTAAGTTACTATAAGGAAAAGGTCCCA
Found at i:110735974 original size:16 final size:16
Alignment explanation
Indices: 110735953--110735983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110735943 ATAAATTTGA
110735953 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
110735969 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
110735984 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:110739102 original size:40 final size:40
Alignment explanation
Indices: 110739042--110739205 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
110739032 CGGGATTCAA
* ** *
110739042 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
110739082 CCGGATTTCGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
110739122 CCGGATATAACAACTCGCATGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCA-CAATTGCCTTCGGGTCTTAGC
* * * * *
110739162 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
110739202 CCGG
1 CCGG
110739206 GTATCATTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:110746980 original size:23 final size:23
Alignment explanation
Indices: 110746950--110746997 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
110746940 TACGCTTAGT
110746950 AAGTCCATATGAAATTAATAAGC
1 AAGTCCATATGAAATTAATAAGC
110746973 AAGTCCATATGAAATTAATAAGC
1 AAGTCCATATGAAATTAATAAGC
110746996 AA
1 AA
110746998 TTACTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (23 bp):
AAGTCCATATGAAATTAATAAGC
Found at i:110747909 original size:49 final size:49
Alignment explanation
Indices: 110747854--110748028 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
110747844 CTAGTATGCA
*
110747854 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * *
110747903 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
* *
110747954 TAGTAGCCTGCACTTAGTACTACATATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
110748003 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
110748029 AGTGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 65 0.59
50 6 0.05
51 39 0.35
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:110747983 original size:100 final size:100
Alignment explanation
Indices: 110747851--110748033 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
110747841 TATCTAGTAT
*
110747851 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
*
110747916 TTAGTACTACACACGTGATCGAAGTTATCGGGTAC
66 TTAGTACTACACAAGTGATCGAAGTTATCGGGTAC
* *
110747951 GCATAGTAGCCTGCACTTAGTACTACATATGCGACCAATTATCTGGTACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
110748016 TTAGTACTACACAAGTGA
66 TTAGTACTACACAAGTGA
110748034 CCTCACAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCAC
TTAGTACTACACAAGTGATCGAAGTTATCGGGTAC
Found at i:110748302 original size:27 final size:27
Alignment explanation
Indices: 110748262--110748315 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
110748252 AGGTACAACC
* *
110748262 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
110748289 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
110748316 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:110751768 original size:14 final size:14
Alignment explanation
Indices: 110751749--110751780 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
110751739 AAGTTATAAT
110751749 ATAGTTACAACGAA
1 ATAGTTACAACGAA
110751763 ATAGTTACAACGAA
1 ATAGTTACAACGAA
110751777 ATAG
1 ATAG
110751781 GTAAGTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (14 bp):
ATAGTTACAACGAA
Found at i:110757152 original size:16 final size:16
Alignment explanation
Indices: 110757131--110757163 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
110757121 AAATTAGATG
110757131 AAATGCATCTTTGATA
1 AAATGCATCTTTGATA
110757147 AAATGCATCTTTGATA
1 AAATGCATCTTTGATA
110757163 A
1 A
110757164 TGATATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
AAATGCATCTTTGATA
Found at i:110767982 original size:40 final size:40
Alignment explanation
Indices: 110767882--110768098 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
110767872 TAGATGATAA
* *
110767882 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
110767922 CCGGGCTAAG-CCTGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
110767961 CCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
110768001 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
110768041 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
110768081 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
110768099 TACCGGGTTG
Statistics
Matches: 161, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 50 0.31
40 111 0.69
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:110768052 original size:80 final size:80
Alignment explanation
Indices: 110767878--110768098 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 80
110767868 TATTTAGATG
* * *
110767878 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCTGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
110767941 ATTCGTGCGAGTTACT
65 ATTCGTGCGAGTTACT
* *
110767957 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
110768022 TTTGTGCGAGTTACT
66 TTCGTGCGAGTTACT
* * * *
110768037 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
110768099 TACCGGGTTG
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 65 0.51
80 62 0.49
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCGAGTTACT
Found at i:110769547 original size:16 final size:16
Alignment explanation
Indices: 110769528--110769580 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
110769518 ACTTTCTACG
110769528 AATTCTTAGTTTAGAT
1 AATTCTTAGTTTAGAT
* **
110769544 AATTAGTTAGTTT-TCT
1 AATT-CTTAGTTTAGAT
110769560 AAATTCTTAGTTTAGAT
1 -AATTCTTAGTTTAGAT
110769577 AATT
1 AATT
110769581 AGTTAGTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (16 bp):
AATTCTTAGTTTAGAT
Found at i:110769555 original size:17 final size:17
Alignment explanation
Indices: 110769533--110769588 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
110769523 CTACGAATTC
110769533 TTAGTTTAGATAATTAG
1 TTAGTTTAGATAATTAG
** *
110769550 TTAGTTT-TCTAAATT-C
1 TTAGTTTAGAT-AATTAG
110769566 TTAGTTTAGATAATTAG
1 TTAGTTTAGATAATTAG
110769583 TTAGTT
1 TTAGTT
110769589 AAAACCCCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (17 bp):
TTAGTTTAGATAATTAG
Found at i:110779995 original size:267 final size:267
Alignment explanation
Indices: 110779599--110780128 Score: 997
Period size: 267 Copynumber: 2.0 Consensus size: 267
110779589 TTGACTTTCC
* *
110779599 ATGAAGGAAGATGTAATGGTTACCATGAGATATAATAGGAACATATTGAGACAATGGATATTATC
1 ATGAAGAAAGATGTAATGGTTACCATGAGATAAAATAGGAACATATTGAGACAATGGATATTATC
* *
110779664 CCAAAGAGATCAATGACATCCTATAAGGATAACACAGTTATAAGGAATGATTATGGTTTTCTCTG
66 CCAAAGAGATCAATGACATCCTATAAGAATAACACAGTTATAAGGAATGATTATAGTTTTCTCTG
110779729 AAAAGGAAAAATGGAATCATTTGGAAATAAATGTAGGTTTCCAAAAATAGAAATGGAAATGAAAA
131 AAAAGGAAAAATGGAATCATTTGGAAATAAATGTAGGTTTCCAAAAATAGAAATGGAAATGAAAA
110779794 TGGAAATTTACCATCCTATATATGATTACTTAAAATATTATGAAAGAATGAGTTTATGTTTTTGA
196 TGGAAATTTACCATCCTATATATGATTACTTAAAATATTATGAAAGAATGAGTTTATGTTTTTGA
110779859 ACTGTTT
261 ACTGTTT
*
110779866 ATGAAGAAAGATGTAATGGTTACCATGATATAAAATAGGAACATATTGAGACAATGGATATTATC
1 ATGAAGAAAGATGTAATGGTTACCATGAGATAAAATAGGAACATATTGAGACAATGGATATTATC
* *
110779931 CCAAAGAGATCAATGATATCCTATACGAATAACACAGTTATAAGGAATGATTATAGTTTTCTCTG
66 CCAAAGAGATCAATGACATCCTATAAGAATAACACAGTTATAAGGAATGATTATAGTTTTCTCTG
110779996 AAAAGGAAAAATGGAATCATTTGGAAATAAATGTAGGTTTCCAAAAATAGAAATGGAAATGAAAA
131 AAAAGGAAAAATGGAATCATTTGGAAATAAATGTAGGTTTCCAAAAATAGAAATGGAAATGAAAA
110780061 TGGAAATTTACCATCCTATATATGATTACTTAAAATATTATGAAAGAATGAGTTTATGTTTTTGA
196 TGGAAATTTACCATCCTATATATGATTACTTAAAATATTATGAAAGAATGAGTTTATGTTTTTGA
110780126 ACT
261 ACT
110780129 ATTTTAAAGC
Statistics
Matches: 256, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
267 256 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (267 bp):
ATGAAGAAAGATGTAATGGTTACCATGAGATAAAATAGGAACATATTGAGACAATGGATATTATC
CCAAAGAGATCAATGACATCCTATAAGAATAACACAGTTATAAGGAATGATTATAGTTTTCTCTG
AAAAGGAAAAATGGAATCATTTGGAAATAAATGTAGGTTTCCAAAAATAGAAATGGAAATGAAAA
TGGAAATTTACCATCCTATATATGATTACTTAAAATATTATGAAAGAATGAGTTTATGTTTTTGA
ACTGTTT
Found at i:110780250 original size:26 final size:26
Alignment explanation
Indices: 110780210--110780269 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
110780200 AGTTTTCTTG
110780210 AAATTTTACCAAGGGAAAAATCATCA
1 AAATTTTACCAAGGGAAAAATCATCA
