Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 187 of 316
Found at i:60239495 original size:26 final size:28
Alignment explanation
Indices: 60239445--60239503 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 28
60239435 TAAATCCGGG
60239445 TTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TTAAGTCCCGAA-GCATTCGTGCGAGTTA
* *
60239474 TTAAGTTCCGAA-CATTCG-GCGAGTTG
1 TTAAGTCCCGAAGCATTCGTGCGAGTTA
60239500 TTAA
1 TTAA
60239504 TCCGGATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.39
27 6 0.21
29 11 0.39
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (28 bp):
TTAAGTCCCGAAGCATTCGTGCGAGTTA
Found at i:60251075 original size:39 final size:39
Alignment explanation
Indices: 60250952--60251169 Score: 190
Period size: 39 Copynumber: 5.6 Consensus size: 39
60250942 TTGAATGTTG
*
60250952 TCCGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
60250989 AT-CGGACTAAGAT-CCGAAGGCATTTGT-CGAGATACTAATT
1 -TCCGG-CTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA-T
* *
60251029 TCGGGCTAAG-CCCGAAGGCATTTTTTGCGAGATACTAAT
1 TCCGGCTAAGTCCCGAAGGCA-TTTGTGCGAGATACTAAT
* *
60251068 TCCGGCTAAG-CCCGAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
60251105 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60251144 AACCGGCTATGTCCCGAAGGCATTTG
1 -TCCGGCTAAGTCCCGAAGGCATTTG
60251170 AACGAGGAGC
Statistics
Matches: 151, Mismatches: 13, Indels: 31
0.77 0.07 0.16
Matches are distributed among these distances:
37 21 0.14
38 34 0.23
39 59 0.39
40 37 0.25
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
TCCGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60251084 original size:77 final size:79
Alignment explanation
Indices: 60250955--60251169 Score: 207
Period size: 77 Copynumber: 2.8 Consensus size: 79
60250945 AATGTTGTCC
* * * *
60250955 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAAT-ATCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGG-CTAAG-TCCCGAAGGCATTTGT
* *
60251016 -CGAGATACTAATTTCG
63 GCGAGATACTAAATCCG
* *
60251032 GGCTAAG-CCCGAAGGCATTTTTTGCGAGA-TACTA-ATTCCGGCTAAG-CCCGAA-GCATTTGT
1 GGCTAAGTCCCGAAGGCA-TTTGTGCGA-ATTACTATA-ACCGGCTAAGTCCCGAAGGCATTTGT
*
60251092 GCGAGTTACTAAATCCG
63 GCGAGATACTAAATCCG
* *
60251109 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGCTAAGTCCCGAAGGCATTTG
60251170 AACGAGGAGC
Statistics
Matches: 112, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
76 18 0.16
77 52 0.46
78 25 0.22
79 16 0.14
80 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGCTAAGTCCCGAAGGCATTTGTGCG
AGATACTAAATCCG
Found at i:60261608 original size:27 final size:27
Alignment explanation
Indices: 60261542--60261610 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
60261532 GGGGCATTAG
* *
60261542 GGTCATTTTACCCTA-CAGGGGTAATTC
1 GGTCATTTTA-CCTATCAAGGATAATTC
* *
60261569 GATCATTTTACCTATCAAGGATATTTC
1 GGTCATTTTACCTATCAAGGATAATTC
60261596 GGTCATTTTACCTAT
1 GGTCATTTTACCTAT
60261611 TGAGGGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (27 bp):
GGTCATTTTACCTATCAAGGATAATTC
Found at i:60261620 original size:27 final size:26
Alignment explanation
Indices: 60261560--60261759 Score: 141
Period size: 27 Copynumber: 7.5 Consensus size: 26
60261550 TACCCTACAG
* * **
60261560 GGGTAATTCGATCATTTTACCTATCAA
1 GGGTATTTCGATAATTTTACCT-TTGA
* * *
60261587 GGATATTTCGGTCATTTTACCTATTGA
1 GGGTATTTCGATAATTTTACCT-TTGA
*
60261614 GGGTATTTCAATAATTTTACCCTTTGA
1 GGGTATTTCGATAATTTTA-CCTTTGA
* * *
60261641 -GGTATATCGATATTTTTCCCTTTGA
1 GGGTATTTCGATAATTTTACCTTTGA
* * *
60261666 GGTTATTTCGATAATTTCACCCTTCGA
1 GGGTATTTCGATAATTTTA-CCTTTGA
* *
60261693 GGGTATTTTGGTAATTTTACCTCTTTGA
1 GGGTATTTCGATAATTTTA-C-CTTTGA
* * ** *
60261721 GGGTATTTTGGTAATTTTATATTTTAA
1 GGGTATTTCGATAATTTTA-CCTTTGA
60261748 GGGTATTTCGAT
1 GGGTATTTCGAT
60261760 CATTCTAATA
Statistics
Matches: 139, Mismatches: 30, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
25 7 0.05
26 27 0.19
27 78 0.56
28 27 0.19
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACCTTTGA
Found at i:60261727 original size:28 final size:27
Alignment explanation
Indices: 60261590--60261759 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
60261580 CTATCAAGGA
* *
60261590 TATTTCGGTCATTTTA-CCTATTGAGGG
1 TATTTCGATAATTTTACCCT-TTGAGGG
*
60261617 TATTTCAATAATTTTACCCTTTGA-GG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *
60261643 TATATCGAT-ATTTTTCCCTTTGAGGT
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
60261669 TATTTCGATAATTTCACCCTTCGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
60261696 TATTTTGGTAATTTTACCTCTTTGAGGG
1 TATTTCGATAATTTTACC-CTTTGAGGG
* * *** *
60261724 TATTTTGGTAATTTTATATTTTAAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
60261751 TATTTCGAT
1 TATTTCGAT
60261760 CATTCTAATA
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
25 13 0.11
26 18 0.15
27 59 0.50
28 27 0.23
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.48
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTTGAGGG
Found at i:60263297 original size:25 final size:25
Alignment explanation
Indices: 60263260--60263314 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
60263250 TGAACCTTTG
*
60263260 ACCTCCTTACCACACCTGTGACGCC
1 ACCTTCTTACCACACCTGTGACGCC
* *
60263285 ACCTTCTTGCCACACCTGTGTCGCC
1 ACCTTCTTACCACACCTGTGACGCC
60263310 ACCTT
1 ACCTT
60263315 TCCACTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.16, C:0.45, G:0.13, T:0.25
Consensus pattern (25 bp):
ACCTTCTTACCACACCTGTGACGCC
Found at i:60266479 original size:39 final size:38
Alignment explanation
Indices: 60266359--60266529 Score: 181
Period size: 38 Copynumber: 4.6 Consensus size: 38
60266349 TTATAGAATG
*
60266359 AATGCACATACGTGCCCTATTTGTACTTCGGTACCCC-
1 AATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCT
* *
60266396 GATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCCT
1 AATGCACATACGTG-CCCTGTTTGTACTTCGGTACCCCT
* * * *
60266435 TATGCACATATGTGCCTTGTTTGTACTTCAGTACCCCT
1 AATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCT
* *
60266473 AAATGCACATAC-TGCCCTATTTGTAGTT--GTA-CCCT
1 -AATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCT
* *
60266508 GAATGCACTTCCGTGCCCTGTT
1 -AATGCACATACGTGCCCTGTT
60266530 ATCTCCAGTA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
35 13 0.12
36 11 0.10
37 12 0.11
38 57 0.50
39 20 0.18
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (38 bp):
AATGCACATACGTGCCCTGTTTGTACTTCGGTACCCCT
Found at i:60271777 original size:22 final size:22
Alignment explanation
Indices: 60271747--60271798 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
60271737 CATCAGTGTT
*
60271747 ATCAATGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
60271769 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
60271791 ATCAGTGG
1 ATCAGTGG
60271799 TGGCATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:60272491 original size:21 final size:21
Alignment explanation
Indices: 60272467--60272507 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60272457 TGATTTTAAA
*
60272467 ATTAAATCTATTTATTTCAAT
1 ATTAAACCTATTTATTTCAAT
*
60272488 ATTATACCTATTTATTTCAA
1 ATTAAACCTATTTATTTCAA
60272508 CTCATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAAACCTATTTATTTCAAT
Found at i:60272958 original size:26 final size:26
Alignment explanation
Indices: 60272918--60272972 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
60272908 CATTTCATCA
*
60272918 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
60272946 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
60272971 TC
1 TC
60272973 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:60276691 original size:29 final size:28
Alignment explanation
Indices: 60276655--60276732 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
60276645 TCATGAGATT
60276655 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
60276685 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
60276712 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
60276733 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:60276950 original size:174 final size:174
Alignment explanation
Indices: 60276685--60277012 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
60276675 AAATTGTACA
*
60276685 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
60276750 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
60276815 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
60276859 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
60276924 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
60276989 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
60277013 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:60284837 original size:29 final size:29
Alignment explanation
Indices: 60284802--60284878 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
60284792 CATGAGATCG
* **
60284802 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGGGTTTAAAGTACATA
* *
60284831 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGGGTTTAAAGTACATA
60284860 GCACTAAGTGTGCGTGGTT
1 GCACTAAGTGTGCG-GGTT
60284879 GATTATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTACATA
Found at i:60285096 original size:174 final size:174
Alignment explanation
Indices: 60284835--60285158 Score: 585
Period size: 174 Copynumber: 1.9 Consensus size: 174
60284825 TGTATAGCAC
*
60284835 TAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTG
1 TAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
* *
60284900 CGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTT
66 CGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTT
60284965 GGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCAG
131 GGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCAG
* *
60285009 TAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
1 TAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
* *
60285074 CGAACCCAATTTATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTT
66 CGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTT
60285139 GGACAGCGGAAAAGGTAAGT
131 GGACAGCGGAAAAGGTAAGT
