Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 206 of 208
Found at i:63441186 original size:7 final size:7
Alignment explanation
Indices: 63441153--63441215 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
63441143 TGCGTTGAAA
63441153 CCCTAA-
1 CCCTAAC
*
63441159 CCGTAAC
1 CCCTAAC
63441166 CCCTAAATC
1 CCCT-AA-C
63441175 CCCTAAC
1 CCCTAAC
63441182 CCCTAAC
1 CCCTAAC
*
63441189 CCCTAAA
1 CCCTAAC
* *
63441196 GCATAAC
1 CCCTAAC
*
63441203 ACCTAAC
1 CCCTAAC
63441210 CCCTAA
1 CCCTAA
63441216 ACTTTAAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
6 5 0.11
7 31 0.69
8 4 0.09
9 5 0.11
ACGTcount: A:0.35, C:0.46, G:0.03, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:63441706 original size:75 final size:76
Alignment explanation
Indices: 63441568--63441708 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 76
63441558 TTAAAGAAAG
* ** *
63441568 CATTAGCGGCGCTTCATTTAAAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGGTGCCGTTG
1 CATTAGCGGCGCTTCATCTAAAAACGCCGCTAAAGCCACAAAAAGCT-AGAAAACGGTGCCGTTG
63441633 GGCAACCCCAAC
65 GGCAACCCCAAC
* * *
63441645 CATTAGCGGTGCTTCA-CTAAAAACGCCGCTAAGGCCTCAAAAGAGCT-GAAAACGGTGCCGTTG
1 CATTAGCGGCGCTTCATCTAAAAACGCCGCTAAAGCCACAAAA-AGCTAGAAAACGGTGCCGTTG
63441708 G
65 G
63441709 ACATATGTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 17 0.30
76 21 0.38
77 18 0.32
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.18
Consensus pattern (76 bp):
CATTAGCGGCGCTTCATCTAAAAACGCCGCTAAAGCCACAAAAAGCTAGAAAACGGTGCCGTTGG
GCAACCCCAAC
Found at i:63447767 original size:3 final size:3
Alignment explanation
Indices: 63447759--63447803 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
63447749 ATTGTTAATC
63447759 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63447804 ACTCATGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63448852 original size:52 final size:50
Alignment explanation
Indices: 63448750--63448855 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
63448740 TACAGATTTA
* * * *
63448750 ACTATCAATTGTCTATTGACTATACTTTTAACTCCACAAAAAGCTCTAAG
1 ACTATCAATTGTCTATTGACTACACCTTTAACTCCAAAAAAAGCACTAAG
63448800 ACTATCAATTGTCTATTGACTACACACTTTAACTCGACAAAAAAAG-ACTAAG
1 ACTATCAATTGTCTATTGACTACAC-CTTTAACTC--CAAAAAAAGCACTAAG
63448852 ACTA
1 ACTA
63448856 AGACTGTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
50 24 0.49
51 8 0.16
52 9 0.18
53 8 0.16
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (50 bp):
ACTATCAATTGTCTATTGACTACACCTTTAACTCCAAAAAAAGCACTAAG
Found at i:63451816 original size:21 final size:21
Alignment explanation
Indices: 63451775--63451817 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
63451765 CATAATGTAG
*
63451775 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
63451796 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
63451817 A
1 A
63451818 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:63452140 original size:16 final size:16
Alignment explanation
Indices: 63452121--63452165 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
63452111 CAGATTATAG
63452121 CTTTATTCCATTACAA
1 CTTTATTCCATTACAA
*
63452137 CTTTATTCAATTACAA
1 CTTTATTCCATTACAA
*
63452153 CTCTATTCCATTA
1 CTTTATTCCATTA
63452166 TAGTGAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (16 bp):
CTTTATTCCATTACAA
Found at i:63454552 original size:16 final size:18
Alignment explanation
Indices: 63454526--63454558 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63454516 GATTAGTTTT
63454526 TTTTATTATTTT-CTTTA
1 TTTTATTATTTTACTTTA
63454543 TTTT-TTATTTTACTTT
1 TTTTATTATTTTACTTT
63454559 TCATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTATTTTACTTTA
Found at i:63456338 original size:29 final size:30
Alignment explanation
Indices: 63456306--63456383 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
63456296 ATTTGGAGTC
63456306 AAAATGTAATTTTTGAAAAG-TACAGGGTA
1 AAAATGTAATTTTTGAAAAGTTACAGGGTA
* * * ** *
63456335 AAAACGTAATTTTAGGAAAGTTAGGGGGTT
1 AAAATGTAATTTTTGAAAAGTTACAGGGTA
*
63456365 AAAATGTAATTTTTAAAAA
1 AAAATGTAATTTTTGAAAA
63456384 TTTTAGGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTACAGGGTA
Found at i:63459835 original size:72 final size:72
Alignment explanation
Indices: 63459759--63460267 Score: 777
Period size: 72 Copynumber: 7.1 Consensus size: 72
63459749 GAATTGACAA
*
63459759 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63459824 ATGAACT
66 ATGATCT
* * *
63459831 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGGGAGTCGCAAAAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63459896 ATGATCT
66 ATGATCT
* * *
63459903 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCCAAATGAGCGAGTTGCAAGAGGTTTCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63459968 ATGATCT
66 ATGATCT
* * *
63459975 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63460040 ATGATCT
66 ATGATCT
* *
63460047 TGGAATTTGTCCACTCAATTGGTTCTACGAGAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63460112 ATGATCT
66 ATGATCT
* * * *
63460119 TGGAATTTTTCCGCTCAATTAGTTCT-CTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-GAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
*
63460183 AGTGATCT
65 AATGATCT
* * * * * *
63460191 TGGAATTTGTCCACTCAATTGGTTCAGTGACAAGTCTAAATGAGTGAGTTGCAAGACGTTTCCTA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63460256 GTGATCT
66 ATGATCT
63460263 TGGAA
1 TGGAA
63460268 CGGTTCCTGA
Statistics
Matches: 402, Mismatches: 33, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
71 1 0.00
72 401 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63463084 original size:56 final size:56
Alignment explanation
Indices: 63462996--63463139 Score: 234
Period size: 56 Copynumber: 2.5 Consensus size: 56
63462986 TCCACAGAAA
* *
63462996 AAGACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACT
1 AAGACTATCAATTGTCTATTGATTACACTTTAACTCCACAAAAAAAGACTAAGACT
* *
63463052 ATGACTATCAATTGTCTATTGATTACACTTTAACTCGACAAAAAAAGACTAAGACT
1 AAGACTATCAATTGTCTATTGATTACACTTTAACTCCACAAAAAAAGACTAAGACT
63463108 AAGACTATCAATTGTCTATTGACTTCACACTT
1 AAGACTATCAATTGTCTATTGA-TT-ACACTT
63463140 GCTGTTGCTT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 73 0.90
57 2 0.02
58 6 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (56 bp):
AAGACTATCAATTGTCTATTGATTACACTTTAACTCCACAAAAAAAGACTAAGACT
Found at i:63465623 original size:23 final size:22
Alignment explanation
Indices: 63465597--63465677 Score: 81
Period size: 24 Copynumber: 3.5 Consensus size: 22
63465587 AGTGTTGCAC
*
63465597 ATTGAAGCATTTAAATGCTGTGA
1 ATTGAAGCGTTTAAATGCTGT-A
* * *
63465620 ATTGAAGTGTTAAAAGTGCTGCAA