* * * * *
110780236 AAATTTTACCGAGGGCAAGATCGTTA
1 AAATTTTACCAAGGGAAAAATCATCA
110780262 AAATTTTA
1 AAATTTTA
110780270 TCGGAGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCATCA
Found at i:110785625 original size:44 final size:43
Alignment explanation
Indices: 110785482--110785640 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
110785472 GACTCATACA
* * *
110785482 ATGCCAACATCCTAGACGTGGTCTTACTTGT-AATCAAATGTCA
1 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCAAA-GTCG
**
110785525 ATGCC-ACTATCCCAGACAG-GGTCTTACA-CAAAATCAAA-TACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAAATCAAAGT-CG
110785567 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCA-AAGTCG
* *
110785611 ATGCCAAGATCCCAGATGTGGTCTTACATG
1 ATGCCAACATCCCAGACGTGGTCTTACATG
110785641 AGAACACATA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 26 0.27
43 36 0.37
44 33 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGTAAATCAAAGTCG
Found at i:110788451 original size:93 final size:93
Alignment explanation
Indices: 110788339--110788510 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
110788329 CGCCCATAAG
***
110788339 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
110788404 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
110788432 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
110788497 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
110788511 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:110788507 original size:46 final size:46
Alignment explanation
Indices: 110788332--110788507 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
110788322 TGTAACCCGC
* ***
110788332 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
110788378 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
110788428 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
110788471 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
110788508 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:110794540 original size:29 final size:29
Alignment explanation
Indices: 110794507--110794637 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
110794497 TGACGAGATC
*
110794507 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
110794536 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
110794565 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
110794594 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
110794623 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
110794638 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:110799907 original size:34 final size:34
Alignment explanation
Indices: 110799869--110799937 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
110799859 TATACATAGT
110799869 TTTTTTTTTTAAGAACATGTTAGATAATATAGAC
1 TTTTTTTTTTAAGAACATGTTAGATAATATAGAC
110799903 TTTTTTTTTTAAGAACATGTTAGATAATATAGAC
1 TTTTTTTTTTAAGAACATGTTAGATAATATAGAC
110799937 T
1 T
110799938 AAATATCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTTTTTTTTAAGAACATGTTAGATAATATAGAC
Found at i:110812492 original size:33 final size:33
Alignment explanation
Indices: 110812450--110812516 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
110812440 TTTACCCCTA
110812450 GGGTTTAATTATGAATTTGATGCATGAGATTTT
1 GGGTTTAATTATGAATTTGATGCATGAGATTTT
110812483 GGGTTTAATTATGAATTTGATGCATGAGATTTT
1 GGGTTTAATTATGAATTTGATGCATGAGATTTT
110812516 G
1 G
110812517 ATATACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.25, T:0.45
Consensus pattern (33 bp):
GGGTTTAATTATGAATTTGATGCATGAGATTTT
Found at i:110812668 original size:25 final size:26
Alignment explanation
Indices: 110812595--110812666 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
110812585 GAGGAAGTGC
* * *
110812595 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
* *
110812620 AAAAGGGCTTTTACTCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
110812646 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
110812667 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 8 0.21
26 31 0.79
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:110812679 original size:25 final size:26
Alignment explanation
Indices: 110812607--110812679 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
110812597 AAGGGCTATG
*
110812607 CCCCAGTTTACCGAAAAG-GGCTTTTA
1 CCCCAGTTTATC-AAAAGAGGCTTTTA
* *
110812633 CTCCAGTTTATCAAAA-AGGGCTTTTG
1 CCCCAGTTTATCAAAAGA-GGCTTTTA
*
110812659 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAGAGGCT
110812680 AGGCCTCCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 16 0.41
26 23 0.59
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (26 bp):
CCCCAGTTTATCAAAAGAGGCTTTTA
Found at i:110815998 original size:25 final size:25
Alignment explanation
Indices: 110815970--110816017 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
110815960 TTATACCATG
* * *
110815970 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
110815995 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
110816018 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:110816120 original size:20 final size:20
Alignment explanation
Indices: 110816060--110816120 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
110816050 ATAAATGTGG
*
110816060 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
110816080 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
110816100 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
110816120 T
1 T
110816121 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:110816196 original size:24 final size:24
Alignment explanation
Indices: 110816170--110816335 Score: 221
Period size: 24 Copynumber: 7.0 Consensus size: 24
110816160 GAGGAAGTGA
110816170 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
110816193 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
110816217 AAAATGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
110816241 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
110816264 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
110816288 GAAAGGGATTCTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
110816312 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
110816336 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 35 0.27
24 84 0.65
25 10 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:110816245 original size:47 final size:46
Alignment explanation
Indices: 110816170--110816335 Score: 201
Period size: 47 Copynumber: 3.5 Consensus size: 46
110816160 GAGGAAGTGA
110816170 AAAAGGGCTTATG-CCCAGTTATCAAAAAGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATC-AAAAGGCTTATGCCCCAGTTAT
*
110816216 CAAAATGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAA-GGCTTATGCCCCAGTTAT
* * * *
110816264 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGATTCTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TCAAAAGGCTTATGCCCCAGTTA-T
*
110816312 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
110816336 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
47 52 0.49
48 44 0.42
49 10 0.09
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGCTTATGCCCCAGTTAT
Found at i:110816286 original size:71 final size:71
Alignment explanation
Indices: 110816170--110816336 Score: 221
Period size: 71 Copynumber: 2.3 Consensus size: 71
110816160 GAGGAAGTGA
* *
110816170 AAAAGGGCTTATG-CCCAGTTATCAAAAAGGCTTATGCCCCAGTTATCAAAATGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAAGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
110816234 AGTTATC
65 AGTTATC
* ** *
110816241 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGATTCTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCA
*
110816306 GTTATT
66 GTTATC
*
110816312 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
110816337 TGATAAAGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 64 0.75
72 21 0.25
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCA
GTTATC
Found at i:110816564 original size:31 final size:31
Alignment explanation
Indices: 110816526--110816589 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
110816516 CCGTTACAGT
110816526 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
110816557 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
110816588 AA
1 AA
110816590 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:110833720 original size:25 final size:25
Alignment explanation