60285159 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 143 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
TAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTG
CGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTT
GGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGCAG
Found at i:60293388 original size:30 final size:30
Alignment explanation
Indices: 60293354--60293410 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
60293344 TCTCATGCAC
*
60293354 TACTACATAACAAGAAATACTTTTAAACTA
1 TACTAAATAACAAGAAATACTTTTAAACTA
* *
60293384 TACTAAATAGCAGGAAATACTTTTAAA
1 TACTAAATAACAAGAAATACTTTTAAA
60293411 GTATCGTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (30 bp):
TACTAAATAACAAGAAATACTTTTAAACTA
Found at i:60299266 original size:31 final size:30
Alignment explanation
Indices: 60299192--60299275 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 30
60299182 AATCAGTCTC
60299192 AACATATACTGGGCCGAAGCC-TTTCATTA
1 AACATATACTGGGCCGAAGCCTTTTCATTA
60299221 AACGAT-TACTGGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTGGGCCGAAGCCTTTTCATTA
*
60299250 ATTCATATCACTGGGCCGAAGCCTTT
1 A-ACATAT-ACTGGGCCGAAGCCTTT
60299276 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 23 0.47
30 9 0.18
31 17 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
AACATATACTGGGCCGAAGCCTTTTCATTA
Found at i:60299524 original size:25 final size:25
Alignment explanation
Indices: 60299496--60299565 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
60299486 CTCTTTTAAT
60299496 AACTAGGGCAAAGCCCTTTTAGGTA
1 AACTAGGGCAAAGCCCTTTTAGGTA
* *
60299521 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTAGGTA
* *
60299546 AACTCGGGCAAAGCCATTTT
1 AACTAGGGCAAAGCCCTTTT
60299566 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTAGGTA
Found at i:60299624 original size:10 final size:10
Alignment explanation
Indices: 60299611--60299645 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
60299601 ATATATGTAT
60299611 ATATCATGGC
1 ATATCATGGC
60299621 ATATCATGTGC
1 ATATCATG-GC
60299632 ATATCATGGC
1 ATATCATGGC
60299642 ATAT
1 ATAT
60299646 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:60299658 original size:21 final size:21
Alignment explanation
Indices: 60299599--60299658 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
60299589 CCCAACCCAT
*
60299599 GCATA-TATGTATATATCATG
1 GCATATTATGTACATATCATG
* *
60299619 GCATATCATGTGCATATCATG
1 GCATATTATGTACATATCATG
*
60299640 GCATATTATGTACAAATCA
1 GCATATTATGTACATATCA
60299659 GTATCACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
GCATATTATGTACATATCATG
Found at i:60299723 original size:25 final size:25
Alignment explanation
Indices: 60299689--60299739 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
60299679 ATAACATAAC
*
60299689 CCTAGGGGTATAATA-GTCATTTTCA
1 CCTAGGGGTA-AAAAGGTCATTTTCA
60299714 CCTAGGGGTAAAAAGGTCATTTTCA
1 CCTAGGGGTAAAAAGGTCATTTTCA
60299739 C
1 C
60299740 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
CCTAGGGGTAAAAAGGTCATTTTCA
Found at i:60302935 original size:24 final size:25
Alignment explanation
Indices: 60302888--60302965 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
60302878 CAGCTCGTGA
*
60302888 GAGCTTACCAATTCTCAACTCGTAT
1 GAGCTTACCGATTCTCAACTCGTAT
* *
60302913 GAGCTTACCGATT-GCAACTCGTAA
1 GAGCTTACCGATTCTCAACTCGTAT
* * *
60302937 AAGCTTATCGATTCTCAACTTGTAT
1 GAGCTTACCGATTCTCAACTCGTAT
60302962 GAGC
1 GAGC
60302966 ATACATATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
24 20 0.47
25 23 0.53
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAACTCGTAT
Found at i:60303524 original size:19 final size:19
Alignment explanation
Indices: 60303500--60303536 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
60303490 GTTTTTGAGA
60303500 TCATTGCTAAGTTATCTTT
1 TCATTGCTAAGTTATCTTT
*
60303519 TCATTGCTAGGTTATCTT
1 TCATTGCTAAGTTATCTT
60303537 AATCAAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (19 bp):
TCATTGCTAAGTTATCTTT
Found at i:60305012 original size:40 final size:39
Alignment explanation
Indices: 60304840--60305022 Score: 267
Period size: 39 Copynumber: 4.7 Consensus size: 39
60304830 TCGGTTGATA
* ** * * *
60304840 ACCGGGCTAAGTCCTGAACACACTCGTGCGAATTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
*
60304879 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
*
60304918 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
60304957 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
60304996 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
60305023 AGCTAGTGGC
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 107 0.80
40 26 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
Found at i:60309415 original size:28 final size:28
Alignment explanation
Indices: 60309352--60309477 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
60309342 ATATTAAGTC
*
60309352 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
60309379 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
60309407 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60309435 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
60309464 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60309478 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60321705 original size:91 final size:94
Alignment explanation
Indices: 60321545--60321749 Score: 220
Period size: 91 Copynumber: 2.2 Consensus size: 94
60321535 TATGTACGAG
* ** * ** **
60321545 CCCATGCAAGACCATGTCTAGGACATGGTTTTGGCATCGATATGTAATTTCGTGTAAGACCATAG
1 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATATAATCCCACGTAAGACCATAG
*
60321610 CTGGG-C-T-ATCGGCATCAATATGTGAT
66 CTGGGACATGATCAGCATCAATATGTGAT
* * *
60321636 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATCTATGATCCCACGTAATACCAT-G
1 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATATAATCCCACGTAAGACCATAG
* *
60321700 TCTGGGACATGGCATTAGCATCGATATGTGAT
66 -CTGGGACAT-G-ATCAGCATCAATATGTGAT
*
60321732 CCAATGTAAGACCATGTC
1 CCCATGTAAGACCATGTC
60321750 CAGGTTAAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 1 0.01
91 57 0.61
92 1 0.01
93 1 0.01
96 33 0.35
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (94 bp):
CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATATAATCCCACGTAAGACCATAG
CTGGGACATGATCAGCATCAATATGTGAT
Found at i:60321769 original size:48 final size:48
Alignment explanation
Indices: 60321545--60321749 Score: 206
Period size: 48 Copynumber: 4.4 Consensus size: 48
60321535 TATGTACGAG
* ** *
60321545 CCCATGCAAGACCATGTCTAGGACATGGTTTTGGCATCGATATGTAAT
1 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGAT
** * * * *
60321593 TTCGTGTAAGACCATAG-CT-GGGC-T---ATCGGCATCAATATGTGAT
1 CCCATGTAAGACCAT-GTCTAGGACATGGCATTGGCATCGATATGTGAT
* *
60321636 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATCTATGAT
1 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGAT
* * * *
60321684 CCCACGTAATACCATGTCTGGGACATGGCATTAGCATCGATATGTGAT
1 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGAT
*
60321732 CCAATGTAAGACCATGTC
1 CCCATGTAAGACCATGTC
60321750 CAGGTTAAAG
Statistics
Matches: 124, Mismatches: 26, Indels: 14
0.76 0.16 0.09
Matches are distributed among these distances:
42 1 0.01
43 29 0.23
44 3 0.02
45 1 0.01
46 1 0.01
47 3 0.02
48 85 0.69
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGAT
Found at i:60325478 original size:25 final size:25
Alignment explanation
Indices: 60325418--60325496 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 25
60325408 ATCTTTTCCA
*
60325418 CTCTTTCGAGCT-ATGATCAGTAAG
1 CTCTTACGAGCTGATGATCAGTAAG
* *
60325442 CTCCTCCTGAGCTGATGGA-CAGTAAG
1 CTCTTAC-GAGCTGAT-GATCAGTAAG
*
60325468 CTCTTACGAGCTGATATATCAGTAAG
1 CTCTTACGAGCTGAT-GATCAGTAAG
60325494 CTC
1 CTC
60325497 ATACAATCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.11
25 14 0.31
26 24 0.53
27 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
CTCTTACGAGCTGATGATCAGTAAG
Found at i:60329494 original size:30 final size:30
Alignment explanation
Indices: 60329458--60329518 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60329448 TTCTTAACTC
*
60329458 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
60329488 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
60329518 A
1 A
60329519 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:60332050 original size:34 final size:34
Alignment explanation
Indices: 60332012--60332082 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
60332002 TTTGTTCTTT
*
60332012 ACAGTCACCTTATTCAGTTGTCTGTAATCAATAC
1 ACAGTCACCTTATTCAGCTGTCTGTAATCAATAC
* *
60332046 ACAGTCACCTTATTTAGCTGTCTGTAATTAATAC
1 ACAGTCACCTTATTCAGCTGTCTGTAATCAATAC
60332080 ACA
1 ACA
60332083 ATCTCATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (34 bp):
ACAGTCACCTTATTCAGCTGTCTGTAATCAATAC
Found at i:60334606 original size:13 final size:13
Alignment explanation
Indices: 60334588--60334625 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
60334578 CCAACCACAG
60334588 GCCCGTGTGTCTA
1 GCCCGTGTGTCTA
60334601 GCCCGTGTGT-TA
1 GCCCGTGTGTCTA
*
60334613 GGCCGTGTG-CTA
1 GCCCGTGTGTCTA
60334625 G
1 G
60334626 GTCATGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.08, C:0.26, G:0.37, T:0.29
Consensus pattern (13 bp):
GCCCGTGTGTCTA
Found at i:60335845 original size:23 final size:24
Alignment explanation
Indices: 60335816--60335869 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
60335806 GATAGACACC
*
60335816 AAGCTCT-ACTGAGCT-AAAACGGT
1 AAGCTCTGA-TGAGCTGAAAACAGT
*
60335839 AAGCTCTGATGAGCTGAAAATAGT
1 AAGCTCTGATGAGCTGAAAACAGT
60335863 AAGCTCT
1 AAGCTCT
60335870 TACGACTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
AAGCTCTGATGAGCTGAAAACAGT
Found at i:60347418 original size:27 final size:27
Alignment explanation
Indices: 60347388--60347543 Score: 226
Period size: 27 Copynumber: 5.8 Consensus size: 27
60347378 ATTACCAAAG
*
60347388 TACCCTCGATTTA-CGAAATTACCGTTT
1 TACCCTCGATTTATAG-AATTACCGTTT
60347415 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
60347442 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
60347469 TACCCT-GATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