1 ATTGAAGCGTTTAAA-TGCTG-TA
* *
63465644 ATTGAAGTGTTTAAATGTTGTA
1 ATTGAAGCGTTTAAATGCTGTA
63465666 ATTGAAGCGTTT
1 ATTGAAGCGTTT
63465678 TAAGAACTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
22 12 0.25
23 16 0.33
24 20 0.42
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (22 bp):
ATTGAAGCGTTTAAATGCTGTA
Found at i:63465646 original size:24 final size:23
Alignment explanation
Indices: 63465575--63465654 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
63465565 TTTTTCATGT
* *
63465575 TTGAAGTGTTAAAGTGTTGCACA
1 TTGAAGTGTTAAAGTGCTGCAAA
**
63465598 TTGAAGCAT-TTAAA-TGCTGTGAA
1 TTGAAG--TGTTAAAGTGCTGCAAA
63465621 TTGAAGTGTTAAAAGTGCTGCAAA
1 TTGAAGTGTT-AAAGTGCTGCAAA
63465645 TTGAAGTGTT
1 TTGAAGTGTT
63465655 TAAATGTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 20 0.43
24 22 0.48
25 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (23 bp):
TTGAAGTGTTAAAGTGCTGCAAA
Found at i:63465669 original size:46 final size:46
Alignment explanation
Indices: 63465575--63465672 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 46
63465565 TTTTTCATGT
* *
63465575 TTGAAGTGTTAAAGTGTTGCACATTGAAGCATTTAAATGCTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGCATTTAAATGCTGTGAA
** *
63465621 TTGAAGTGTTAAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGT-AA
1 TTGAAGTGTT-AAAGTGCTGCAAATTGAAGCATTTAAATGCTGTGAA
63465667 TTGAAG
1 TTGAAG
63465673 CGTTTTAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 18 0.39
47 28 0.61
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGCATTTAAATGCTGTGAA
Found at i:63465688 original size:46 final size:47
Alignment explanation
Indices: 63465592--63465702 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 47
63465582 GTTAAAGTGT
* ** * **
63465592 TGCACATTGAAGCATTTAAATGCTGTGAATTGAAGTGTTAAAAGTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTGAATTGAAGCGTTAAAAGAAC
* **
63465639 TGCAAATTGAAGTGTTTAAATGTTGT-AATTGAAGCGTTTTAAGAAC
1 TGCAAATTGAAGTGTTTAAATGCTGTGAATTGAAGCGTTAAAAGAAC
* *
63465685 TGCAAATTAAATTGTTTA
1 TGCAAATTGAAGTGTTTA
63465703 GTTGCTGAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
46 31 0.58
47 22 0.42
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (47 bp):
TGCAAATTGAAGTGTTTAAATGCTGTGAATTGAAGCGTTAAAAGAAC
Found at i:63465723 original size:23 final size:22
Alignment explanation
Indices: 63465699--63465788 Score: 58
Period size: 23 Copynumber: 4.0 Consensus size: 22
63465689 AATTAAATTG
63465699 TTTAGTTGCTGAAAATTGAGATGT
1 TTTA-TTGCTG-AAATTGAGATGT
* *
63465723 TTTATTGCTGTAATTGAGGTGT
1 TTTATTGCTGAAATTGAGATGT
* * * *
63465745 ATAAATGTTGTAAATTGA-AGTGT
1 TTTATTGCTG-AAATTGAGA-TGT
*
63465768 TTTATTGGTGGAAATTG-GATG
1 TTTATTGCT-GAAATTGAGATG
63465789 GTATAATGAC
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
22 18 0.36
23 27 0.54
24 5 0.10
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (22 bp):
TTTATTGCTGAAATTGAGATGT
Found at i:63467461 original size:2 final size:2
Alignment explanation
Indices: 63467454--63467478 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63467444 TATACAAATA
63467454 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
63467479 AATGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63467699 original size:16 final size:15
Alignment explanation
Indices: 63467632--63467702 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 15
63467622 TATATATAGA
*
63467632 ATAAAAATAATTTAAT
1 ATAAAAAT-ATTTTAT
* *
63467648 ATAAATTATATGTATAT
1 ATAAA-AATAT-TTTAT
*
63467665 ATATAAAATAGTATTAT
1 ATA-AAAATA-TTTTAT
63467682 ATAAAAATATTTTCAT
1 ATAAAAATATTTT-AT
63467698 ATAAA
1 ATAAA
63467703 TCTTTAATAC
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
15 3 0.07
16 20 0.47
17 17 0.40
18 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAAAAATATTTTAT
Found at i:63468033 original size:24 final size:24
Alignment explanation
Indices: 63467987--63468032 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
63467977 CATGAAAGAT
63467987 TTAAAATAATAATACATATAAAAC
1 TTAAAATAATAATACATATAAAAC
*
63468011 TTAAAATAATAATA-AGATAAAA
1 TTAAAATAATAATACATATAAAA
63468033 ATATTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (24 bp):
TTAAAATAATAATACATATAAAAC
Found at i:63468309 original size:30 final size:29
Alignment explanation
Indices: 63468266--63468326 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
63468256 GCAGCGTCTT
63468266 TGCGTGAACCAAATTAGAATGAAACATAAAA
1 TGCGTGAACCAAATTAGAATG-AA-ATAAAA
* *
63468297 TGCGTG-ACCAAATTTGACTGAAATAAAA
1 TGCGTGAACCAAATTAGAATGAAATAAAA
63468325 TG
1 TG
63468327 ATCAATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 2 0.07
30 12 0.43
31 6 0.21
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (29 bp):
TGCGTGAACCAAATTAGAATGAAATAAAA
Found at i:63468604 original size:16 final size:16
Alignment explanation
Indices: 63468585--63468633 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
63468575 AGATTATAGT
63468585 TTTATTCCATTACAGC
1 TTTATTCCATTACAGC
*
63468601 TTTATTCAATTACATAGC
1 TTTATTCCATTAC--AGC
* *
63468619 TCTATTTCATTACAG
1 TTTATTCCATTACAG
63468634 TAAATCAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTATTCCATTACAGC
Found at i:63473383 original size:72 final size:72
Alignment explanation
Indices: 63473282--63473502 Score: 320
Period size: 72 Copynumber: 3.1 Consensus size: 72
63473272 GAATTGACAA
* *
63473282 TGGAATTTGTCCATTCAATTGGTTCTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
63473347 ATGATCT
66 ATGATCT
63473354 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
63473419 ATGATCT
66 ATGATCT
* * * * * *
63473426 TGGAATTTGTCCACTCAACTGG--TTCCCGGATAAGTCTAAATGAGTGAGTTGCAAGAGATTCCC
1 TGGAATTTGTCCACTCAATTGGTTTTGCC--ACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCC
* *
63473489 CAGTGATTT
64 CAATGATCT
63473498 TGGAA
1 TGGAA
63473503 CCGGTCCTGA
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
70 4 0.03
72 133 0.97
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63475828 original size:21 final size:21
Alignment explanation
Indices: 63475787--63475829 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
63475777 AATAATGTAG
*
63475787 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
63475808 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
63475829 A
1 A
63475830 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:63475921 original size:21 final size:20
Alignment explanation
Indices: 63475882--63475924 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
63475872 TATTTAATAA
* *
63475882 TTATTATTTTGTTACATTAT
1 TTATTATTTTATTAAATTAT
63475902 TTATTATTTTTATTAAATTAT
1 TTATTA-TTTTATTAAATTAT