Indices: 110833691--110833738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
110833681 TTATAATATG
** *
110833691 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
110833716 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
110833739 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:110833922 original size:25 final size:26
Alignment explanation
Indices: 110833851--110833920 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
110833841 GGAAGTGCAG
* *
110833851 AAGGGC-TATGCCCCAGTTT-TCTGAA
1 AAGGGCTTTTGCCCCAGTTTATC-AAA
110833876 AAGGGCTTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTTGCCCCAGTTTATCAAA
*
110833902 AAGGGCTTTTGCCCTAGTT
1 AAGGGCTTTTGCCCCAGTT
110833921 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 6 0.15
26 32 0.80
27 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (26 bp):
AAGGGCTTTTGCCCCAGTTTATCAAA
Found at i:110833933 original size:25 final size:26
Alignment explanation
Indices: 110833859--110833933 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
110833849 AGAAGGGCTA
110833859 TGCCCCAGTTT-TCTGAAAAG-GGCTTT
1 TGCCCCAGTTTATC--AAAAGAGGCTTT
110833885 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
* *
110833911 TGCCCTAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
110833934 AGGCCTCCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
25 16 0.37
26 25 0.58
27 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:110834188 original size:31 final size:31
Alignment explanation
Indices: 110834141--110834223 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
110834131 CGTTATAGTA
*
110834141 AAGGTTTCGGCCCAGTGATATGAATAATGTG
1 AAGGCTTCGGCCCAGTGATATGAATAATGTG
*
110834172 AAGGCTTCAGCCCAGTGATATGAATAATGTG
1 AAGGCTTCGGCCCAGTGATATGAATAATGTG
*
110834203 ATGGCTTCGGCCCAGT-ATATG
1 AAGGCTTCGGCCCAGTGATATG
110834224 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGAATAATGTG
Found at i:110853724 original size:43 final size:44
Alignment explanation
Indices: 110853675--110853831 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
110853665 GTTTACCAAG
*
110853675 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
**
110853719 -TGTGATTA-AGTGTAAGACCATGGATGGGACATTGGCATCGT-T
1 ATGTGATTACA-TGTAAGACCATGTCTGGGACATTGGCATCGTAT
*** *
110853761 ATGTGATTTTGTGTAAGACCATAGT-TAGG-CTATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTAT
* * *
110853804 ATGAGATAACATGTAAGACCATATCTGG
1 ATGTGATTACATGTAAGACCATGTCTGG
110853832 AATATGGAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 4 0.04
43 87 0.95
44 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:110861480 original size:40 final size:39
Alignment explanation
Indices: 110861315--110861498 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
110861305 AAATTGAATG
* * *
110861315 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
110861355 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
110861395 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
110861435 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
110861474 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
110861499 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:110861523 original size:80 final size:81
Alignment explanation
Indices: 110861355--110861543 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
110861345 GCTGGAAATT
* * * *
110861355 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
110861420 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
110861436 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
110861499 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
110861515 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
110861544 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:110870619 original size:19 final size:20
Alignment explanation
Indices: 110870587--110870624 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
110870577 TTTAAAATTT
*
110870587 TTTTTATTTATTATTTTATG
1 TTTTTACTTATTATTTTATG
110870607 TTTTTACTT-TTATTTTAT
1 TTTTTACTTATTATTTTAT
110870625 TTTAAGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTACTTATTATTTTATG
Found at i:110879266 original size:46 final size:46
Alignment explanation
Indices: 110879216--110879391 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
110879206 TGGTTGAGCA
*
110879216 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110879262 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
110879307 CATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110879354 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110879392 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.57
47 27 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110879381 original size:93 final size:93
Alignment explanation
Indices: 110879213--110879384 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
110879203 GGATGGTTGA
* **
110879213 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
110879278 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
110879306 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
110879370 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
110879385 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110889786 original size:17 final size:18
Alignment explanation
Indices: 110889744--110889792 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
110889734 AGTTGAAAAG
110889744 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
110889763 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
110889780 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
110889793 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:110890678 original size:40 final size:40
Alignment explanation
Indices: 110890612--110890778 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
110890602 AAATTGAATG
* * *
110890612 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
110890651 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
110890691 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
110890731 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
110890771 ATATCCGG
1 ATATCCGG
110890779 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:110897791 original size:17 final size:18
Alignment explanation
Indices: 110897749--110897797 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
110897739 AGTTGAAAAG
110897749 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
110897768 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
110897785 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
110897798 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:110898684 original size:40 final size:40
Alignment explanation
Indices: 110898618--110898784 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
110898608 AAATTGAATG
* * *
110898618 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
110898657 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
110898697 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
110898737 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
110898777 ATATCCGG
1 ATATCCGG
110898785 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:110901223 original size:40 final size:39
Alignment explanation
Indices: 110901112--110901262 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
110901102 TTAATCACGT
* * *
110901112 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
110901152 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
110901192 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
110901232 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
110901263 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:110901246 original size:80 final size:79
Alignment explanation
Indices: 110901112--110901262 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
110901102 TTAATCACGT
*
110901112 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
110901177 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
110901192 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
110901255 CCGGATAT
64 CCGGATAT
110901263 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:110909221 original size:40 final size:39
Alignment explanation
Indices: 110909110--110909260 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
110909100 TTAATCACGT
* * *
110909110 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
110909150 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