60347495 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
60347522 TACTCTCGATTTAAAAAATTAC
1 TACCCTCGATTTATAGAATTAC
60347544 TAAAATACCC
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 25 0.21
27 92 0.78
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:60347435 original size:54 final size:54
Alignment explanation
Indices: 60347377--60347554 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 54
60347367 CAATTTGTAA
*
60347377 AATTACCAAAGTACCCTCGATTTAC-GAAATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTACAG-AATTACCGTTTTACCCTCGATTTATAG
*** *
60347431 AATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT-GATTTATAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
* *** * * * *
60347484 AATTATCGTTTTACCCTCGATTTACAGAATTGCCGTTTTACTCTCGATTTAAAA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
* *
60347538 AATTACTAAAATACCCT
1 AATTACCAAATTACCCT
60347555 TGGTTTGCAA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
53 49 0.47
54 55 0.52
55 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAG
Found at i:60347502 original size:53 final size:53
Alignment explanation
Indices: 60347388--60347543 Score: 224
Period size: 53 Copynumber: 2.9 Consensus size: 53
60347378 ATTACCAAAG
*
60347388 TACCCTCGATTTACGAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTAAG-AATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
*
60347442 TACCCTCGATTTATAGAATTACCGTTTTACCCT-GATTTATAGAATTATCGTTT
1 TACCCTCGATTTA-AGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
* * * *
60347495 TACCCTCGATTTACAGAATTGCCGTTTTACTCTCGATTTAAAAAATTAC
1 TACCCTCGATTTA-AGAATTACCGTTTTACCCTCGATTTATAGAATTAC
60347544 TAAAATACCC
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 49 0.53
54 42 0.46
55 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (53 bp):
TACCCTCGATTTAAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
Found at i:60347553 original size:80 final size:81
Alignment explanation
Indices: 60347375--60347554 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
60347365 CTCAATTTGT
* * *
60347375 AAAATTACCAAAGTACCCTCGATTTACGAAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTAAGAAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
*
60347440 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAA
* **** * *
60347456 AGAATTACCGTTTTACCCT-GATTTATAG-AATTATCGTTTTACCCTCGATTTACAGAATTGCCG
1 AAAATTACCAAAATACCCTCGATTTA-AGAAATTACCGTTTTACCCTCGATTTACAGAATTACCG
*
60347519 TTTTACTCTCGATTTAA
65 TTTTACCCTCGATTTAA
*
60347536 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
60347555 TGGTTTGCAA
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 66 0.81
81 15 0.19
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTAAGAAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAA
Found at i:60347566 original size:27 final size:27
Alignment explanation
Indices: 60347536--60347687 Score: 153
Period size: 27 Copynumber: 5.7 Consensus size: 27
60347526 CTCGATTTAA
* *
60347536 AAAATTACTAAAATACCCTTGGTTTGC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * **
60347563 AAAATTACCAAAATACTCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
60347590 AAAATTACCAAAATACCCTTGGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
60347617 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * * *
60347644 GAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
60347671 AAAA-TATCAAAATACCC
1 AAAATTACCAAAATACCC
60347688 CTGTAGGGTA
Statistics
Matches: 102, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 12 0.12
27 90 0.88
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:60347580 original size:54 final size:54
Alignment explanation
Indices: 60347522--60347632 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
60347512 ATTGCCGTTT
* * *
60347522 TACTCTCGATTTA-AAAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAA
1 TACTCTCGA-TCAGAAAAATTACCAAAATACCCTTGGCTTGCAAAATTACCAAAA
* *
60347576 TACTCTCGATCAGTAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAA
1 TACTCTCGATCAGAAAAATTACCAAAATACCCTTGGCTTGCAAAATTACCAAAA
60347630 TAC
1 TAC
60347633 CCCTGATTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACTCTCGATCAGAAAAATTACCAAAATACCCTTGGCTTGCAAAATTACCAAAA
Found at i:60347621 original size:81 final size:80
Alignment explanation
Indices: 60347536--60347687 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 80
60347526 CTCGATTTAA
* * *
60347536 AAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAATACTCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACTCTCGATCAGTAAAA-TACCAA
60347601 AATACCCTTGGCTTGT
65 AATACCCTTGGCTTGT
** * ** *
60347617 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCAAA
1 AAAATTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACTCTCGATCAGTAAAATACCAAA
60347682 ATACCC
66 ATACCC
60347688 CTGTAGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
80 12 0.19
81 50 0.81
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACTCTCGATCAGTAAAATACCAAA
ATACCCTTGGCTTGT
Found at i:60347649 original size:54 final size:54
Alignment explanation
Indices: 60347536--60347690 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
60347526 CTCGATTTAA
* * *
60347536 AAAATTACTAAAATACCCTTGGTTTGCAAAATTACCAAAATA-CTCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GATCAGT
* **
60347590 AAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATCAGT
* * * * * *
60347644 GAAATTATCAAAATACTCTCGATTTGTAAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG
60347691 TAGGGTAGAA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 15 0.17
54 69 0.79
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATCAGT
Found at i:60347713 original size:27 final size:27
Alignment explanation
Indices: 60347675--60347728 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
60347665 ATTTGTAAAA
60347675 TATCAAAATACCCCTGTAGGGTAGAAT
1 TATCAAAATACCCCTGTAGGGTAGAAT
*
60347702 TATCGAAATACCCCTGTAGGGTAGAAT
1 TATCAAAATACCCCTGTAGGGTAGAAT
60347729 ACCCTGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TATCAAAATACCCCTGTAGGGTAGAAT
Found at i:60347731 original size:18 final size:18
Alignment explanation
Indices: 60347708--60347808 Score: 87
Period size: 18 Copynumber: 5.2 Consensus size: 18
60347698 GAATTATCGA
60347708 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
60347726 AATA-CCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
60347743 AATTACCGAAATACCCTTGTAGGGTAG
1 AA-TA-C------CCC-TGTAGGGTAG
* *
60347770 AATACCCTTGTAGGGTAA
1 AATACCCCTGTAGGGTAG
*
60347788 AATACCCCTGAAGGGTAG
1 AATACCCCTGTAGGGTAG
60347806 AAT
1 AAT
60347809 TACTGAAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
17 15 0.22
18 33 0.49
19 2 0.03
25 1 0.01
26 5 0.07
27 12 0.18
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (18 bp):
AATACCCCTGTAGGGTAG
Found at i:60347745 original size:44 final size:44
Alignment explanation
Indices: 60347681--60347786 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
60347671 AAAATATCAA
*
60347681 AATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
1 AATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
60347726 AATACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
60347770 AATACCCTTGTAGGGTA
1 AATACCC-TGTAGGGTA
60347787 AAATACCCCT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 45 0.78
45 13 0.22
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:60347767 original size:27 final size:27
Alignment explanation
Indices: 60347726--60347893 Score: 144
Period size: 27 Copynumber: 5.9 Consensus size: 27
60347716 TGTAGGGTAG
60347726 AATACCC-TGTAGGGTAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACCGA
60347752 AATACCCTTGTAGGGTAGAA-TACCCTTGTAGGGTAA
1 AATACCCTTGTAGGGTAGAATTA-CC-------G--A
* * *
60347788 AATACCCCTGAAGGGTAGAATTACTGA
1 AATACCCTTGTAGGGTAGAATTACCGA
*
60347815 AATACCCTTGTAGGGTAGGAA-TACCAA
1 AATACCCTTGTAGGGTA-GAATTACCGA
*
60347842 AATACCCTTGTAGGGTAGGATTACCGA
1 AATACCCTTGTAGGGTAGAATTACCGA
* * *
60347869 GATACCCTTGTGGGGTAAAATTACC
1 AATACCCTTGTAGGGTAGAATTACC
60347894 ATTTGCCCCT
Statistics
Matches: 115, Mismatches: 13, Indels: 27
0.74 0.08 0.17
Matches are distributed among these distances:
26 11 0.10
27 77 0.67
28 3 0.03
29 1 0.01
34 1 0.01
36 20 0.17
37 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAGAATTACCGA
Found at i:60347817 original size:63 final size:63
Alignment explanation
Indices: 60347708--60347839 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
60347698 GAATTATCGA
* *
60347708 AATACCCCTGTAGGGTAGAATACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-G
1 AATACCCCTGTAGGGTAAAATACCCTGAAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGG
* *
60347770 AATACCCTTGTAGGGTAAAATACCCCTGAAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGG
1 AATACCCCTGTAGGGTAAAATA-CCCTGAAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGG
60347834 AATACC
1 AATACC
60347840 AAAATACCCT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 20 0.31
63 37 0.58
64 7 0.11
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (63 bp):
AATACCCCTGTAGGGTAAAATACCCTGAAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGG
Found at i:60348133 original size:25 final size:25
Alignment explanation
Indices: 60348095--60348164 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
60348085 AGGAAGTGCT
*
60348095 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
60348120 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
60348145 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
60348165 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:60348188 original size:50 final size:50
Alignment explanation
Indices: 60348095--60348189 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
60348085 AGGAAGTGCT
**
60348095 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACTG
* **
60348145 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
60348190 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACTG
Found at i:60351822 original size:13 final size:13
Alignment explanation