63475923 TT
1 TT
63475925 TTAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTATTTTATTAAATTAT
Found at i:63476909 original size:22 final size:22
Alignment explanation
Indices: 63476878--63476932 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
63476868 GGAGTTTTGG
*
63476878 GTATCGCGATACCTTATAACCA
1 GTATCACGATACCTTATAACCA
63476900 GTATCACGATACCTTATAACCA
1 GTATCACGATACCTTATAACCA
63476922 GTATCACGATA
1 GTATCACGATA
63476933 ACACTATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (22 bp):
GTATCACGATACCTTATAACCA
Found at i:63477404 original size:3 final size:3
Alignment explanation
Indices: 63477396--63477422 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63477386 TGTTAATCTT
63477396 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
63477423 ACACCACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63482676 original size:72 final size:72
Alignment explanation
Indices: 63482600--63482814 Score: 317
Period size: 72 Copynumber: 3.0 Consensus size: 72
63482590 GGTTTAGAAT
* * *
63482600 TGACAATGGAATTTGTCCACTCAGTTGGTTCTGCGAGAAGTCTAAA-GAAGTGAGTTGCAGGAGG
1 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACG-AGTGAGTTGCAAGAGG
63482664 TTCCCCAA
65 TTCCCCAA
* *
63482672 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTGTAAATGAGTGAGTTGCAAGAGGT
1 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGGT
*
63482737 TTCCCAA
66 TCCCCAA
* **
63482744 TGATC-TTGGAATTTGTCCACTCAATTGGTTCCACGACAAGTCTAAACGAGTGAGTTGCAAGAGG
1 TGA-CAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGG
63482808 TTCCCCA
65 TTCCCCA
63482815 GTGATTTTGG
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
72 128 0.98
73 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (72 bp):
TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGGT
TCCCCAA
Found at i:63485145 original size:51 final size:50
Alignment explanation
Indices: 63485022--63485314 Score: 280
Period size: 57 Copynumber: 5.4 Consensus size: 50
63485012 TACAGATTTA
63485022 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACGAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACT------AAG
* *
63485078 ACTATCAATTGTCTATTGACTATACTTTTAACTCTACAAACAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATAC-TTTAACTCCACAAAAAAAGACTAAG
* * *
63485129 ACTATCACTTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTTAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTC--C-ACAAAA-A---AAGACTAAG
* * *
63485186 ACTATCCATTGCCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATAC-TTTAACTCCACAAAAAAAGACTAAG
* * * *
63485237 ACCATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACCAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTC--C--ACAAAA-A--AAGACTAAG
63485294 ACTATCAATTGTCTATTGACT
1 ACTATCAATTGTCTATTGACT
63485315 TCACACTTGC
Statistics
Matches: 199, Mismatches: 22, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
50 16 0.08
51 55 0.28
52 1 0.01
53 4 0.02
54 6 0.03
55 5 0.03
56 26 0.13
57 78 0.39
58 8 0.04
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (50 bp):
ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAG
Found at i:63485181 original size:57 final size:56
Alignment explanation
Indices: 63485022--63485314 Score: 349
Period size: 51 Copynumber: 5.4 Consensus size: 56
63485012 TACAGATTTA
*
63485022 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACGAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACTAAG
* *
63485078 ACTATCAATTGTCTATTGACTATACTTTTAACTCTAC-----AA-ACAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATAC-TTTAACTCCACAAAAAAAGACTAAGACTAAG
* * *
63485129 ACTATCACTTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTTAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGAC-TAAGACTAAG
* * *
63485186 ACTATCCATTGCCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAGAC----
1 ACTATCAATTGTCTATTGACTATAC-TTTAACTCCACAAAAAAAGACTAAGACTAAG
* * * *
63485239 -C-ATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACCAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCAC-AAAAAAAGACTAAGACTAAG
63485294 ACTATCAATTGTCTATTGACT
1 ACTATCAATTGTCTATTGACT
63485315 TCACACTTGC
Statistics
Matches: 200, Mismatches: 21, Indels: 31
0.79 0.08 0.12
Matches are distributed among these distances:
50 20 0.10
51 65 0.32
52 3 0.01
55 2 0.01
56 28 0.14
57 63 0.31
58 19 0.09
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (56 bp):
ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACTAAG
Found at i:63485225 original size:108 final size:107
Alignment explanation
Indices: 63485022--63485314 Score: 478
Period size: 108 Copynumber: 2.7 Consensus size: 107
63485012 TACAGATTTA
* * *
63485022 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACGAAGACTATCAAT
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTAAGACTAAGACTATCAAT
*
63485087 TGTCTATTGACTATACTTTTAACTCTACAAACAAAGACTAAG
66 TGTCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
* *
63485129 ACTATCACTTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTTAAGACTAAGACTATCCA
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGAC-TAAGACTAAGACTATCAA
*
63485194 TTGCCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
65 TTGTCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
* * *
63485237 ACCATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACCAAGACTAAGACTATCAA
1 ACTATCAATTGTCTATTGACTACACTTTAACTCGAC-AAAAAAAGACTAAGACTAAGACTATCAA
63485302 TTGTCTATTGACT
65 TTGTCTATTGACT
63485315 TCACACTTGC
Statistics
Matches: 172, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
107 43 0.25
108 119 0.69
109 10 0.06
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (107 bp):
ACTATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTAAGACTAAGACTATCAAT
TGTCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
Found at i:63491450 original size:21 final size:21
Alignment explanation
Indices: 63491424--63491464 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63491414 ATCTGCTCAA
* *
63491424 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
63491445 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
63491465 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:63497555 original size:51 final size:54
Alignment explanation
Indices: 63497467--63497586 Score: 158
Period size: 56 Copynumber: 2.2 Consensus size: 54
63497457 TTTTTAACTG
* *
63497467 TCAATTGTCTATTGACTATACTTTTAACTCCAC-AAAA-A-AAGACTAAGACTA
1 TCAATTGTCTATTCACTACACTTTTAACTCCACAAAAAGACAAGACTAAGACTA
*
63497518 TCAATTGTCTATTCACTACAC-TTTAACTCGACAAAAAAAGACTAAGACTAAGACTA
1 TCAATTGTCTATTCACTACACTTTTAACTC--CACAAAAAGAC-AAGACTAAGACTA