110909190 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
110909230 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
110909261 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:110909244 original size:80 final size:79
Alignment explanation
Indices: 110909110--110909260 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
110909100 TTAATCACGT
*
110909110 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
110909175 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
110909190 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
110909253 CCGGATAT
64 CCGGATAT
110909261 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:110912568 original size:24 final size:24
Alignment explanation
Indices: 110912537--110912582 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
110912527 AGTTTATCGA
**
110912537 AAAGGGCTTTGCC-CCAGTTATTT
1 AAAGGGCTAGGCCTCCAGTTATTT
110912560 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
110912583 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTT
Found at i:110913934 original size:26 final size:26
Alignment explanation
Indices: 110913902--110913957 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
110913892 AAATTAAAAG
110913902 AAAAGAAAAACAAACGAA-GAAGAAGA
1 AAAAGAAAAA-AAACGAATGAAGAAGA
* * *
110913928 AAAAGAAAGAAAAGGAATGAAGGAGA
1 AAAAGAAAAAAAACGAATGAAGAAGA
110913954 AAAA
1 AAAA
110913958 AGATACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAAAAACGAATGAAGAAGA
Found at i:110916870 original size:40 final size:40
Alignment explanation
Indices: 110916825--110916954 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
110916815 CGGAATACAA
110916825 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
110916865 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
110916905 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
110916945 CCGGATATAA
1 CCGGATATAA
110916955 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:110916969 original size:40 final size:40
Alignment explanation
Indices: 110916825--110916987 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
110916815 CGGAATACAA
* **
110916825 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
110916865 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
110916905 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
110916945 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
110916984 CCGG
1 CCGG
110916988 TATCATTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:110924917 original size:40 final size:40
Alignment explanation
Indices: 110924872--110925001 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
110924862 CGGAATACAA
110924872 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
110924912 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
110924952 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
110924992 CCGGATATAA
1 CCGGATATAA
110925002 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:110925016 original size:40 final size:40
Alignment explanation
Indices: 110924872--110925035 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
110924862 CGGAATACAA
* **
110924872 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
110924912 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
110924952 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
110924992 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
110925032 CCGG
1 CCGG
110925036 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:110933371 original size:13 final size:13
Alignment explanation
Indices: 110933338--110933378 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
110933328 CTCTTTGCTT
* *
110933338 TAATTAGATTAGT
1 TAATTAGTTTAGA
110933351 TAATTAGTTTAGA
1 TAATTAGTTTAGA
110933364 TAATTAGTTTA-A
1 TAATTAGTTTAGA
110933376 TAA
1 TAA
110933379 ACAAACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (13 bp):
TAATTAGTTTAGA
Found at i:110938772 original size:6 final size:6
Alignment explanation
Indices: 110938761--110938848 Score: 160
Period size: 6 Copynumber: 14.8 Consensus size: 6
110938751 TCCTTCTATC
110938761 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
110938809 TTTTTA TTTTTA TTTTTA TTTTCA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
110938849 TTGAAAGACA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
5 5 0.06
6 74 0.94
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:110941773 original size:13 final size:13
Alignment explanation
Indices: 110941757--110941789 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
110941747 TTTAATTAAA
*
110941757 TTAGTTAATTAGT
1 TTAGATAATTAGT
110941770 TTAGATAATTAGT
1 TTAGATAATTAGT
110941783 TTA-ATAA
1 TTAGATAA
110941790 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:110945966 original size:43 final size:42
Alignment explanation
Indices: 110945900--110946019 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 42
110945890 GTTTATTGGA
* * *
110945900 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGTGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGT-GC
110945943 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGC
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGC
*
110945985 ATAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGC
1 A-AAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGC
110946020 ACTTTTTTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 2 0.03
43 70 0.97
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGC
Found at i:110946038 original size:43 final size:42
Alignment explanation
Indices: 110945900--110946043 Score: 173
Period size: 43 Copynumber: 3.4 Consensus size: 42
110945890 GTTTATTGGA
* * *
110945900 AAAAACGCCGCTAAAGGTCAGGGCTTTTAGCGGTGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTT-TTGT
* *
110945943 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTGTGC
1 AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTTTGT
* * *
110945985 ATAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCACTTTTTTT
1 A-AAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGC-GTTTTTGT
110946029 ACAAA-CGCCGCTAAA
1 A-AAAGCGCCGCTAAA
110946044 TTTGGCAGAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.02
43 78 0.89
44 8 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTTTGT
Found at i:110946130 original size:31 final size:31
Alignment explanation
Indices: 110946095--110946175 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
110946085 CATCCTGCAT
* *
110946095 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
110946126 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
110946157 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
110946176 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:110946444 original size:21 final size:21
Alignment explanation
Indices: 110946420--110946465 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
110946410 GCTCGTGCCT
*
110946420 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
110946441 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
110946462 CTGC
1 CTGC
110946466 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:110952090 original size:9 final size:9
Alignment explanation
Indices: 110952076--110952290 Score: 116
Period size: 9 Copynumber: 23.6 Consensus size: 9
110952066 TATTTAAGTA
110952076 TTATGTAAG
1 TTATGTAAG
110952085 TTATGT-A-
1 TTATGTAAG
*
110952092 TTATGATATG
1 TTATG-TAAG
* * *
110952102 ATATAT-AT
1 TTATGTAAG
*
110952110 TTATGTAAA
1 TTATGTAAG
* *
110952119 TTATAT-AT
1 TTATGTAAG
*
110952127 TTATCTAAG
1 TTATGTAAG
*
110952136 TTATATAAG
1 TTATGTAAG
110952145 TTATGTAAG
1 TTATGTAAG
* *
110952154 TTATATAAA
1 TTATGTAAG
*
110952163 TTATGATATAAAA
1 TTATG---T-AAG
*
110952176 TATATTTAAG
1 T-TATGTAAG
110952186 TATTATGTAAG
1 --TTATGTAAG
110952197 TTATGTAAG
1 TTATGTAAG
* *
110952206 TTATAT-AT
1 TTATGTAAG
*
110952214 TTATCTAAG
1 TTATGTAAG
*
110952223 TTATATAAG
1 TTATGTAAG
*
110952232 TTATATAAG
1 TTATGTAAG
*
110952241 TTATGTATG
1 TTATGTAAG
*
110952250 TTATATAAG
1 TTATGTAAG
*
110952259 TTATGTATG
1 TTATGTAAG
*
110952268 TTATATAAG
1 TTATGTAAG
*
110952277 TTATGTAAA
1 TTATGTAAG
110952286 TTATG
1 TTATG
110952291 ATATGCGTAG
Statistics
Matches: 158, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
7 5 0.03
8 18 0.11
9 113 0.72
10 5 0.03
11 8 0.05
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:110952153 original size:18 final size:18