Indices: 60351804--60351829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60351794 GATTTAACAC
60351804 TTACCATGCAATA
1 TTACCATGCAATA
60351817 TTACCATGCAATA
1 TTACCATGCAATA
60351830 AACTACATAA
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:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTACCATGCAATA
Found at i:60352126 original size:49 final size:49
Alignment explanation
Indices: 60352032--60352198 Score: 183
Period size: 49 Copynumber: 3.4 Consensus size: 49
60352022 GGTTAACAAT
* * * * * * * *
60352032 TAACATGCCCTACTAGT-GCCCAGCATATCCGCCATTCTAGTTAGCAAC
1 TAACATGCCCTACCAGTGGCCAATCATATCTGTCAATCTGGATAGCAAC
* * *
60352080 TAACGTGCCTTACTAGTGGCCAATCATATCTGTCAATCTGGATAGCAAC
1 TAACATGCCCTACCAGTGGCCAATCATATCTGTCAATCTGGATAGCAAC
* * *
60352129 TAACATGCCCTACCAGTGGCCTATCTTATTTGTCAATCTGGATAGCAAC
1 TAACATGCCCTACCAGTGGCCAATCATATCTGTCAATCTGGATAGCAAC
* *
60352178 TAACATGCCCTGCCAATGGCC
1 TAACATGCCCTACCAGTGGCC
60352199 CATCTCACTT
Statistics
Matches: 101, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
48 15 0.15
49 86 0.85
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (49 bp):
TAACATGCCCTACCAGTGGCCAATCATATCTGTCAATCTGGATAGCAAC
Found at i:60358602 original size:25 final size:25
Alignment explanation
Indices: 60358566--60358629 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
60358556 ACAAATGAAA
60358566 CATT-AAAACATACATT-TCATACA-T
1 CATTCAAAACAT--ATTATCATACATT
*
60358590 CATTCAAATCATATTATCATACATT
1 CATTCAAAACATATTATCATACATT
*
60358615 CATTCACATACATAT
1 CATTCA-AAACATAT
60358630 CTTCCCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 3 0.09
24 11 0.33
25 13 0.39
26 6 0.18
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (25 bp):
CATTCAAAACATATTATCATACATT
Found at i:60358609 original size:24 final size:26
Alignment explanation
Indices: 60358582--60358629 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
60358572 AACATACATT
60358582 TCATACA-TCATTCAAAT-CATATTA
1 TCATACATTCATTCAAATACATATTA
*
60358606 TCATACATTCATTCACATACATAT
1 TCATACATTCATTCAAATACATAT
60358630 CTTCCCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (26 bp):
TCATACATTCATTCAAATACATATTA
Found at i:60360388 original size:47 final size:46
Alignment explanation
Indices: 60360317--60360425 Score: 130
Period size: 46 Copynumber: 2.3 Consensus size: 46
60360307 TATTTGTGTA
* * *
60360317 CTAGTGTAAAACATGTCTGGGACATGGCATCGGCATTGAGATG-AGAG
1 CTAGTGTAAGACATGTCTGAGACAT-GCATCGGCATCGAGATGTA-AG
* * *
60360364 CTAGTGCAAGACATGTCTGAGACATGCATTGGCCTCGAGATGTAAG
1 CTAGTGTAAGACATGTCTGAGACATGCATCGGCATCGAGATGTAAG
*
60360410 CCAGTGTAAGACATGT
1 CTAGTGTAAGACATGT
60360426 TTGCCTCATC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 30 0.57
47 23 0.43
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGAGACATGCATCGGCATCGAGATGTAAG
Found at i:60360556 original size:49 final size:48
Alignment explanation
Indices: 60360482--60360613 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 48
60360472 TTATAGAGGT
* *
60360482 GTCAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTGCGAT-A
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TG-GATGA
* * * *
60360531 GTCAGTGTAAGACCATGCCTGGGACATGGCATC-GACTTGATGGTTGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGATGA
* *
60360578 GCCAGTGAAAGACCATGTCTGGGACATGGCATCGGC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
60360614 ATCATACCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
46 2 0.03
47 33 0.46
48 6 0.08
49 30 0.42
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGATGA
Found at i:60367427 original size:76 final size:76
Alignment explanation
Indices: 60367341--60367493 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
60367331 AATATGCTGA
60367341 TGAAATGAATGAACTTCTATCATTTTAGATCAAGAATTACAAAATCTGGGCCTAGATTGGGGAAA
1 TGAAATGAATGAACTTCTATCATTTTAGATCAAGAATTACAAAATCTGGGCCTAGATTGGGGAAA
60367406 AGTAAAATAAG
66 AGTAAAATAAG
*
60367417 TGAAATGAATGAATTTCTATCATTTTAGATCAAGAATTACAAAATCTGGGCCTAGATTGGGGAAA
1 TGAAATGAATGAACTTCTATCATTTTAGATCAAGAATTACAAAATCTGGGCCTAGATTGGGGAAA
60367482 AGTAAAATAAG
66 AGTAAAATAAG
60367493 T
1 T
60367494 CGACTAAGCC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.29
Consensus pattern (76 bp):
TGAAATGAATGAACTTCTATCATTTTAGATCAAGAATTACAAAATCTGGGCCTAGATTGGGGAAA
AGTAAAATAAG
Found at i:60367813 original size:48 final size:48
Alignment explanation
Indices: 60367712--60368080 Score: 263
Period size: 46 Copynumber: 7.8 Consensus size: 48
60367702 TTATTTGTGT
60367712 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGATGAGA
* * * *
60367758 GCCAGTGTAAGACCATGTCTGGGACATCGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
* * *
60367806 GCTAGTGTAAGACC-TGTCTAGGACAT-GCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-AGA
* * * *
60367852 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATTGGC-TATGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGATGAGA
* * *
60367897 TC-AGTGTAAGACCTTGTCTGGGACATGGCATCGGCACGTAT-AGA-G-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGATGAGA
* *
60367944 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAATATCTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGA--TGAGA
* * * ** *
60367994 GCTAGTGTCAGACCATGTTTGGGACATGGCAT-GAGCCTTGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGA-GATGAGA
* *
60368043 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
60368081 CATACCCTAT
Statistics
Matches: 262, Mismatches: 33, Indels: 53
0.75 0.09 0.15
Matches are distributed among these distances:
44 9 0.03
45 19 0.07
46 71 0.27
47 27 0.10
48 60 0.23
49 41 0.16
50 32 0.12
51 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
Found at i:60369418 original size:41 final size:41
Alignment explanation
Indices: 60369369--60369582 Score: 259
Period size: 41 Copynumber: 5.2 Consensus size: 41
60369359 GGGCAAAAAA
* *
60369369 GTGC-ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
* * * *
60369409 GTGAAATTCAAGGGTACCAAAGTACAAACAAGAGCACGTAT
1 GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
* * * *
60369450 GTGCAATTCAGGAGTATCAAAGTACAAATAGGGGCACATAT
1 GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
* * ** * *
60369491 TTGCAATTTAGGGGTATTGAAGTACAAAAAGGAGCATGTAT
1 GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
* *
60369532 GTGCAATTCAGGGGTATCGAAGTACAAACAGGAGCATGTAT
1 GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
60369573 GTGCAATTCA
1 GTGCAATTCA
60369583 ACAATAATCT
Statistics
Matches: 148, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 3 0.02
41 145 0.98
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (41 bp):
GTGCAATTCAGGGGTATCAAAGTACAAACAGGAGCACGTAT
Found at i:60375378 original size:28 final size:28
Alignment explanation
Indices: 60375338--60375405 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
60375328 ACGGGCAACC
60375338 ACACGGGCATGTCTAGGCCGTGTGAAGG
1 ACACGGGCATGTCTAGGCCGTGTGAAGG
*
60375366 ACACGGTCATGTCTAGGCCGTGTGAAGG
1 ACACGGGCATGTCTAGGCCGTGTGAAGG
60375394 ACACGGGCATGT
1 ACACGGGCATGT
60375406 GCTTCGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (28 bp):
ACACGGGCATGTCTAGGCCGTGTGAAGG
Found at i:60387736 original size:23 final size:24
Alignment explanation
Indices: 60387691--60387736 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
60387681 TAACAGGTAG
60387691 CTCACAAAGAGCCATATCAAGAAC
1 CTCACAAAGAGCCATATCAAGAAC
*
60387715 CTCACAAAGAGCC-TATCGAGAA
1 CTCACAAAGAGCCATATCAAGAA
60387737 GCTTATCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.13
Consensus pattern (24 bp):
CTCACAAAGAGCCATATCAAGAAC
Found at i:60387864 original size:50 final size:50
Alignment explanation
Indices: 60387758--60387866 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 50
60387748 CTATATAATG
* * *
60387758 GGAAGCTCATGAGAGCCGTAATTGAGAAGTTCAAAAAGAACTTTTAATCA
1 GGAAGCTCATGAGAGCCGTAATCGAGAAGCTCAAAAAGAACATTTAATCA
* * *
60387808 GAAAGCTCATGATGAGCC-T-ATCGGGAAGCTCACAAAGAGACAATTTAA-CA
1 GGAAGCTCATGA-GAGCCGTAATCGAGAAGCTCAAAAAGA-AC-ATTTAATCA
60387858 GGAAGCTCA
1 GGAAGCTCA
60387867 CGAAAAGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
49 15 0.31
50 24 0.49
51 10 0.20
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCGTAATCGAGAAGCTCAAAAAGAACATTTAATCA
Found at i:60398705 original size:19 final size:19
Alignment explanation
Indices: 60398683--60398721 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60398673 AAAAGCTATA
*
60398683 TGTTATACT-GATGAATTAC
1 TGTTATA-TGGATGAAGTAC
60398702 TGTTATATGGATGAAGTAC
1 TGTTATATGGATGAAGTAC
60398721 T
1 T
60398722 ATAAACGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (19 bp):
TGTTATATGGATGAAGTAC
Found at i:60418406 original size:23 final size:24
Alignment explanation
Indices: 60418361--60418406 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
60418351 TAACAGGTAG
60418361 CTCACAAAGAGCCATATCAAGAAC
1 CTCACAAAGAGCCATATCAAGAAC
*
60418385 CTCACAAAGAGCC-TATCGAGAA
1 CTCACAAAGAGCCATATCAAGAA
60418407 GCTTATCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.13
Consensus pattern (24 bp):
CTCACAAAGAGCCATATCAAGAAC
Found at i:60418534 original size:50 final size:50
Alignment explanation
Indices: 60418428--60418536 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 50
60418418 CTATATAATG
* * *
60418428 GGAAGCTCATGAGAGCCGTAATTGAGAAGTTCAAAAAGAACTTTTAATCA
1 GGAAGCTCATGAGAGCCGTAATCGAGAAGCTCAAAAAGAACATTTAATCA
* * *
60418478 GAAAGCTCATGATGAGCC-T-ATCGGGAAGCTCACAAAGAGACAATTTAA-CA
1 GGAAGCTCATGA-GAGCCGTAATCGAGAAGCTCAAAAAGA-AC-ATTTAATCA
60418528 GGAAGCTCA
1 GGAAGCTCA
60418537 CGAAAAGCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
49 15 0.31
50 24 0.49
51 10 0.20
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (50 bp):
GGAAGCTCATGAGAGCCGTAATCGAGAAGCTCAAAAAGAACATTTAATCA
Found at i:60429387 original size:19 final size:19
Alignment explanation
Indices: 60429363--60429401 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60429353 AAAAGCTATA
*
60429363 TGTTATACT-GATGAATTAC
1 TGTTATA-TGGATGAAGTAC
60429382 TGTTATATGGATGAAGTAC
1 TGTTATATGGATGAAGTAC
60429401 T
1 T
60429402 ATTTAAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (19 bp):