63497574 TCAATTGTCTATT
1 TCAATTGTCTATT
63497587 GACTTCACAC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
50 8 0.13
51 19 0.32
52 2 0.03
53 4 0.07
54 1 0.02
56 26 0.43
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
TCAATTGTCTATTCACTACACTTTTAACTCCACAAAAAGACAAGACTAAGACTA
Found at i:63497563 original size:50 final size:51
Alignment explanation
Indices: 63497467--63497567 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 51
63497457 TTTTTAACTG
* *
63497467 TCAATTGTCTATTGACTATACTTTTAACTCCACAAAAAAAGACTAAGACTA
1 TCAATTGTCTATTCACTACACTTTTAACTCCACAAAAAAAGACTAAGACTA
*
63497518 TCAATTGTCTATTCACTACAC-TTTAACTCGACAAAAAAAGACTAAGACTA
1 TCAATTGTCTATTCACTACACTTTTAACTCCACAAAAAAAGACTAAGACTA
63497568 AGACTATCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 28 0.60
51 19 0.40
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (51 bp):
TCAATTGTCTATTCACTACACTTTTAACTCCACAAAAAAAGACTAAGACTA
Found at i:63504505 original size:18 final size:20
Alignment explanation
Indices: 63504484--63504520 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
63504474 TATTTATTTT
63504484 TATTT-ATTTCTA-AACCCA
1 TATTTCATTTCTACAACCCA
*
63504502 TATTTCTTTTCTACAACCC
1 TATTTCATTTCTACAACCC
63504521 CAATTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 6 0.38
20 5 0.31
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTTCATTTCTACAACCCA
Found at i:63505220 original size:43 final size:43
Alignment explanation
Indices: 63505168--63505410 Score: 281
Period size: 43 Copynumber: 5.7 Consensus size: 43
63505158 TTTGGAAAAG
* *
63505168 CGCCGCTAAAGACCACGATCTTTAGCGGCACTTTTTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
63505211 CGCCTCTAAAGACCACGATCTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* * * ** *
63505254 CGCCGCTAAAGACCACAACCTTCAGCGGCACTTTCCCCACAAG
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* * * ** **
63505297 CGCCGCTAAAGACCACTACCTTCAGCGACGCTTTCCCCACAGG
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* * *
63505340 CGCCGCTAAAGATCACTACCTTTAGCGGCGCTTTTTTCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
63505383 CGCCGCTAAAGAACA-AACCTTTAGCGGC
1 CGCCGCTAAAGACCACGACCTTTAGCGGC
63505411 CATTCTAGCA
Statistics
Matches: 176, Mismatches: 24, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
42 12 0.07
43 164 0.93
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
Found at i:63505426 original size:42 final size:43
Alignment explanation
Indices: 63505163--63505447 Score: 139
Period size: 43 Copynumber: 6.7 Consensus size: 43
63505153 GCGTTTTTGG
* * * * * * **
63505163 AAAAGCGCCGCTAAAGACCACGATCTTTAGCGGCACTTTTTCC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGC
* * * * * * **
63505206 ACAAACGCCTCTAAAGACCACGATCTTTAGCGGCGCTTTTTCC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGC
* * * * **
63505249 ACAAACGCCGCTAAAGACCACAACCTTCAGCGGCACTT-TCCCC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCT-AGC
* * * * * * **
63505292 ACAAGCGCCGCTAAAGACCACTACCTTCAGCGACGCTT-TCCCC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCT-AGC
* ** * * * **
63505335 ACAGGCGCCGCTAAAGATCACTACCTTTAGCGGCGCTTTTTTC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGC
*
63505378 ACAAACGCCGCTAAAGAACA-AACCTTTAGCGGC-CATTCTAGC
1 AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGC-TTCTAGC
* *
63505420 AAAAACGCCACTAAA-AACATAACCTTTA
1 AAAAACGCCGCTAAAGAACACAACCTTTA
63505448 AAAAAAATTA
Statistics
Matches: 209, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
41 5 0.02
42 38 0.18
43 165 0.79
44 1 0.00
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTCTAGC
Found at i:63507837 original size:3 final size:3
Alignment explanation
Indices: 63507829--63507870 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
63507819 CTCAGCACCC
63507829 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63507871 ATTTCTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:63509554 original size:27 final size:27
Alignment explanation
Indices: 63509522--63509575 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
63509512 CATTCTTTTC
63509522 TCTTGTTTACATTCCCTTAATTAATTT
1 TCTTGTTTACATTCCCTTAATTAATTT
63509549 TCTTGTTTACATTCCCTTAATTAATTT
1 TCTTGTTTACATTCCCTTAATTAATTT
63509576 CAACATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.04, T:0.56
Consensus pattern (27 bp):
TCTTGTTTACATTCCCTTAATTAATTT
Found at i:63509835 original size:30 final size:30
Alignment explanation
Indices: 63509801--63509868 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
63509791 ACCAAAAAAA
63509801 GCCGATTTTTTTAAAAATTTACCGAAATGG
1 GCCGATTTTTTTAAAAATTTACCGAAATGG
* ** *
63509831 GCCGA-CTTTTTAATTATTTACCGGAATGG
1 GCCGATTTTTTTAAAAATTTACCGAAATGG
63509860 GCC-ATTTTT
1 GCCGATTTTT
63509869 CGCGAAATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.81
30 5 0.16
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (30 bp):
GCCGATTTTTTTAAAAATTTACCGAAATGG
Found at i:63510741 original size:40 final size:39
Alignment explanation
Indices: 63510669--63510747 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
63510659 ACTGTTCATG
* * *
63510669 CCACGTCAGCAAATCGCGTCCTAGAGGGCGCGATTTCCTT
1 CCACGTCAGCAAATCGCG-CCTACAGGACGCGATGTCCTT
63510709 CCACGTCAGCAAATCGCG-CTGACATGGACGCGATGTCCT
1 CCACGTCAGCAAATCGCGCCT-ACA-GGACGCGATGTCCT
63510748 GACACGTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.06
39 2 0.06
40 30 0.88
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (39 bp):
CCACGTCAGCAAATCGCGCCTACAGGACGCGATGTCCTT
Found at i:63511418 original size:14 final size:13
Alignment explanation
Indices: 63511378--63511422 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
63511368 AACCCTGAAT
63511378 CCTAACCCTAA-C
1 CCTAACCCTAACC
*
63511390 CCGAATCCCTAACC
1 CCTAA-CCCTAACC
63511404 CCTAACCCTTAACC
1 CCTAACCC-TAACC
63511418 CCTAA
1 CCTAA
63511423 ATCACAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 4 0.14
13 9 0.32
14 15 0.54
ACGTcount: A:0.31, C:0.49, G:0.02, T:0.18
Consensus pattern (13 bp):
CCTAACCCTAACC
Found at i:63511826 original size:19 final size:20
Alignment explanation
Indices: 63511800--63511845 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
63511790 ATAGAATTTT
63511800 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
63511818 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
63511838 AATAAAAT
1 AATTAAAT
63511846 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:63511909 original size:41 final size:41
Alignment explanation
Indices: 63511852--63512248 Score: 550
Period size: 41 Copynumber: 9.7 Consensus size: 41
63511842 AAATGTTTTT
*