Alignment explanation
Indices: 110952076--110952289 Score: 159
Period size: 18 Copynumber: 11.7 Consensus size: 18
110952066 TATTTAAGTA
*
110952076 TTATGTAAGTTATGT-A-
1 TTATGTAAGTTATATAAG
* * *
110952092 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
110952110 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
110952127 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
110952145 TTATGTAAGTTATATAAA
1 TTATGTAAGTTATATAAG
* *
110952163 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
110952186 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
110952206 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
110952223 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
110952241 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
110952259 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
110952277 TTATGTAAATTAT
1 TTATGTAAGTTAT
110952290 GATATGCGTA
Statistics
Matches: 162, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
16 5 0.03
17 45 0.28
18 86 0.53
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:110953545 original size:361 final size:362
Alignment explanation
Indices: 110952317--110954001 Score: 3300
Period size: 362 Copynumber: 4.7 Consensus size: 362
110952307 TGAGCAATCG
*
110952317 TTATAAGTAAATTGGAAATAAATTAAAGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
1 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
110952382 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
66 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
110952447 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
131 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
110952512 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
196 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
110952577 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
261 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
110952642 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
326 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
110952679 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
1 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
110952744 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
66 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
* *
110952809 TCTTGCAGCTCAATATAAGGCAACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATA
131 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
110952874 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
196 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
110952939 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTT
261 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTT
110953004 GAATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
325 GAATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
110953042 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
1 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
110953107 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
66 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
110953172 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
131 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
110953237 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGAT-AAAAGTAGTTATAACTT
196 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
110953301 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
261 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
110953366 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
326 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
110953403 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
1 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
*
110953468 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGATGATCCATTATA
66 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
110953533 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
131 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
*
110953598 TTTAAAATAAGGTTGGAGAGAAGGTTAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
196 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
110953663 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
261 TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
110953728 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
326 AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
110953765 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
1 TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
*
110953830 TTCTTTTTAAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
66 TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
110953895 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
131 TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
110953960 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATT
196 TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATT
110954002 ATAATGGGCA
Statistics
Matches: 1311, Mismatches: 10, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
361 293 0.22
362 725 0.55
363 293 0.22
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (362 bp):
TTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAA
TTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA
TCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATA
TTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTT
TTAAAGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTG
AATATAATAATATCAAAAAAGAATCGTAGTTTAATTT
Found at i:110957538 original size:15 final size:15
Alignment explanation
Indices: 110957518--110957548 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110957508 CAAATAATAA
*
110957518 TATATATATTTATCT
1 TATATACATTTATCT
110957533 TATATACATTTATCT
1 TATATACATTTATCT
110957548 T
1 T
110957549 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:110957941 original size:25 final size:25
Alignment explanation
Indices: 110957913--110957964 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
110957903 TTTCTAGCTA
110957913 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTCAACAAATGCTAATTCCAC
110957938 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTCAACAAATGCTAATTCCAC
110957963 AT
1 AT
110957965 TCAAAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTCAACAAATGCTAATTCCAC
Found at i:110958182 original size:36 final size:38
Alignment explanation
Indices: 110958141--110958216 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
110958131 CTTCAAATAC
* * *
110958141 TAGTTAACTCCTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGTTAAACCCTAAACCATATA
110958177 TAGTTAACTCATAAACCTGTTTAAACCCTAAACCATATA
1 TAGTTAACTCATAAACCTG-TTAAACCCTAAACCATATA
110958216 T
1 T
110958217 CTTAAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
39 17 0.50
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGTTAAACCCTAAACCATATA
Found at i:110958484 original size:41 final size:41
Alignment explanation
Indices: 110958439--110958718 Score: 386
Period size: 41 Copynumber: 6.9 Consensus size: 41
110958429 AACCGGAGCA
110958439 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
*
110958480 TTAGCGGTGCTATTGGTAAAACGCCGCTAATGCTACGCTTT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
110958521 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
* *
110958562 TTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCT-CAGCTCT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTAC-GCTTT
* * * *
110958603 TTAGTGGCGCTCTTGGTAAAACGCCGCTAATGCTCCGCTTT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
* *
110958644 TTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCT-CTG-TTT
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTAC-GCTTT
* * ** * *
110958684 TTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTA
1 TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTA
110958719 TGTATTTTAA
Statistics
Matches: 219, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 35 0.16
41 183 0.84
42 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TTAGCGGTGCTTTTGGTAAAACGCCGCTAATGCTACGCTTT
Found at i:110958947 original size:41 final size:41
Alignment explanation
Indices: 110958885--110959114 Score: 304
Period size: 41 Copynumber: 5.7 Consensus size: 41
110958875 GCATTTCGGT
*
110958885 GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGC
* *
110958926 GCTTTTGGTAAAACGCTGCTAATGCTACGC-TTTTAGCGGT