TGTTATATGGATGAAGTAC
Found at i:60435724 original size:47 final size:47
Alignment explanation
Indices: 60435670--60435859 Score: 281
Period size: 47 Copynumber: 4.0 Consensus size: 47
60435660 GATTTCATGC
** * *
60435670 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAACGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAACGGCCAATGT
*
60435717 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAACGGCCAATGT
* * *
60435764 GATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAACGGCCAATGT
* * *
60435811 GATGAATATGAACATGCATATATGTGATAAAGCCGAACGGTCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAACGGCCAATGT
60435858 GA
1 GA
60435860 AATATATATA
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAACGGCCAATGT
Found at i:60435741 original size:25 final size:25
Alignment explanation
Indices: 60435713--60435838 Score: 65
Period size: 25 Copynumber: 5.3 Consensus size: 25
60435703 CGAACGGCCA
60435713 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
60435738 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
60435760 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
60435785 GTGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
60435807 ATGTGATGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
60435832 ATGTGAT
1 ATGTGAT
60435839 AAAGCCGAAC
Statistics
Matches: 70, Mismatches: 17, Indels: 28
0.61 0.15 0.24
Matches are distributed among these distances:
22 15 0.21
23 16 0.23
24 17 0.24
25 22 0.31
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:60435766 original size:22 final size:22
Alignment explanation
Indices: 60435738--60435813 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
60435728 ACATGCATAT
60435738 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
60435760 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
60435782 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
60435807 ATGTGAT
1 ATGTGAT
60435814 GAATATGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:60435934 original size:48 final size:48
Alignment explanation
Indices: 60435829--60436010 Score: 276
Period size: 48 Copynumber: 3.8 Consensus size: 48
60435819 TGAACATGCA
* * *
60435829 TATATGTGATAAAGCCGAACGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AGTGTG-AA-ATATATATGAGATATG
*
60435879 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATGTGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
*
60435927 TATATGTGGTAAAGCCGAATGGCTAGTTTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
*
60435975 TATATGTGGTAAAGCCGAATGGATAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
60436011 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 95 0.77
49 2 0.02
50 25 0.20
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
Found at i:60436268 original size:37 final size:37
Alignment explanation
Indices: 60436160--60436268 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
60436150 GGAAATATAT
*
60436160 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
60436197 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
60436234 TCCGGGTGAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
60436269 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:60438406 original size:29 final size:29
Alignment explanation
Indices: 60438296--60438407 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
60438286 ACCCCTACAT
* *
60438296 ACATGCATATAGCCCACTT-GGCCCAA-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
60438324 TCATCCATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * **
60438353 ACATTCAT-TCGACCCATCAAACCCAATTC
1 ACATTCATAT-GGCCCATTAGGCCCAATTC
*
60438382 ATATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCATTAGGCCCAA
60438408 ATCCTTTATC
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.03
28 21 0.32
29 42 0.64
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:60438682 original size:16 final size:16
Alignment explanation
Indices: 60438657--60438701 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
60438647 GTAGCCAAAC
*
60438657 TTTCGACTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
60438673 TTTCTGCTTTTCAGCA
1 TTTCGGCTTTTCGGCA
60438689 TTTCGGCTTTTCG
1 TTTCGGCTTTTCG
60438702 ATTTTTGTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.18, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:60439963 original size:16 final size:16
Alignment explanation
Indices: 60439938--60439969 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60439928 AAGTTCAGGA
*
60439938 TTTCAGGATTTTTGGG
1 TTTCAAGATTTTTGGG
60439954 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
60439970 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:60442915 original size:29 final size:29
Alignment explanation
Indices: 60442852--60442945 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
60442842 TAAATGCATA
**
60442852 TGGCCCATTTGGCCCAATCTCAT-T-CATG
1 TGGCCCATCAGGCCCAAT-TCATATTCATG
60442880 TGGCCCATCAGGCCCAATTCATATTCAT-
1 TGGCCCATCAGGCCCAATTCATATTCATG
*
60442908 TCGGCCCATCAGGCCCAATTCATATTCATA
1 T-GGCCCATCAGGCCCAATTCATATTCATG
*
60442938 TGGTCCAT
1 TGGCCCAT
60442946 TATGCCAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
27 4 0.07
28 18 0.31
29 36 0.61
30 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (29 bp):
TGGCCCATCAGGCCCAATTCATATTCATG
Found at i:60442967 original size:29 final size:29
Alignment explanation
Indices: 60442935--60442991 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
60442925 ATTCATATTC
* * *
60442935 ATATGGTCCATTATGCCAAAATCACCTTT
1 ATATGGCCCACTAGGCCAAAATCACCTTT
*
60442964 ATATGGCCCACTAGGCCCAAATCACCTT
1 ATATGGCCCACTAGGCCAAAATCACCTT
60442992 GTATTCATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCAAAATCACCTTT
Found at i:60448767 original size:68 final size:68
Alignment explanation
Indices: 60448647--60448773 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
60448637 ACTGCATCTA
* * *
60448647 TCTCGTAGCTCTCTTGTCTACATGGTGTACACGTAGTATCACCCATACGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACGCAGTATCACACATACGACCTAGCTACCTCATA
60448712 ATG
66 ATG
* * **
60448715 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CGCAGTATCACACATACGACCTAGCTAC
60448774 ATACCATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACGCAGTATCACACATACGACCTAGCTACCTCATA
ATG
Found at i:60452979 original size:49 final size:51
Alignment explanation
Indices: 60452902--60453022 Score: 147
Period size: 49 Copynumber: 2.4 Consensus size: 51
60452892 TATTGTGAGG
* * * * *
60452902 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
* * *
60452951 TCGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
*
60453002 TCACGTGTGTAGTACTAAGTG
1 TCACATGTGTAGTACTAAGTG
60453023 AAGGACTATG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 38 0.64
50 2 0.03
51 19 0.32
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
Found at i:60453179 original size:215 final size:215
Alignment explanation
Indices: 60452808--60453237 Score: 772
Period size: 215 Copynumber: 2.0 Consensus size: 215
60452798 CAAATTGAAA
60452808 AAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTGAGCCTTCGGAAT
1 AAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTGAGCCTTCGGAAT
* * *
60452873 AGAAACGATACGAATGATCTATTGTGAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGT
66 AGAAACAATACGAATGATCTATTGTAAGGTCACGTGTATAGTACTAAGTGTAGGCTACTACGTGT
* *
60452938 ACCGGATAATTGGTCGCATGTGTAGTAGTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
131 ACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
60453003 CACGTGTGTAGTACTAAGTG
196 CACGTGTGTAGTACTAAGTG
*
60453023 AAGGACTATGAATAAATTTGTAACATGTTGGAAATTGAGGAATTTCCCGGTTGAGCCTTCGGAAT
1 AAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTGAGCCTTCGGAAT
*
60453088 AGAAACAATATGAATGATCTATTGTAAGGTCACGTGTATAGTACTAAGTGCTA-GCTACTACGTG
66 AGAAACAATACGAATGATCTATTGTAAGGTCACGTGTATAGTACTAAGTG-TAGGCTACTACGTG
*
60453152 TACCAGATAATTGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
130 TACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
60453217 TCACGTGTGTAGTACTAAGTG
195 TCACGTGTGTAGTACTAAGTG
60453238 CAGGCTACTA
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
215 204 0.99
216 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (215 bp):
AAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTGAGCCTTCGGAAT
AGAAACAATACGAATGATCTATTGTAAGGTCACGTGTATAGTACTAAGTGTAGGCTACTACGTGT
ACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
CACGTGTGTAGTACTAAGTG
Found at i:60453195 original size:49 final size:48
Alignment explanation
Indices: 60453126--60453293 Score: 203
Period size: 49 Copynumber: 3.4 Consensus size: 48
60453116 GTCACGTGTA
60453126 TAGTACTAAGTGCTA-GCTACTACGTGTACCAGATAATTGGTCGCATGTG
1 TAGTACTAAGTGC-AGGCTACTACGTGTACC-GATAATTGGTCGCATGTG
* * * * * *
60453175 TAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAA-TT-GGTCGCATGTG
*
60453226 TAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGCCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCG-ATAATTGGTCGCATGTG
*
60453275 TAGTGCTAAGTGCAGGCTA
1 TAGTACTAAGTGCAGGCTA
60453294 GTATGCATAC
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 53 0.53
50 9 0.09
51 37 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCATGTG
Found at i:60453292 original size:100 final size:100
Alignment explanation
Indices: 60453117--60453299 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
60453107 TATTGTAAGG
*
60453117 TCACGTGTATAGTACTAAGTGCTAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTATAGTACTAAGTGCTAGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
*
60453182 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* *
60453217 TCACGTGTGTAGTACTAAGTGC-AGGCTACTACGTGTACC-GAATAATTGGCCGCATGTGTAGTG
1 TCACGTGTATAGTACTAAGTGCTA-GCTACTACGTGTACCAG-ATAATTGGCCGCATGTGTAGTA
*
60453280 CTAAGTGCAGGCTAGTATGC
64 CTAAGTGCAGGCTACTATGC
60453300 ATACTAGATA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
99 2 0.03
100 74 0.97
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTATAGTACTAAGTGCTAGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:60461110 original size:52 final size:49