63511852 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACTAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
* * *
63511893 GCGGCGCTTTTCCAAAAACGCCACTAAAGACCT-GAACATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGA-CTAGAGCATTA
* * *
63511934 GCGGCGCTTC-CCAGAAACACCGCTAAAGACTAGAGCATTC
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
*
63511974 GCGGCGCTTCTCCAGAAAACACCGCTAAAGACTAGAGCATTA
1 GCGGCGCTTCTCCA-AAAACGCCGCTAAAGACTAGAGCATTA
63512016 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCT-GAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGA-CTAGAGCATTA
* *
63512057 GCGGCGCTTCTCCAAAAACACCGCTAAAGACTTGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
* *
63512098 GCGGCGCTTCT-CAGAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
**
63512138 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
**
63512179 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
* * ** *
63512220 GCAGCGCTTTTATAAAAACGCCCCTAAAG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAG
63512249 CCCCGAAAGG
Statistics
Matches: 326, Mismatches: 23, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 70 0.21
41 211 0.65
42 43 0.13
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGACTAGAGCATTA
Found at i:63512160 original size:122 final size:123
Alignment explanation
Indices: 63511852--63512228 Score: 596
Period size: 122 Copynumber: 3.1 Consensus size: 123
63511842 AAATGTTTTT
* * * *
63511852 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTTTCCAAAAACGCCAC
1 GCGGCGCTTCTCCAGAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCTCCAAAAACGCCGC
* * *
63511917 TAAAGACCTGAACATTAGCGGCGCTTC-CCAGAAACACCGCTAAAGACTAGAGCATTC
66 TAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACACCGCTAAAGACTAGAGCATTA
*
63511974 GCGGCGCTTCTCCAGAAAACACCGCTAAAGACTAGAGCATTAGCGGCGCTTCTCCAAAAACGCCG
1 GCGGCGCTTCTCCAG-AAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCTCCAAAAACGCCG
*
63512039 CTAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACACCGCTAAAGACTTGAGCATTA
65 CTAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACACCGCTAAAGACTAGAGCATTA
*
63512098 GCGGCGCTTCT-CAGAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTCCAAAAACGCCGC
1 GCGGCGCTTCTCCAGAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCTCCAAAAACGCCGC
* * **
63512162 TAAAGACCCGAGCATTAGCGGCGCTTCTCCAAAAACGCCGCTAAAGACCCGAGCATTA
66 TAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACACCGCTAAAGACTAGAGCATTA
*
63512220 GCAGCGCTT
1 GCGGCGCTT
63512229 TTATAAAAAC
Statistics
Matches: 237, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 123 0.52
123 76 0.32
124 38 0.16
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.17
Consensus pattern (123 bp):
GCGGCGCTTCTCCAGAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCTCCAAAAACGCCGC
TAAAGACCTGAGCATTAGCGGCGCTTCTCCAAAAACACCGCTAAAGACTAGAGCATTA
Found at i:63516223 original size:93 final size:93
Alignment explanation
Indices: 63516100--63516280 Score: 308
Period size: 93 Copynumber: 1.9 Consensus size: 93
63516090 TTCTGCGACA
63516100 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATCGGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATCGGTCCACTCAATTGGTTC
63516165 TGCGACAAGTCTAAATGAGTGAGCTGGC
66 TGCGACAAGTCTAAATGAGTGAGCTGGC
* * * ** *
63516193 AGTCTAAATGAGTGAGTTGCGAGAGTTTCCCCAATGATCTTGGAATTTGTCCTCTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATCGGTCCACTCAATTGGTTC
63516258 TGCGACAAGTCTAAATGAGTGAG
66 TGCGACAAGTCTAAATGAGTGAG
63516281 TTGCAAGAGT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (93 bp):
AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATCGGTCCACTCAATTGGTTC
TGCGACAAGTCTAAATGAGTGAGCTGGC
Found at i:63516310 original size:72 final size:72
Alignment explanation
Indices: 63516193--63516453 Score: 434
Period size: 72 Copynumber: 3.6 Consensus size: 72
63516183 GTGAGCTGGC
* *
63516193 AGTCTAAATGAGTGAGTTGCGAGAGTTTCCCCAATGATCTTGGAATTTGTCCTCTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
63516258 TGCGACA
66 TGCGACA
63516265 AGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
63516330 TGCGACA
66 TGCGACA
* *
63516337 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCCTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
63516402 TGCGACA
66 TGCGACA
** * *
63516409 AGTCTAAGCGAGTGAGTTGCAAAAGGTTT-CCCAGTGATCTTGGAA
1 AGTCTAAATGAGTGAGTTGCAAGA-GTTTCCCCAATGATCTTGGAA
63516454 CCGGTCCTAA
Statistics
Matches: 178, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
72 175 0.98
73 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (72 bp):
AGTCTAAATGAGTGAGTTGCAAGAGTTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
TGCGACA
Found at i:63523283 original size:48 final size:48
Alignment explanation
Indices: 63523212--63523316 Score: 192
Period size: 48 Copynumber: 2.2 Consensus size: 48
63523202 AGTGGAGTTA
63523212 GGTATATGTTTACGAAACATTTTCTTATTTTTGACCAGCTGATTGCTT
1 GGTATATGTTTACGAAACATTTTCTTATTTTTGACCAGCTGATTGCTT
* *
63523260 GGTATATGTTTAGGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
1 GGTATATGTTTACGAAACATTTTCTTATTTTTGACCAGCTGATTGCTT
63523308 GGTATATGT
1 GGTATATGT
63523317 AATGGCATTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (48 bp):
GGTATATGTTTACGAAACATTTTCTTATTTTTGACCAGCTGATTGCTT
Found at i:63525173 original size:51 final size:51
Alignment explanation
Indices: 63525094--63525247 Score: 290
Period size: 51 Copynumber: 3.0 Consensus size: 51
63525084 TTTAAGTAAG
* *
63525094 TCAAAGAGCCATTCCCCACCTCTCGCATCCACTGTCGAATCTTGCCTTCAA
1 TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
63525145 TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
1 TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
63525196 TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
1 TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
63525247 T
1 T
63525248 TTTGTTGCAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.23, C:0.36, G:0.13, T:0.27
Consensus pattern (51 bp):
TCAAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAA
Found at i:63526028 original size:72 final size:71
Alignment explanation
Indices: 63525737--63526029 Score: 435
Period size: 72 Copynumber: 4.1 Consensus size: 71
63525727 GAATTGACAA
* * * *
63525737 TGGAATTTGTCCACTCAATTTGTTCCATCC-CAAGTCTAAATCAGTGAGTTGCCAGAGGTTCCCT
1 TGGAATTTGTCCACTCAATTGGTT-C-TCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
63525801 AATGATCT
64 AATGATCT
*
63525809 AGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCT-CCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
**
63525874 ACAATCT
65 ATGATCT
* *