1 GCTTTTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGC
* *
110958966 GCTTTTGGTAAAATGCCGCTAATGCT-CAGCTCTTTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAATGCTAC-GCTTTTTAGCGGC
* *
110959007 GCTTTTGGTAAAATGCCGCTAATGCTCCGCTTTTTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGC
**
110959048 GCTTTTGGTAAAACGCCGCTAATGCT-CTATTTTTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGC
* ** * *
110959088 GTTTTTATTGAAACGCCGCTATTGCTA
1 GCTTTTGGTAAAACGCCGCTAATGCTA
110959115 TGTATTTTAA
Statistics
Matches: 169, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 68 0.40
41 99 0.59
42 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (41 bp):
GCTTTTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGC
Found at i:110958984 original size:81 final size:82
Alignment explanation
Indices: 110958881--110959072 Score: 298
Period size: 81 Copynumber: 2.4 Consensus size: 82
110958871 TTAGGCATTT
* *
110958881 CGGTGCTTTTGGTAAAACGCCGCTAATGCA-ACGCTTTTTAGCGGCGCTTTTGGTAAAACGCTGC
1 CGGTGCTTTTGGTAAAACGCCGCTAATGCACA-GCTCTTTAGCGGCGCTTTTGGTAAAACGCCGC
110958945 TAATGCTACGC-TTTTAG
65 TAATGCTACGCTTTTTAG
* * *
110958962 CGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCTTTTGGTAAAATGCCGCT
1 CGGTGCTTTTGGTAAAACGCCGCTAATGCACAGCTCTTTAGCGGCGCTTTTGGTAAAACGCCGCT
*
110959027 AATGCTCCGCTTTTTAG
66 AATGCTACGCTTTTTAG
*
110959044 CGGCGCTTTTGGTAAAACGCCGCTAATGC
1 CGGTGCTTTTGGTAAAACGCCGCTAATGC
110959073 TCTATTTTTA
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 67 0.66
82 34 0.34
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (82 bp):
CGGTGCTTTTGGTAAAACGCCGCTAATGCACAGCTCTTTAGCGGCGCTTTTGGTAAAACGCCGCT
AATGCTACGCTTTTTAG
Found at i:110959083 original size:81 final size:79
Alignment explanation
Indices: 110958885--110959114 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 79
110958875 GCATTTCGGT
* * *
110958885 GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCTGCTAATG
1 GCTTTTGGTAAAACGCCGCTAATGC-TC-ATTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
*
110958950 CTACGCTTTTAGCGGT
64 CTACGCTTTTAGCGGC
* * *
110958966 GCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCTTTTGGTAAAATGCCGCTAATG
1 GCTTTTGGTAAAACGCCGCTAATGCTCA--TTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
*
110959031 CTCCGCTTTTTAGCGGC
64 CTACGC-TTTTAGCGGC
* ** * *
110959048 GCTTTTGGTAAAACGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGC
1 GCTTTTGGTAAAACGCCGCTAATGCTC-ATTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGC
110959113 TA
65 TA
110959115 TGTATTTTAA
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 91 0.71
82 35 0.27
83 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (79 bp):
GCTTTTGGTAAAACGCCGCTAATGCTCATTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCT
ACGCTTTTAGCGGC
Found at i:110959106 original size:122 final size:122
Alignment explanation
Indices: 110958885--110959113 Score: 325
Period size: 122 Copynumber: 1.9 Consensus size: 122
110958875 GCATTTCGGT
*
110958885 GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCTGCTAATG
1 GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
* * * *
110958950 CTACGCTTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGC
66 CTACACTTTTAGCGGCGCTTTTAGTAAAACGCCGCTAATGCTCAGCTCTTTAGCGGC
* **
110959007 GCTTTTGGTAAAATGCCGCTAATGCTCCGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
1 GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
* * * * *
110959072 CT-CTATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCT
66 CTAC-ACTTTTAGCGGCGCTTTTAGTAAAACGCCGCTAATGCT
110959114 ATGTATTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 92 0.99
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (122 bp):
GCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATG
CTACACTTTTAGCGGCGCTTTTAGTAAAACGCCGCTAATGCTCAGCTCTTTAGCGGC
Found at i:110959217 original size:396 final size:397
Alignment explanation
Indices: 110958484--110959280 Score: 1479
Period size: 396 Copynumber: 2.0 Consensus size: 397
110958474 CGCTTTTTAG
* *
110958484 CGGTGCTATTGGTAAAACGCCGCTAATGCTACGCTTTTTAGCGGTGCTTTTGGTAAAACGCCGCT
1 CGGTGCTATTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCT
*
110958549 AATGCTACGCTTTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGTGGCGCT
66 AATGCTACGCTTTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCT
*
110958614 CTTGGTAAAACGCCGCTAATGCTCCGCTTTTTAGCGGCGTTTTTGGTAAAACGCCGCTAATGCTC
131 CTTGGTAAAACGCCGCTAATGCTCCGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCTC
*
110958679 TGTTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTATGTATTTTAAAATTTTTACGGCGTT
196 TATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTATGTATTTTAAAATTTTTACGGCGTT
* *
110958744 TGTTGATAAAACGCCGCTAAAGCCCTATTTTCCTGTAGTGTGTCGTTCAGTAATAATATATCATA
261 TGTTGATAAAACGCCGCTAAAGCCCTATTTTCCTGTAGTGTGCCATTCAGTAATAATATATCATA
110958809 AGAGAAAATAAATAATGTGGGATTAAAATCCTCCATCCACACTCAAACTGTGCTATAATTCCTTA
326 AGAGAAAATAAATAATGTGGGATTAAAATCCTCCATCCACACTCAAACTGTGCTATAATTCCTTA
110958874 GGCATTT
391 GGCATTT
* *
110958881 CGGTGCTTTTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCTGCT
1 CGGTGCTATTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCT
110958946 AATGCTACGC-TTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCT
66 AATGCTACGCTTTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCT
* *
110959010 TTTGGTAAAATGCCGCTAATGCTCCGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCTC
131 CTTGGTAAAACGCCGCTAATGCTCCGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCTC
*
110959075 TATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTATGTATTTTAAAATTTTTGCGGCGTT
196 TATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTATGTATTTTAAAATTTTTACGGCGTT
110959140 TGTTGATAAAACGCCGCTAAAGCCCTATTTTCCTGTAGTGTGCCATTCAGTAATAATATATCATA
261 TGTTGATAAAACGCCGCTAAAGCCCTATTTTCCTGTAGTGTGCCATTCAGTAATAATATATCATA
110959205 AGAGAAAATAAATAATGTGGGATTAAAATCCTCCATCCACACTCAAACTGTGCTATAATTCCTTA
326 AGAGAAAATAAATAATGTGGGATTAAAATCCTCCATCCACACTCAAACTGTGCTATAATTCCTTA
110959270 GGCATTT
391 GGCATTT
110959277 CGGT
1 CGGT
110959281 TTAATCTCAT
Statistics
Matches: 388, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
396 317 0.82
397 71 0.18
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (397 bp):
CGGTGCTATTGGTAAAACGCCGCTAATGCAACGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCT
AATGCTACGCTTTTTAGCGGTGCTTTTGGTAAAATGCCGCTAATGCTCAGCTCTTTAGCGGCGCT
CTTGGTAAAACGCCGCTAATGCTCCGCTTTTTAGCGGCGCTTTTGGTAAAACGCCGCTAATGCTC
TATTTTTAGCGGCGTTTTTATTGAAACGCCGCTATTGCTATGTATTTTAAAATTTTTACGGCGTT
TGTTGATAAAACGCCGCTAAAGCCCTATTTTCCTGTAGTGTGCCATTCAGTAATAATATATCATA
AGAGAAAATAAATAATGTGGGATTAAAATCCTCCATCCACACTCAAACTGTGCTATAATTCCTTA
GGCATTT
Found at i:110959553 original size:28 final size:29
Alignment explanation
Indices: 110959521--110959619 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
110959511 ATAATAAGCC
*
110959521 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
110959549 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
110959577 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
110959606 CGCACACTTAGTGC
1 CGCACACTTAGTGC
110959620 CAATTCATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:110970395 original size:48 final size:48
Alignment explanation
Indices: 110970327--110970492 Score: 176
Period size: 48 Copynumber: 3.5 Consensus size: 48
110970317 CTGACGCCAA
* * *
110970327 GTCCCAGACAGGTCTCACACTAGCTTATATATCGCGAGGCTGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTTATAAATCGCGAGGCTGATGCAT
* * * *
110970375 GTCCCAGACATGTCTTACACTGGCTTAAAAATCTCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTAGCTTATAAATCGCGAGGCTGATGCAT
* * * * * * *
110970423 GTCCCAGACATGCCTTACAGTGGC-TCT-CAT-GCTGTGGCTAATGCAT
1 GTCCCAGACATGTCTTACACTAGCTTATAAATCGC-GAGGCTGATGCAT
110970469 GTCCCAGACATGTCTTACACTAGC
1 GTCCCAGACATGTCTTACACTAGC
110970493 ACACATATCA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.01
46 33 0.34
47 1 0.01
48 63 0.64
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (48 bp):
GTCCCAGACATGTCTTACACTAGCTTATAAATCGCGAGGCTGATGCAT
Found at i:110973478 original size:27 final size:28
Alignment explanation
Indices: 110973448--110973517 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
110973438 ATAATAAGTC
*
110973448 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
110973475 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