Alignment explanation
Indices: 60460995--60461169 Score: 194
Period size: 52 Copynumber: 3.5 Consensus size: 49
60460985 ACTAGTGACT
* * *
60460995 CAAGTGTGGTACTATGTGAAGGCTACTTTGAGTAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGC-ACTTTGTGAAGAAGATAGTTTGGTCA
60461044 CAAGTG-GAGTACTATGTGAAGGACACTTTGTGAAGAAAGATAGTTTTGGTCA
1 CAAGTGTG-GTACTATGTGAAGG-CACTTTGTGAAG-AAGATAG-TTTGGTCA
* *
60461096 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGG-CACTTTGTGAAGAAGATAG-TTTGGTC-A
* *
60461147 CAAGGGTGGTACTATGTGCAGGC
1 CAAGTGTGGTACTATGTGAAGGC
60461170 CACCGGGTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
48 1 0.01
49 29 0.26
50 4 0.04
51 36 0.33
52 39 0.35
53 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.29
Consensus pattern (49 bp):
CAAGTGTGGTACTATGTGAAGGCACTTTGTGAAGAAGATAGTTTGGTCA
Found at i:60461170 original size:51 final size:51
Alignment explanation
Indices: 60460990--60461172 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 51
60460980 ATGTCACTAG
* * * *
60460990 TGACT-CAAGTGTGGTACTATGTGAAGGCTACTTTGAGTAG-AGATAGCTT
1 TGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * * * *
60461039 GGTC-ACAAGTGG-AGTACTATGTGAAGGACACTTTGTGAAGAAAGATAGTTT
1 TGACTACAAG-GGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
* * *
60461090 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
*
60461141 TGACTACAAGGGTGGTACTATGTGCAGGCCAC
1 TGACTACAAGGGTGGTACTATGTGAAGGCCAC
60461173 CGGGTATCCG
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 29 0.27
50 1 0.01
51 45 0.42
52 32 0.30
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (51 bp):
TGACTACAAGGGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:60467805 original size:43 final size:44
Alignment explanation
Indices: 60467715--60467824 Score: 152
Period size: 43 Copynumber: 2.5 Consensus size: 44
60467705 TTAGTGTTTC
* *
60467715 AATCTACTCCACTGTAATTTCAGAGAGACTAGACTTCTAGCTTT
1 AATCTACTCCACTGCAACTTCAGAGAGACTAGACTTCTAGCTTT
*
60467759 AATCTACTCCACTGCAACTTCAGATG-GA-TAGACTTGTAGCTTT
1 AATCTACTCCACTGCAACTTCAGA-GAGACTAGACTTCTAGCTTT
* *
60467802 AATCTGCTCCACTGCGACTTCAG
1 AATCTACTCCACTGCAACTTCAG
60467825 GGAAATAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
43 35 0.58
44 24 0.40
45 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGAGAGACTAGACTTCTAGCTTT
Found at i:60467876 original size:49 final size:49
Alignment explanation
Indices: 60467752--60467981 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 49
60467742 ACTAGACTTC
* * **
60467752 TAGCTTTAATCTACTCCACTGCAACTTCA--G--AT-GGA-TAGACTTG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGGTTTG
* *
60467795 TAGCTTTAATCTGCTCCACTGCGACTTCAGGGAAATAAGATTTGGTTTG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGGTTTG
* * *
60467844 TAGCTTTAATCTATTCCACTTCAACTTTAGGGAAATAAGATTT-G--T-
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGGTTTG
* * * * *
60467889 TATCTTTAGTCTACTCCATTGCAACTTCAGGAAAATAAGATTTAGTTTG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGGTTTG
* **
60467938 TAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTG
60467982 CTATCTTCAG
Statistics
Matches: 151, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
43 27 0.18
45 37 0.25
46 2 0.01
47 2 0.01
48 4 0.03
49 79 0.52
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (49 bp):
TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGGTTTG
Found at i:60467925 original size:45 final size:45
Alignment explanation
Indices: 60467752--60468113 Score: 230
Period size: 45 Copynumber: 7.9 Consensus size: 45
60467742 ACTAGACTTC
** *
60467752 TAGCTTTAATCTACTCCACTGCAACTTCA-GATGGAT-AGACTTG-
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGA-AAATAAGATTTGT
* * *
60467795 TAGCTTTAATCTGCTCCACTGCGACTTCAGGGAAATAAGATTTGGTTT
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTT-G--T
* * * *
60467843 GTAGCTTTAATCTATTCCACTTCAACTTTAGGGAAATAAGATTTGT
1 -TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTTGT
* * *
60467889 TATCTTTAGTCTACTCCATTGCAACTTCAGGAAAATAAGATTTAGTTT
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTT-G--T
* ** * *
60467937 GTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGC
1 -TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTTGT
* * ** * * *
60467983 TATCTTCAGGCTACTCCACTGTAACTTCAGGAATATAAGACTTGCT
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTTG-T
* * * * * * * * *
60468029 T-TCTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTG-
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTTGT
* * * * * * *
60468072 TGGCTTCAATCTGCTTCATTGCAACTTCAGGGAGATAAGATT
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATT
60468114 CACCATAATT
Statistics
Matches: 253, Mismatches: 53, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
43 30 0.12
44 41 0.16
45 102 0.40
46 3 0.01
48 3 0.01
49 74 0.29
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (45 bp):
TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATTTGT
Found at i:60467927 original size:94 final size:93
Alignment explanation
Indices: 60467752--60468022 Score: 332
Period size: 94 Copynumber: 2.9 Consensus size: 93
60467742 ACTAGACTTC
* * * * *
60467752 TAGCTTTAATCTACTCCACTGCAACTTCAGATGG--AT-AGACTTGTAGCTTTAATCTGCTCCAC
1 TAGCTTTAATCTATTCCACTGCAACTTCAG--GGAAATAAGATTTGTATCTTTAGTCTACTCCAC
* * *
60467814 TGCGACTTCAGGGAAATAAGATTTGGTTTG
64 TGCAACTTCAGGAAAATAAGATTTAGTTTG
* * *
60467844 TAGCTTTAATCTATTCCACTTCAACTTTAGGGAAATAAGATTTGTTATCTTTAGTCTACTCCATT
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTG-TATCTTTAGTCTACTCCACT
60467909 GCAACTTCAGGAAAATAAGATTTAGTTTG
65 GCAACTTCAGGAAAATAAGATTTAGTTTG
* * * *
60467938 TAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTACTCCACT
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTG-TATCTTTAGTCTACTCCACT
* *
60468003 GTAACTTCAGGAATATAAGA
65 GCAACTTCAGGAAAATAAGA
60468023 CTTGCTTTCT
Statistics
Matches: 154, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
90 2 0.01
92 29 0.19
93 6 0.04
94 117 0.76
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (93 bp):
TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGTATCTTTAGTCTACTCCACTG
CAACTTCAGGAAAATAAGATTTAGTTTG
Found at i:60473754 original size:41 final size:41
Alignment explanation
Indices: 60473697--60473780 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
60473687 CATTTAGGGC
* *
60473697 TAATCTATTATCAATTAGTACCCCCGGCAGTGTATACCCTT
1 TAATCTATTATCAATTAGTAACCCCGGCAGTGTATACACTT
60473738 TAATCTATTATCAATTAGTAACCCCGGCAGTGTATACACTT
1 TAATCTATTATCAATTAGTAACCCCGGCAGTGTATACACTT
60473779 TA
1 TA
60473781 CAGCGGGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (41 bp):
TAATCTATTATCAATTAGTAACCCCGGCAGTGTATACACTT
Found at i:60479835 original size:9 final size:9
Alignment explanation
Indices: 60479821--60479846 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
60479811 ACACAAAAAT
60479821 AATAATAAA
1 AATAATAAA
60479830 AATAATAAA
1 AATAATAAA
60479839 AATAATAA
1 AATAATAA
60479847 TGATAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAA
Found at i:60485525 original size:36 final size:36
Alignment explanation
Indices: 60485478--60485552 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
60485468 AGTTATGTTT
60485478 GTAAGATTGGGTTTGTTCAAGGATGGTAGTATCGTG
1 GTAAGATTGGGTTTGTTCAAGGATGGTAGTATCGTG
60485514 GTAAGATTGGGTTTGTTCAAGGATGGTAGTATCGTG
1 GTAAGATTGGGTTTGTTCAAGGATGGTAGTATCGTG
60485550 GTA
1 GTA
60485553 GATGGCAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.05, G:0.36, T:0.36
Consensus pattern (36 bp):
GTAAGATTGGGTTTGTTCAAGGATGGTAGTATCGTG
Found at i:60492345 original size:19 final size:19
Alignment explanation
Indices: 60492289--60492345 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
60492279 GAGTGCATAA
* *
60492289 TTAGGGGCACCAGAGTTCT
1 TTAGGGGCACCAAAGTGCT
* *
60492308 TATAGGGGCACGAATGTGCT
1 T-TAGGGGCACCAAAGTGCT
*
60492328 TTAGGAGCACCAAAGTGC
1 TTAGGGGCACCAAAGTGC
60492346 AAACAGAGGC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (19 bp):
TTAGGGGCACCAAAGTGCT
Found at i:60501084 original size:27 final size:27
Alignment explanation
Indices: 60501054--60501118 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
60501044 GATCACTGAA
* *
60501054 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
60501081 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
60501108 CACTTTGCCAT
1 CACTTTGCCAT
60501119 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:60501254 original size:31 final size:31
Alignment explanation
Indices: 60501209--60501355 Score: 235
Period size: 31 Copynumber: 4.7 Consensus size: 31
60501199 TTGTCACTTT
*
60501209 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
60501240 TAG-CTAGAGCTACCACTTTTCACT-AGTCAGG
1 TAGCCGA-AGCTACCACTTTTCACTGA-TCAGG
*
60501271 TAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
60501302 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
60501333 TAGCCGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
60501356 ATTGTACACA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
30 3 0.03
31 101 0.94
32 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:60501298 original size:62 final size:61
Alignment explanation
Indices: 60501175--60501355 Score: 238
Period size: 62 Copynumber: 2.9 Consensus size: 61
60501165 TTAGATAAGT
* * ** *
60501175 GTAGCTAAAGCTACCACTTATCACTTGTCACTTTTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCTAGAGCTACCACTTTTCAC-TGTCA--GGTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60501239 GTAGCTAGAGCTACCACTTTTCACTAGTCAGGTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCTAGAGCTACCACTTTTCACT-GTCAGGTAGCCGAAGCTACCACTTTTCACTGATCAG
*
60501301 GTAGC-CGAAGCTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCAC
1 GTAGCTAG-AGCTACCACTTTTCACTG-TCAGGTAGCCGAAGCTACCACTTTTCAC
60501356 ATTGTACACA
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
61 2 0.02
62 77 0.73
63 1 0.01
64 26 0.25
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (61 bp):
GTAGCTAGAGCTACCACTTTTCACTGTCAGGTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:60501432 original size:33 final size:33