63525881 TGGAATTTGTCCACTCAATTGGTTCTTCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCTCCA
1 TGGAATTTGTCCACTCAATTGGTTC-TCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63525946 ATGATTT
65 ATGATCT
63525953 TGGAATTTGTCCACTCAATTGGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCC-ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63526018 GTGATCT
65 ATGATCT
63526025 TGGAA
1 TGGAA
63526030 CCGGTCCTGA
Statistics
Matches: 200, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
70 1 0.00
71 5 0.03
72 193 0.96
73 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (71 bp):
TGGAATTTGTCCACTCAATTGGTTCTCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAA
TGATCT
Found at i:63526213 original size:33 final size:33
Alignment explanation
Indices: 63526176--63526253 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
63526166 CAAAGGATCA
63526176 AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
1 AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
63526209 AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
1 AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
63526242 AGATTGAGGTTT
1 AGATTGAGGTTT
63526254 GGCAAATCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.35
Consensus pattern (33 bp):
AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
Found at i:63527271 original size:13 final size:13
Alignment explanation
Indices: 63527253--63527278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63527243 TATACTTATT
63527253 TATATATATATAA
1 TATATATATATAA
63527266 TATATATATATAA
1 TATATATATATAA
63527279 CCTCATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATATATATAA
Found at i:63528171 original size:50 final size:51
Alignment explanation
Indices: 63528113--63528217 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
63528103 TACAAATTTA
*
63528113 ACTATCAATTGTCTATTGACTACACTT-TAACTCGACAAAAAAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTCTAACTCCACAAAAAAAGACTAAG
* *
63528163 ACTATCAATTGTCTATTGACTATACTTCTAACTCCACAAGAAAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTCTAACTCCACAAAAAAAGACTAAG
63528214 ACTA
1 ACTA
63528218 AGACTATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 26 0.51
51 25 0.49
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (51 bp):
ACTATCAATTGTCTATTGACTACACTTCTAACTCCACAAAAAAAGACTAAG
Found at i:63528243 original size:18 final size:18
Alignment explanation
Indices: 63528219--63528640 Score: 290
Period size: 18 Copynumber: 24.3 Consensus size: 18
63528209 CTAAGACTAA
63528219 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
* *
63528237 CACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
*
63528254 GACTATGAATTGTCTATT
1 GACTATCAATTGTCTATT
63528272 GACTATCAATTGTCTATTT
1 GACTATCAATTGTCTA-TT
*
63528291 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
* *
63528308 CACTATCATTTGTCTATT
1 GACTATCAATTGTCTATT
63528326 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
** *
63528344 GACTAT-ACATTAAC--TC
1 GACTATCA-ATTGTCTATT
** ** * *
63528360 GAC-AAAAAAAGACTA-A
1 GACTATCAATTGTCTATT
*
63528376 GACTATCAGTTGTCTATT
1 GACTATCAATTGTCTATT
*
63528394 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
*
63528411 GACTATCAATTGTCTTTT
1 GACTATCAATTGTCTATT
** *
63528429 GACTAT-ACATTAAC--TC
1 GACTATCA-ATTGTCTATT
** ** * *
63528445 GAC-AAAAAAAGACTA-A
1 GACTATCAATTGTCTATT
*
63528461 GACTATCAGTTGTCTATT
1 GACTATCAATTGTCTATT
*
63528479 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
63528496 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
*
63528514 GACTATCGATTGTCTATT
1 GACTATCAATTGTCTATT
** *
63528532 GACTAT-ACATTAAC--TC
1 GACTATCA-ATTGTCTATT
* ** * *
63528548 GAC-ATTAAAAGACTA-A
1 GACTATCAATTGTCTATT
* *
63528564 GCCTATCAGTTGTCTATT
1 GACTATCAATTGTCTATT
* *
63528582 GACTATCAGTTGTCTA-A
1 GACTATCAATTGTCTATT
63528599 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
63528617 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
63528635 GACTAT
1 GACTAT
63528641 ACATTAACTC
Statistics
Matches: 311, Mismatches: 69, Indels: 48
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.04
16 23 0.07
17 95 0.31
18 162 0.52
19 18 0.06
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (18 bp):
GACTATCAATTGTCTATT
Found at i:63528397 original size:50 final size:51
Alignment explanation
Indices: 63528113--63528399 Score: 179
Period size: 54 Copynumber: 5.5 Consensus size: 51
63528103 TACAAATTTA
* *
63528113 ACTATCAATTGTCTATTGACTACACTTTAACTCGAC-AAAAAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAAGACTAAG
* *
63528163 ACTATCAATTGTCTATTGACTATACTTCTAACTCCACAAGAAAAGACTAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACAT-TAACTCGAC-A-AAAA-A--AAGACTAAG
* ** * * ** ** * *
63528220 ACTATCAATTGTCTATTCACTAT-CAATTGTCTAAGACTATGAATTGTCTATTG
1 ACTATCAATTGTCTATTGACTATAC-ATTAACT-CGACAAAAAAAAGACTA-AG
** * ** *** * *
63528273 ACTATCAATTGTCTATTTGACTAT-CAATTGTCTAAC-ACTATCATTTGTCTATTG
1 ACTATCAATTGTCTA-TTGACTATAC-ATTAACT--CGACAAAAAAAAGACTA-AG
63528327 ACTATCAATTGTCTATTGACTATACATTAACTCGAC-AAAAAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAAGACTAAG
*
63528377 ACTATCAGTTGTCTATTGACTAT
1 ACTATCAATTGTCTATTGACTAT
63528400 CAATTGTCTA
Statistics
Matches: 194, Mismatches: 29, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
50 49 0.25
51 15 0.08
52 6 0.03
53 29 0.15
54 53 0.27
55 4 0.02
56 4 0.02
57 34 0.18
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (51 bp):
ACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAAGACTAAG
Found at i:63528415 original size:85 final size:85
Alignment explanation
Indices: 63528291--63528519 Score: 388
Period size: 85 Copynumber: 2.7 Consensus size: 85
63528281 TTGTCTATTT
* ** * *
63528291 GACTATCAATTGTCTA-ACACTATCATTTGTCTATTGACTATCAATTGTCTATTGACTATACATT
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTA-AGACTATCAATTGTCTATTGACTATACATT
63528355 AACTCGACAAAAAAAGACTAA
65 AACTCGACAAAAAAAGACTAA
*
63528376 GACTATCAGTTGTCTATTGACTATCAATTGTCTAAGACTATCAATTGTCTTTTGACTATACATTA
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTAAGACTATCAATTGTCTATTGACTATACATTA
63528441 ACTCGACAAAAAAAGACTAA
66 ACTCGACAAAAAAAGACTAA
63528461 GACTATCAGTTGTCTATTGACTATCAATTGTCTAAGACTATCAATTGTCTATTGACTAT
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTAAGACTATCAATTGTCTATTGACTAT
63528520 CGATTGTCTA
Statistics
Matches: 136, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
85 122 0.90
86 14 0.10
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (85 bp):
GACTATCAGTTGTCTATTGACTATCAATTGTCTAAGACTATCAATTGTCTATTGACTATACATTA
ACTCGACAAAAAAAGACTAA
Found at i:63528465 original size:50 final size:50