110973503 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110973518 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:110981548 original size:27 final size:28
Alignment explanation
Indices: 110981518--110981587 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
110981508 ATAATAAGTC
*
110981518 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
110981545 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
110981573 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110981588 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:110989961 original size:40 final size:40
Alignment explanation
Indices: 110989906--110990103 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
110989896 TAGCCCGTTA
*
110989906 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
110989946 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
110989986 TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
110990026 TAGTAACTCACACAATTGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
110990066 TAGTAACTTAGCACAGA-GCCTTCGAGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCG-GATCTTAGTCCGGA
110990104 CATCATTCGA
Statistics
Matches: 144, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.92
41 8 0.06
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:110990818 original size:2 final size:2
Alignment explanation
Indices: 110990811--110990836 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110990801 ATGTGCAAAC
110990811 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
110990837 GCAAGAGCCG
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):
AT
Found at i:110995075 original size:26 final size:26
Alignment explanation
Indices: 110995046--110995099 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
110995036 GGGAGTTAGT
110995046 AAATTTGAAGGAATGAATCATTTTTA
1 AAATTTGAAGGAATGAATCATTTTTA
*
110995072 AAATTTTAAGGAATGAATCATTTTTA
1 AAATTTGAAGGAATGAATCATTTTTA
110995098 AA
1 AA
110995100 GAAACTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (26 bp):
AAATTTGAAGGAATGAATCATTTTTA
Found at i:110996281 original size:11 final size:10
Alignment explanation
Indices: 110996253--110996285 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
110996243 ATGACAAAAA
110996253 ATATTTTTA-
1 ATATTTTTAT
110996262 ATATTTTTAT
1 ATATTTTTAT
110996272 ATATTTTT-T
1 ATATTTTTAT
110996281 ATATT
1 ATATT
110996286 AAAATACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:110997520 original size:29 final size:26
Alignment explanation
Indices: 110997453--110997505 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
110997443 AAAATTTCAG
110997453 TCACCGTCCATCAACCACCATCAACT
1 TCACCGTCCATCAACCACCATCAACT
110997479 TCACCGTCCATCAACCACCATCAACT
1 TCACCGTCCATCAACCACCATCAACT
110997505 T
1 T
110997506 TTCTTACGTC
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:0.30, C:0.45, G:0.04, T:0.21
Consensus pattern (26 bp):
TCACCGTCCATCAACCACCATCAACT
Found at i:111000664 original size:10 final size:10
Alignment explanation
Indices: 111000599--111000671 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
111000589 TTTAACAAAC
111000599 TAAAAAA-TA
1 TAAAAAATTA
* *
111000608 TCAAAATTTA
1 TAAAAAATTA
*
111000618 TTAAAAATTCA
1 TAAAAAATT-A
111000629 -AAAAAATTAA
1 TAAAAAATT-A
*
111000639 TAAAGAATT-
1 TAAAAAATTA
111000648 T-AAAAATTA
1 TAAAAAATTA
*
111000657 TAAAAAATGA
1 TAAAAAATTA
111000667 TAAAA
1 TAAAA
111000672 TTATAATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.12
9 7 0.14
10 29 0.58
11 8 0.16
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:111008382 original size:93 final size:92
Alignment explanation
Indices: 111008223--111008394 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 92
111008213 CTTGTGTGAA
* *
111008223 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAAGCCAGTGTAAGACCATGTCTG
1 CTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGACGAAGCCAGTGTAAGACCATGTCTG
*
111008288 GGAGATGCCATCGGCAATGAGACAAGTG
66 GGACATG-CATCGGCAATGAGACAAGTG
* * * *
111008316 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCCA-GATGTAAGCTAGTGTAAGA-CATGTC
1 CTAGTGTAAGACATGTCTAGGACATGCATCAGCC-ACATGACG-AAGCCAGTGTAAGACCATGTC
111008379 TGGGACATGCATCGGC
64 TGGGACATGCATCGGC
111008395 TAAAAGATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 7 0.10
93 48 0.69
94 15 0.21
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGACGAAGCCAGTGTAAGACCATGTCTG
GGACATGCATCGGCAATGAGACAAGTG
Found at i:111008393 original size:46 final size:43
Alignment explanation
Indices: 111008223--111008394 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 43
111008213 CTTGTGTGAA
* * *
111008223 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GA-GAAG
* * * * *
111008268 CCAGTGTAAGACCATGTCTGGGAGATGCCATCGGCAATGAGACAAGTG
1 CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CTCAGAGAA--G
*
111008316 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCCAGATGTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAGA-G-AAG
111008362 CTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGC
111008395 TAAAAGATGT
Statistics
Matches: 104, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 11 0.11
46 59 0.57
47 20 0.19
48 14 0.13
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (43 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGAGAAG
Found at i:111008403 original size:46 final size:45
Alignment explanation
Indices: 111008223--111008481 Score: 165
Period size: 46 Copynumber: 5.6 Consensus size: 45
111008213 CTTGTGTGAA
* * ** *
111008223 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACG-AAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-AAGATGTAAG
* * * *
111008268 CCAGTGTAAGACCATGTCTGGGAGATGCCATCGGC-AATGA-GACAAGTG
1 CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCTAAAGATG-TAA--G
* **
111008316 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCCAGATGTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTAAAGATGTAAG
111008362 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAAGATGT--G
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCT-AAAGATGTAAG
* * * *
111008406 -TCACTATAAGACCATGTCTGGGACATGGCATCAG-TATAGATGTACTAG
1 CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAAAGATGTA--AG
*
111008454 AACTTGTGTAAGACCATGTCTGGG-CATG
1 --CTAGTGTAAGA-CATGTCTGGGACATG
111008482 GCGTCGATGT
Statistics
Matches: 173, Mismatches: 21, Indels: 37
0.75 0.09 0.16
Matches are distributed among these distances:
43 1 0.01
44 16 0.09
45 30 0.17
46 67 0.39
47 20 0.12
48 17 0.10
49 4 0.02
50 17 0.10
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAGATGTAAG
Found at i:111009503 original size:41 final size:41
Alignment explanation
Indices: 111009445--111009543 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
111009435 CATGTATTTA
* *
111009445 CACACGGGCCA-GAACACGGGCATGTCATGGTCATGTGAAG
1 CACACGGGCCAGGGACACGGGCATGTCATGGCCATGTGAAG
* *
111009485 CACACGGGCCAGGGACACGGGCGTGTTATGGCCATGTGAAG
1 CACACGGGCCAGGGACACGGGCATGTCATGGCCATGTGAAG
* * *
111009526 CACATGGTCTAGGGACAC
1 CACACGGGCCAGGGACAC
111009544 AAATGTGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 11 0.22
41 40 0.78
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.15
Consensus pattern (41 bp):
CACACGGGCCAGGGACACGGGCATGTCATGGCCATGTGAAG
Found at i:111009890 original size:22 final size:22
Alignment explanation
Indices: 111009862--111009905 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
111009852 AGTTGGATCG
*
111009862 AGTCTGGGTGACTTGTGAATGT
1 AGTCTGGGTAACTTGTGAATGT
111009884 AGTCTGGGTAACTTGTGAATGT
1 AGTCTGGGTAACTTGTGAATGT
111009906 TGTGTGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.34, T:0.36
Consensus pattern (22 bp):
AGTCTGGGTAACTTGTGAATGT
Found at i:111011070 original size:13 final size:14
Alignment explanation
Indices: 111011037--111011071 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
111011027 ATAATTAAAC
111011037 ATAAAATAAATGAA
1 ATAAAATAAATGAA
*
111011051 ATGAAATAAA-GAA
1 ATAAAATAAATGAA
111011064 ATAAAATA
1 ATAAAATA
111011072 GAAAAAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
ATAAAATAAATGAA
Found at i:111012004 original size:44 final size:44
Alignment explanation
Indices: 111011921--111012012 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
111011911 TGTTCAGGGA
* * * *
111011921 TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTAAGTCAATGAGGCACAATAAGTATCGTACTAT