Alignment explanation
Indices: 60501348--60501460 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
60501338 GAAGCTACCA
* *
60501348 CTTTTCACA-TTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
*
60501381 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* *
60501413 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
60501446 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
60501461 CTTTTAGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 29 0.41
33 41 0.59
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:60516747 original size:40 final size:40
Alignment explanation
Indices: 60516717--60516884 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
60516707 GGACTAAGAT
* *
60516717 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
60516757 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
60516797 CCGAAGGCATTCGTGCGAGTTGTTGAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
60516837 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
60516876 CCGAAGGCA
1 CCGAAGGCA
60516885 CTTGAACGAG
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.27
40 84 0.73
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:60516801 original size:80 final size:79
Alignment explanation
Indices: 60516664--60516884 Score: 237
Period size: 80 Copynumber: 2.8 Consensus size: 79
60516654 TTGAATGCTG
* * * * * * *
60516664 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
60516728 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
60516744 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* ** *
60516809 GTGCGAGTTGTTGAA
65 GTGCGAGATACTAAA
* * * * *
60516824 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCA
60516885 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 33 0.28
80 82 0.69
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:60516906 original size:79 final size:80
Alignment explanation
Indices: 60516742--60516921 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 80
60516732 CGAGATACTA
* * *
60516742 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
60516807 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
60516822 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
60516886 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
60516900 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
60516922 TACGTGATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.51
80 27 0.32
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:60520322 original size:23 final size:22
Alignment explanation
Indices: 60520284--60520345 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
60520274 GTAATTGAAC
60520284 AAAAAATT-AAAAAAAAA-GAA
1 AAAAAATTGAAAAAAAAACGAA
*
60520304 AAGGAAATTTGAAAAAAAAATCGAA
1 AA--AAAATTGAAAAAAAAA-CGAA
60520329 AAAAAATTGAAAAAAAA
1 AAAAAATTGAAAAAAAA
60520346 TTTGAAGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
22 5 0.14
23 23 0.66
25 5 0.14
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.13
Consensus pattern (22 bp):
AAAAAATTGAAAAAAAAACGAA
Found at i:60520350 original size:12 final size:12
Alignment explanation
Indices: 60520308--60520351 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
60520298 AAAGAAAAGG
60520308 AAATTTGAAAAA
1 AAATTTGAAAAA
* *
60520320 AAAATCGAAAAA
1 AAATTTGAAAAA
60520332 AAA-TTGAAAAA
1 AAATTTGAAAAA
60520343 AAATTTGAA
1 AAATTTGAA
60520352 GTATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (12 bp):
AAATTTGAAAAA
Found at i:60528549 original size:40 final size:40
Alignment explanation
Indices: 60528494--60528765 Score: 438
Period size: 40 Copynumber: 6.8 Consensus size: 40
60528484 ATTTGAATAC
*
60528494 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
60528534 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
60528574 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
60528616 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
60528656 ATCCGGGCTAAGACCTGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
60528696 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
60528736 A-CCTGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCC-GGGCTAAGACCCGAAGGCATTTGTGC
60528766 TTGTGGTTAT
Statistics
Matches: 217, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 175 0.81
42 40 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:60528711 original size:122 final size:122
Alignment explanation
Indices: 60528486--60528765 Score: 451
Period size: 122 Copynumber: 2.3 Consensus size: 122
60528476 GCATGAGCAT
*
60528486 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
* * *
60528550 GAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* *
60528607 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCT
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
60528672 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* *
60528729 TTG-C-TATA-CCTGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGACATATATCC-GGGCTAAGACCCGAAGGCATTTGTGC
60528766 TTGTGGTTAT
Statistics
Matches: 149, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 2 0.01
120 28 0.19
121 5 0.03
122 114 0.77
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (122 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:60536978 original size:40 final size:40
Alignment explanation
Indices: 60536923--60537194 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
60536913 ATTTGAATAC
*
60536923 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
60536963 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
60537003 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
60537045 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
60537085 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
60537125 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * * *
60537165 ACCCGGGTTAAGACCCAAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
60537195 TTGTGGTTAT
Statistics
Matches: 216, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 176 0.81
42 40 0.19
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:60537140 original size:122 final size:122
Alignment explanation
Indices: 60536915--60537194 Score: 449
Period size: 122 Copynumber: 2.3 Consensus size: 122
60536905 GCATGAGCAT
*
60536915 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
* * *
60536979 GAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
*
60537036 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
*
60537101 GAAGGCAATTGTGCAAGTTGATTTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * * *
60537158 TTG-C-TATACCCGGGTTAAGACCCAAAGGCAATTGTGC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
60537195 TTGTGGTTAT
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 29 0.20
121 5 0.03
122 114 0.77
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (122 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:60540958 original size:110 final size:110
Alignment explanation
Indices: 60540765--60540982 Score: 409
Period size: 110 Copynumber: 2.0 Consensus size: 110
60540755 TTTTCATCTT
60540765 GTTTTTAATGATTTCTATGTTTCTAAAGTTGTTGTAGCTTAATCTAGCTAGCCCGGGGACTAATT
1 GTTTTTAATGATTTCTATGTTTCTAAAGTTGTTGTAGCTTAATCTAGCTAGCCCGGGGACTAATT
60540830 TGTAAAACTGCTAAAAGTATAGGGCTTTATCATGAATGTATATTG
66 TGTAAAACTGCTAAAAGTATAGGGCTTTATCATGAATGTATATTG
*
60540875 GTTTTTAATGATTTCTATGTTTCTGAAGTTGTTGTAGCTTAATCTAGCTAGCCCGGGGACTAATT
1 GTTTTTAATGATTTCTATGTTTCTAAAGTTGTTGTAGCTTAATCTAGCTAGCCCGGGGACTAATT
* *
60540940 TGTAAAACTGTTAAAAGTATAGGGTTTTATCATGAATGTATAT
66 TGTAAAACTGCTAAAAGTATAGGGCTTTATCATGAATGTATAT
60540983 ATGTTGTTTT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (110 bp):
GTTTTTAATGATTTCTATGTTTCTAAAGTTGTTGTAGCTTAATCTAGCTAGCCCGGGGACTAATT
TGTAAAACTGCTAAAAGTATAGGGCTTTATCATGAATGTATATTG
Found at i:60544706 original size:30 final size:30
Alignment explanation
Indices: 60544670--60544730 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
60544660 ATCAGTCCAC
60544670 ACATGCAACACACAAAATCAAATGTTTACT
1 ACATGCAACACACAAAATCAAATGTTTACT
*
60544700 ACATGCAACACACAAAATCACATGTTTACT
1 ACATGCAACACACAAAATCAAATGTTTACT
60544730 A
1 A
60544731 TCTTGTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.23
Consensus pattern (30 bp):
ACATGCAACACACAAAATCAAATGTTTACT
Found at i:60547830 original size:17 final size:17
Alignment explanation
Indices: 60547808--60547849 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
60547798 TCATTCATCA
60547808 TTCATTCAT-TCATTTTC
1 TTCATTC-TCTCATTTTC
60547825 TTCATTCTCTCATTTTC
1 TTCATTCTCTCATTTTC
*
60547842 TTCTTTCT
1 TTCATTCT
60547850 TTCCACACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCATTCTCTCATTTTC
Found at i:60558975 original size:67 final size:65
Alignment explanation
Indices: 60558834--60558987 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 65
60558824 CATCATGTGT
* * * *
60558834 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGGACACCATG
60558899 TAG
63 TAG
* *
60558902 ACAAGAGAGCTACAAGATAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTAAAGGACACCATG
1 ACAAGAGAGCTACAAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGT---GGACACCATG
60558966 TAG
63 TAG
*
60558969 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACAAGATA
60558988 AACTGGCTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 26 0.34
65 3 0.04
66 1 0.01
67 30 0.39
68 16 0.21
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACAAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGGACACCATGTAG
Found at i:60563794 original size:39 final size:39
Alignment explanation
Indices: 60563724--60563902 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
60563714 ACAAAGCATG
* * *
60563724 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
60563764 CGGGACTTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
60563804 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
60563843 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
60563882 CGGGACTCAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
60563903 TTCTCCATTA
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 107 0.84
40 21 0.16