Alignment explanation
Indices: 63528407--63528743 Score: 291
Period size: 50 Copynumber: 6.5 Consensus size: 50
63528397 TATCAATTGT
*
63528407 CTAAGACTATCAATTGTCTTTTGACTATACATTAACTCGACAAAAAAAGA
1 CTAAGACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAGA
* ** * ** ** *
63528457 CTAAGACTATCAGTTGTCTATTGACTAT-CAATTGTCTAAGACTATCAATTGT
1 CTAAGACTATCAATTGTCTATTGACTATAC-ATTAACT-CGAC-AAAAAAAGA
* * **
63528509 CTATTGACTATCGATTGTCTATTGACTATACATTAACTCGACATTAAAAGA
1 CTA-AGACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAGA
* * ** * ** ** *
63528560 CTAAGCCTATCAGTTGTCTATTGACTAT-CAGTTGTCTAAGACTATCAATTGT
1 CTAAGACTATCAATTGTCTATTGACTATACA-TTAACT-CGAC-AAAAAAAGA
*
63528612 CTATTGACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAGA
1 CTA-AGACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAGA
* * *
63528663 CTAAGACTATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAGACTAAGA
1 CTAAGACTATCAATTGTCTATTGACTATACATTAACTCGAC--AAAA-A--AAGA
63528718 CTAAGACTATCAATTGTCTATTGACT
1 CTAAGACTATCAATTGTCTATTGACT
63528744 TCACACTTGC
Statistics
Matches: 225, Mismatches: 47, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
49 3 0.01
50 90 0.40
51 21 0.09
52 25 0.11
53 54 0.24
54 3 0.01
55 29 0.13
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (50 bp):
CTAAGACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAAGA
Found at i:63528483 original size:103 final size:103
Alignment explanation
Indices: 63528376--63528689 Score: 540
Period size: 103 Copynumber: 3.0 Consensus size: 103
63528366 AAAAGACTAA
* * *
63528376 GACTATCAGTTGTCTATTGACTATCAATTGTCTA-AGACTATCAATTGTCTTTTGACTATACATT
1 GACTATCAGTTGTCTA-AGACTATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATT
63528440 AACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
65 AACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
* *
63528479 GACTATCAATTGTCTAAGACTATCAATTGTCTATTGACTATCGATTGTCTATTGACTATACATTA
1 GACTATCAGTTGTCTAAGACTATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATTA
** *
63528544 ACTCGACATTAAAAGACTAAGCCTATCAGTTGTCTATT
66 ACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
63528582 GACTATCAGTTGTCTAAGACTATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATTA
1 GACTATCAGTTGTCTAAGACTATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATTA
63528647 ACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
66 ACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
63528685 GACTA
1 GACTA
63528690 CACTTTAACT
Statistics
Matches: 197, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 16 0.08
103 181 0.92
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (103 bp):
GACTATCAGTTGTCTAAGACTATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATTA
ACTCGACAAAAAAAGACTAAGACTATCAGTTGTCTATT
Found at i:63530272 original size:16 final size:16
Alignment explanation
Indices: 63530251--63530282 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63530241 TATTTGGTAT
63530251 ATACAATTTGAGTTAA
1 ATACAATTTGAGTTAA
63530267 ATACAATTTGAGTTAA
1 ATACAATTTGAGTTAA
63530283 GTGATAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
ATACAATTTGAGTTAA
Found at i:63542441 original size:27 final size:27
Alignment explanation
Indices: 63542381--63542435 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
63542371 GTGCCCTTGT
63542381 AAATATGACTGTTAAATTTGTTGATAG
1 AAATATGACTGTTAAATTTGTTGATAG
63542408 AAATATGACTGTTAAATTTGTTGATAG
1 AAATATGACTGTTAAATTTGTTGATAG
63542435 A
1 A
63542436 TGTATGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (27 bp):
AAATATGACTGTTAAATTTGTTGATAG
Found at i:63545977 original size:21 final size:21
Alignment explanation
Indices: 63545951--63545991 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63545941 AGACGAGCAA
* *
63545951 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63545972 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63545992 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:63560788 original size:72 final size:72
Alignment explanation
Indices: 63560688--63560836 Score: 237
Period size: 72 Copynumber: 2.1 Consensus size: 72
63560678 GTATTGACGA
* * *
63560688 TGGAATTTGTCCACTCAATTGGCTCTGCGAGCAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCTA
1 TGGAATTTCTCCACTCAATTGGCTCTGCGAGAAATCTAAATGAGTGAGTTGCAAGAGGTTCCC-A
63560753 A-TGAACT
65 AGTGAACT
*
63560760 TGGAATTTCTCCACTCAATTGGTTCTGCGAGAAATCTAAATGAGTGAGTTGCAAGAGGTTCCCAA
1 TGGAATTTCTCCACTCAATTGGCTCTGCGAGAAATCTAAATGAGTGAGTTGCAAGAGGTTCCCAA
*
63560825 GTGATCT
66 GTGAACT
63560832 TGGAA
1 TGGAA
63560837 CTGGTCCTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 69 0.97
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (72 bp):
TGGAATTTCTCCACTCAATTGGCTCTGCGAGAAATCTAAATGAGTGAGTTGCAAGAGGTTCCCAA
GTGAACT
Found at i:63569287 original size:71 final size:72
Alignment explanation
Indices: 63569171--63569340 Score: 279
Period size: 71 Copynumber: 2.4 Consensus size: 72
63569161 TAGTTGGAAT
*
63569171 ACAACTAAGTTTCATTATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTT-
1 ACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTA
63569235 TTCCAAC
66 TTCCAAC
63569242 ACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTA
1 ACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTA
** *
63569307 GTTGGAAT
66 -TTCCAAC
*
63569315 ACAACTAAGTTACATCATTACATCCA
1 ACAACTAAGTTTCATCATTACATCCA
63569341 AATAATAATA
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
71 63 0.68
73 29 0.32
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.28
Consensus pattern (72 bp):
ACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTA
TTCCAAC
Found at i:63569348 original size:71 final size:71
Alignment explanation
Indices: 63569157--63569348 Score: 273
Period size: 71 Copynumber: 2.7 Consensus size: 71
63569147 ACAACTTGAC
*
63569157 AACTTAGTTGGAATACAACTAAGTTTCATTATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA--TAAAATAAATCACCACCTACTAC
63569222 CACTAACA
64 CACTAACA
** *
63569230 AACTT--TTCCAACACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA--TAAAATAAATCACCACCTACTAC
63569293 CACTAACA
64 CACTAACA
*
63569301 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA-AATAATAA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCATAA-AATAA
63569349 TAATAATAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
70 2 0.02
71 72 0.67
73 34 0.31
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (71 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCATAAAATAAATCACCACCTACTACCA
CTAACA
Found at i:63569349 original size:3 final size:3
Alignment explanation