* **
111011965 TACTTCGA-CTTCGAGTCAATGAGGCACAATGTGTATCGTACTAT
1 TACTTCGACCTT-AAGTCAATGAGGCACAATAAGTATCGTACTAT
111012009 TACT
1 TACT
111012013 GTTACTTCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCAATGAGGCACAATAAGTATCGTACTAT
Found at i:111012919 original size:43 final size:43
Alignment explanation
Indices: 111012866--111012984 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 43
111012856 GCAAAAATTT
* * *
111012866 GCGGCGTTTGTGGAAAAAGCGCCACTAAAATTCAAGGCCTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCAAGGCCTTTA
* * * *
111012909 GCGGCATTTGTGGGAAAAGCGCTGCTAAAAGTCATGGCTTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCAAGGCCTTTA
* *
111012952 GCAGCGTTTGTGGGAAAAGCGACGCTAAAAGTC
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTC
111012985 TTGGCTTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (43 bp):
GCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCAAGGCCTTTA
Found at i:111013120 original size:31 final size:32
Alignment explanation
Indices: 111013082--111013153 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
111013072 CATTAAATCA
*
111013082 AACCAAAAA-AAGAAAATATAGCAT-AAAATGC
1 AACCAAAAATAA-AAAATATAGCATAAAAATAC
* *
111013113 AACCAAAAATAACAAATTTAGCATAAAAATAC
1 AACCAAAAATAAAAAATATAGCATAAAAATAC
111013145 AACCAAAAA
1 AACCAAAAA
111013154 CATTAATTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 19 0.53
32 17 0.47
ACGTcount: A:0.65, C:0.15, G:0.06, T:0.14
Consensus pattern (32 bp):
AACCAAAAATAAAAAATATAGCATAAAAATAC
Found at i:111013854 original size:13 final size:14
Alignment explanation
Indices: 111013828--111013856 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
111013818 ACTAATAACG
111013828 AATTAAACCATTAT
1 AATTAAACCATTAT
111013842 AATTAAA-CATTAT
1 AATTAAACCATTAT
111013855 AA
1 AA
111013857 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:111016540 original size:46 final size:46
Alignment explanation
Indices: 111016487--111016662 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
111016477 TATTTAGGCA
*
111016487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
* * * * *
111016533 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-GCG
* *
111016580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
* * *
111016626 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111016663 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.64
47 37 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
Found at i:111016602 original size:47 final size:45
Alignment explanation
Indices: 111016481--111016611 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 45
111016471 CTGGGATATT
* * *
111016481 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGAAC
* * *
111016526 TCGAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAAC
1 TAG-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--AATG-AAC
111016574 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
111016612 TATGGATGCG
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 3 0.04
46 31 0.43
47 34 0.47
48 4 0.06
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGAAC
Found at i:111016640 original size:93 final size:93
Alignment explanation
Indices: 111016481--111016654 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
111016471 CTGGGATATT
* * *
111016481 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAGCGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
*
111016546 AGTTGAGTCCGAGTTCGTGAAATGTAAC
66 AGTTGAGTCCAAGTTCGTGAAATGTAAC
*
111016574 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
111016639 AGTTGAGTCCAAGTTC
66 AGTTGAGTCCAAGTTC
111016655 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
AGTTGAGTCCAAGTTCGTGAAATGTAAC
Found at i:111022020 original size:46 final size:46
Alignment explanation
Indices: 111021967--111022141 Score: 237
Period size: 46 Copynumber: 3.8 Consensus size: 46
111021957 TATTTGGGCA
111021967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * * *
111022013 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGA-GCG
*
111022059 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
111022105 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111022142 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
45 3 0.03
46 104 0.95
47 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:111022120 original size:92 final size:92
Alignment explanation
Indices: 111021963--111022133 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
111021953 GGGATATTTG
* *
111021963 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111022028 TTGAGTCCGAGTTCGTGAATGTAACTA
66 TTGAGTCCGAGTTCGTGAATGTAACTA
*
111022055 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111022120 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111022134 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAATGTAACTA
Found at i:111025953 original size:18 final size:18
Alignment explanation
Indices: 111025930--111025970 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
111025920 TCTTCTCTAT
111025930 AACATACCCATATGAAAA
1 AACATACCCATATGAAAA
*
111025948 AACATACCCATATGAAAT
1 AACATACCCATATGAAAA
111025966 AACAT
1 AACAT
111025971 GAAGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (18 bp):
AACATACCCATATGAAAA
Found at i:111027177 original size:49 final size:49
Alignment explanation
Indices: 111027051--111027325 Score: 387
Period size: 49 Copynumber: 5.8 Consensus size: 49
111027041 CCCTTCGGGA
* * *
111027051 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCTA--C
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-T-TAGGC
* *
111027098 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
111027145 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
111027194 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
111027243 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
111027292 C---T----TATATATACACTTTCACATTCATCACATCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGC
111027326 TACACTTTCG
Statistics
Matches: 215, Mismatches: 7, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
42 31 0.14
45 2 0.01
46 3 0.01
47 43 0.20
49 136 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:111027329 original size:26 final size:26
Alignment explanation
Indices: 111027300--111027351 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
111027290 GCCTTATATA
111027300 TACACTTTCACATTCATCACATCGGC
1 TACACTTTCACATTCATCACATCGGC
*
111027326 TACACTTTCGCATTCATCACATCGGC
1 TACACTTTCACATTCATCACATCGGC
111027352 CATTAGGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.35, G:0.10, T:0.31
Consensus pattern (26 bp):
TACACTTTCACATTCATCACATCGGC
Found at i:111027389 original size:49 final size:49
Alignment explanation
Indices: 111027326--111027586 Score: 463
Period size: 49 Copynumber: 5.4 Consensus size: 49
111027316 TCACATCGGC
*
111027326 TACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
111027375 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
111027424 TACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
111027473 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
111027522 GACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
111027569 TACACATTCACATTCATC
1 TACACTTTCACATTCATC
111027587 GCATAAAATC
Statistics
Matches: 204, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 20 0.10
49 184 0.90
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:111027434 original size:166 final size:168
Alignment explanation
Indices: 111027160--111027498 Score: 610
Period size: 166 Copynumber: 2.0 Consensus size: 168
111027150 CACATATATA
111027160 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
111027225 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAG
111027290 GCC-T-TATATATACACTTTCACATTCATCACATCGGC
131 GCCTTATATATATACACTTTCACATTCATCACATCGGC
*
111027326 TACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
111027391 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAG
111027456 GCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
131 GCC-T-T---ATATATATACACTTTCACATTCATCACATCGGC
111027499 CATTAGGCCT
Statistics
Matches: 165, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
166 132 0.80
169 1 0.01
173 32 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (168 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAG
GCCTTATATATATACACTTTCACATTCATCACATCGGC
Done.