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:60569146 original size:18 final size:18
Alignment explanation
Indices: 60569104--60569140 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60569094 ACACTTACTG
60569104 ACCCATCAGTAGGTTTAT
1 ACCCATCAGTAGGTTTAT
60569122 ACCCATCAGTAGGTTTAT
1 ACCCATCAGTAGGTTTAT
60569140 A
1 A
60569141 GTCATCTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (18 bp):
ACCCATCAGTAGGTTTAT
Found at i:60575221 original size:27 final size:27
Alignment explanation
Indices: 60575202--60575557 Score: 451
Period size: 27 Copynumber: 13.2 Consensus size: 27
60575192 ATTACCAAAA
* * *
60575202 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
60575229 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
***
60575256 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
60575283 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
60575310 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * ***
60575337 TACCCTAGATTTATAAAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
60575364 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
60575391 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
60575418 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
60575445 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
60575472 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
60575499 TACCCTCGATTTGTAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
60575526 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
60575553 TACCC
1 TACCC
60575558 CTAGGGTGTT
Statistics
Matches: 295, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 295 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:60575292 original size:81 final size:81
Alignment explanation
Indices: 60575202--60575557 Score: 550
Period size: 81 Copynumber: 4.4 Consensus size: 81
60575192 ATTACCAAAA
* * *
60575202 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* *
60575267 TATAGAATTATTGTTT
66 TATAAAATTACTGTTT
* * *
60575283 TACCCTCGATTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTAGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
60575348 TATAAAATTATTGTTT
66 TATAAAATTACTGTTT
* *
60575364 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
*
60575429 TATAAAATTACTATTT
66 TATAAAATTACTGTTT
*
60575445 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* * *
60575510 TGTAGAATTACCGTTT
66 TATAAAATTACTGTTT
* *
60575526 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTATAGAATTACCGTTTTACCC
60575558 CTAGGGTGTT
Statistics
Matches: 253, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 253 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TATAAAATTACTGTTT
Found at i:60583843 original size:41 final size:43
Alignment explanation
Indices: 60583797--60583900 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
60583787 TCGATACCTC
* * * *
60583797 TGTCCCTGACAGGGTCTTA-ATG-AAA-TCAAATACGATGCCGA
1 TGTCCCAGACACGGTCTTAGACGTAAACTCAAAT-CGAGGCCGA
* *
60583838 TGTCCCAGACATGGTCTTAGACGTAAATCTCAAATCGAGGCCTA
1 TGTCCCAGACACGGTCTTAGACGTAAA-CTCAAATCGAGGCCGA
60583882 TGTCCCAGACACGGTCTTA
1 TGTCCCAGACACGGTCTTA
60583901 CACGATATCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 17 0.32
42 2 0.04
43 3 0.06
44 25 0.47
45 6 0.11
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTAGACGTAAACTCAAATCGAGGCCGA
Found at i:60584744 original size:5 final size:5
Alignment explanation
Indices: 60584726--60584759 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
60584716 ATGCATGGGC
60584726 ATTTT ATGTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATT
60584760 ACACATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:60586725 original size:27 final size:27
Alignment explanation
Indices: 60586687--60586859 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
60586677 CATACTTGAA
60586687 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGATGATTTTG
**
60586714 CCCTCATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGATGATTTTG
* *
60586741 CCCTCACGTGAT---A-CA--ATTTTG
1 CCCTCATGTGATAAAATGATGATTTTG
* * *
60586762 CCCTAACGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGATGATTTTG
* * *
60586789 CCCTTATATGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGATGATTTTG
* **
60586816 CCCTAATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGATGATTTTG
* *
60586843 CCTTTATGTGATAAAAT
1 CCCTCATGTGATAAAAT
60586860 AACCGAAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
21 17 0.14
23 1 0.01
24 2 0.02
25 1 0.01
27 102 0.83
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGATGATTTTG
Found at i:60586758 original size:21 final size:21
Alignment explanation
Indices: 60586732--60586774 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
60586722 TGATAAAATG
*
60586732 ACAATTTTGCCCTCACGTGAT
1 ACAATTTTGCCCTAACGTGAT
60586753 ACAATTTTGCCCTAACGTGAT
1 ACAATTTTGCCCTAACGTGAT
60586774 A
1 A
60586775 AAATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (21 bp):
ACAATTTTGCCCTAACGTGAT
Found at i:60586801 original size:48 final size:48
Alignment explanation
Indices: 60586708--60586844 Score: 121
Period size: 48 Copynumber: 2.7 Consensus size: 48
60586698 TAAAATGATG
* * *
60586708 ATTTTGCCCTCATGTGATAAAATGACAATTTTGCCCTCACGTGATACA
1 ATTTTGCCCTAACGTGATAAAATGACAATTTTGCCCTCACATGATACA
** * * * *
60586756 ATTTTGCCCTAACGTGATAAAATGATGATTTTTCCCTTATATGATAAAATGA
1 ATTTTGCCCTAACGTGATAAAATGACAATTTTGCCCTCACATGAT---A-CA
* *
60586808 TGATTTTTCCCTAATGTGATAAAATGACAATTTTGCC
1 --ATTTTGCCCTAACGTGATAAAATGACAATTTTGCC
60586845 TTTATGTGAT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
48 37 0.54
51 1 0.01
52 1 0.01
54 30 0.43
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (48 bp):
ATTTTGCCCTAACGTGATAAAATGACAATTTTGCCCTCACATGATACA
Found at i:60587281 original size:18 final size:19
Alignment explanation
Indices: 60587254--60587303 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
60587244 TATTTGCATT
*
60587254 CTGCACTGATTACT-GCTA
1 CTGCATTGATTACTGGCTA
* *
60587272 CTGCATTGATCA-TGGTTA
1 CTGCATTGATTACTGGCTA
*
60587290 CTGCATTGACTACT
1 CTGCATTGATTACT
60587304 ACCACTGCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (19 bp):
CTGCATTGATTACTGGCTA
Found at i:60599155 original size:131 final size:131
Alignment explanation
Indices: 60598996--60599253 Score: 498
Period size: 131 Copynumber: 2.0 Consensus size: 131
60598986 GTATGATGTA
60598996 TTAATTTTGTCATTTGGATGTGAAATTATTAAAAAGGACTTATGTGTGAAACTTTGAAAATGTGA
1 TTAATTTTGTCATTTGGATGTGAAATTATTAAAAAGGACTTATGTGTGAAACTTTGAAAATGTGA
60599061 TAGGTTAAATTATAGTGGTCAAATAATGCATGGTTTAAAAAAAATGTGCACTTGCATGTCAATTT
66 TAGGTTAAATTATAGTGGTCAAATAATGCATGGTTTAAAAAAAATGTGCACTTGCATGTCAATTT
60599126 C
131 C
60599127 TTAATTTTGTCATTTGGATGTGAAATTATTAAAAAGGACTTATGTGTGAAACTTTGAAAATGTGA
1 TTAATTTTGTCATTTGGATGTGAAATTATTAAAAAGGACTTATGTGTGAAACTTTGAAAATGTGA
* *
60599192 TAGGTTAAATTATAGTGGTCAAATAATGCATGGTTTAAAAAAAATGTGGACTTGTATGTCAA
66 TAGGTTAAATTATAGTGGTCAAATAATGCATGGTTTAAAAAAAATGTGCACTTGCATGTCAA
60599254 ATTCCGCACT
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (131 bp):
TTAATTTTGTCATTTGGATGTGAAATTATTAAAAAGGACTTATGTGTGAAACTTTGAAAATGTGA
TAGGTTAAATTATAGTGGTCAAATAATGCATGGTTTAAAAAAAATGTGCACTTGCATGTCAATTT
C
Found at i:60605211 original size:43 final size:43
Alignment explanation
Indices: 60605164--60605296 Score: 132
Period size: 43 Copynumber: 3.1 Consensus size: 43
60605154 GCGTAATGCC
60605164 GGTGAAATGATATCGGAGTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGAGTTAAAGGTCTAGCAAGCTTTAAGCT
** * * * *
60605207 GGTG-AAT-ATTATCGG-GTT-CCGAGCCTAGCAGGC-ATAATGCC
1 GGTGAAATGA-TATCGGAGTTAAAG-GTCTAGCAAGCTTTAA-GCT
* *
60605248 GGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGAGTTAAAGGTCTAGCAAGCTTTAAGCT
60605291 GGTGAA
1 GGTGAA
60605297 TATTATCGGG
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
40 4 0.06
41 19 0.28
42 17 0.25
43 24 0.35
44 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (43 bp):
GGTGAAATGATATCGGAGTTAAAGGTCTAGCAAGCTTTAAGCT
Found at i:60605247 original size:84 final size:84
Alignment explanation
Indices: 60605134--60605336 Score: 352
Period size: 84 Copynumber: 2.4 Consensus size: 84
60605124 GTTATGAATT
** * *
60605134 TCGGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGAGTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
60605199 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
* *
60605218 TCGGGTTCCGAGCCTAGCAGGCATAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
60605283 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
60605302 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGA
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGA
60605337 TGAAATCAGG
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 111 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (84 bp):
TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
TTTAAGCTGGTGAATATTA
Found at i:60605252 original size:41 final size:41
Alignment explanation
Indices: 60605207--60605336 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 41
60605197 GCTTTAAGCT
60605207 GGTGAATATTATCGGGTTCCGAGCCTAGCAGGCATAATGCC
1 GGTGAATATTATCGGGTTCCGAGCCTAGCAGGCATAATGCC
** ** * * * *
60605248 GGTGAA-ATGATATCAGACTT-AAAGGTCTAGCAAGCTTTAA-GCT
1 GGTGAATAT--TATC-GGGTTCCGA-GCCTAGCAGGC-ATAATGCC
* *
60605291 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGTTCCGAGCCTAGCAGGCATAATGCC
60605332 GGTGA
1 GGTGA
60605337 TGAAATCAGG
Statistics
Matches: 64, Mismatches: 17, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
40 5 0.08
41 24 0.38
42 10 0.16
43 20 0.31
44 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (41 bp):
GGTGAATATTATCGGGTTCCGAGCCTAGCAGGCATAATGCC
Found at i:60623296 original size:7 final size:7
Alignment explanation
Indices: 60623284--60623323 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
60623274 ATTTGCTTTC
60623284 ATTTTTA
1 ATTTTTA
60623291 ATTTTTA
1 ATTTTTA
60623298 ATTTTTA
1 ATTTTTA
*
60623305 ATTTATA
1 ATTTTTA
*
60623312 AGTATTTA
1 A-TTTTTA
60623320 ATTT
1 ATTT
60623324 GGGTGTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATTTTTA
Done.