Indices: 63569341--63569375 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
63569331 ATTACATCCA
63569341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63569376 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63569776 original size:102 final size:102
Alignment explanation
Indices: 63569645--63569850 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
63569635 AGATTGGTTG
63569645 TCACAGAAGATCTCAGTAGCTTCCTTTTGATGCACTTTCAAATCAGCTAAGATTTTCCTTAGCCA
1 TCACAGAAGATCTCAGTAGCTTCCTTTTGATGCACTTTCAAATCAGCTAAGATTTTCCTTAGCCA
63569710 AATGGCTTGGTTGACAGCACTTGCAGCTGCCACATAT
66 AATGGCTTGGTTGACAGCACTTGCAGCTGCCACATAT
63569747 TCACAGAAGATCTCAGTAGCTTCCTTTTGATGCACTTTCAAATCAGCTAAGATTTTCCTTAGCCA
1 TCACAGAAGATCTCAGTAGCTTCCTTTTGATGCACTTTCAAATCAGCTAAGATTTTCCTTAGCCA
63569812 AATGGCTTGGTTGACAGCACTTGCAGCTGCCACATAT
66 AATGGCTTGGTTGACAGCACTTGCAGCTGCCACATAT
63569849 TC
1 TC
63569851 TGCTTCAGCA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (102 bp):
TCACAGAAGATCTCAGTAGCTTCCTTTTGATGCACTTTCAAATCAGCTAAGATTTTCCTTAGCCA
AATGGCTTGGTTGACAGCACTTGCAGCTGCCACATAT
Found at i:63573737 original size:73 final size:72
Alignment explanation
Indices: 63573651--63573836 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 72
63573641 ACAACTTGAC
63573651 AACTTAGTTGGAATACAACTAAGATTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAG-TTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
63573716 CACTAACA
65 CACTAACA
63573724 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAG-TTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
63573789 CACTAACA
65 CACTAACA
63573797 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTT-CATCATTACATCCA
63573837 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
72 2 0.02
73 109 0.98
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACC
ACTAACA
Found at i:63573845 original size:3 final size:3
Alignment explanation
Indices: 63573837--63573865 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63573827 ATTACATCCA
63573837 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63573866 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63577208 original size:72 final size:72
Alignment explanation
Indices: 63577132--63577352 Score: 331
Period size: 72 Copynumber: 3.1 Consensus size: 72
63577122 GAATTGACAA
* *
63577132 TGGAATTTGTCCACTCAATTTGTTCCATCCCAATTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63577197 ATGATCT
66 ATGATCT
*
63577204 TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63577269 ATGAACT
66 ATGATCT
*
63577276 TGGAATTTCTCCACTCAATTGGTTCTGCGAT---AAGTCTAAATGAGTGAGTTGCAAGAGGTTCC
1 TGGAATTTGTCCACTCAATTGGTTC--C-ATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCC
**
63577338 TTAATGATCT
63 CCAATGATCT
63577348 TGGAA
1 TGGAA
63577353 CCTGTCCTGA
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
72 134 0.98
74 1 0.01
75 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCCATCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63586260 original size:72 final size:72
Alignment explanation
Indices: 63586159--63586300 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
63586149 TTGAGAATGG
*
63586159 AATTTGTCCACTCAATTTGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAATG
63586224 ATCTTAA
66 ATCTTAA
*
63586231 AATTTGTCCACTCAATTGGTTCCAC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
1 AATTTGTCCACTCAATTGGTTCC-CGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAAT
63586295 GATCTT
65 GATCTT
63586301 GGAACCGTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 66 0.99
73 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (72 bp):
AATTTGTCCACTCAATTGGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAATG
ATCTTAA
Found at i:63600833 original size:18 final size:18
Alignment explanation
Indices: 63600810--63600849 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
63600800 ATGTCATTTT
63600810 CTATTAACTGCAAGAAAA
1 CTATTAACTGCAAGAAAA
*
63600828 CTATTAACTGTAAGAAAA
1 CTATTAACTGCAAGAAAA
63600846 CTAT
1 CTAT
63600850 CTGGTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (18 bp):
CTATTAACTGCAAGAAAA
Found at i:63602525 original size:15 final size:15
Alignment explanation
Indices: 63602505--63602535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63602495 ATTCAAATTT
*
63602505 AATAAAGTTGCTATG
1 AATAAAGTTGATATG
63602520 AATAAAGTTGATATG
1 AATAAAGTTGATATG
63602535 A
1 A
63602536 GTGATGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (15 bp):
AATAAAGTTGATATG
Found at i:63606240 original size:3 final size:3
Alignment explanation
Indices: 63606232--63606318 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
63606222 CTAAATTGCT
63606232 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63606280 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
63606319 ACACCACTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:63608894 original size:72 final size:72
Alignment explanation
Indices: 63608789--63609297 Score: 819
Period size: 72 Copynumber: 7.1 Consensus size: 72
63608779 GAATTGACGA
* * * *
63608789 TGGAATTTGTCCACTCAATTGGTTCTGCAACAAGTCTAACTGAGTGAGTTGCAACAGGTTCCCTA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63608854 ATGATCT
66 ATGATCT
* * * *
63608861 TGGAATTTTTCGACTCAATTGGTTCTCCGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63608926 ATGATCT
66 ATGATCT
* *
63608933 TGGAATTTGTCCACTCAATTGGTTCAGCGACAAG-CGTAAATGAATGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTC-TAAATGAGTGAGTTGCAAGAGGTTCCCC
63608997 AATGATCT
65 AATGATCT
* *
63609005 TGGAATTTGTCCACTCAATTGGTTCTGC-ACCAAGTATAAATGAGTGAGTTGCAAGAGGTTTCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGCGA-CAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
63609069 AATGATCT
65 AATGATCT
63609077 TGGAATTTGTCCACTCAATTGGTTCT-CTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
63609141 AATGATCT
65 AATGATCT
63609149 TGGAATTTGTCCACTCAATTGGTTCT-CTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
63609213 AATGATCT
65 AATGATCT
* *
63609221 TGGAATTTGTCCACTCAATTGGTTCAGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCTA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63609286 GTGATCT
66 ATGATCT
63609293 TGGAA
1 TGGAA
63609298 CCGGTCCTGA
Statistics
Matches: 408, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
71 3 0.01
72 403 0.99
73 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63610505 original size:36 final size:36
Alignment explanation
Indices: 63610465--63610536 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63610455 CTTAAAATTG
63610465 GATGCTTTTCTTTTGGCAAAATCTTGTATTTCATTT
1 GATGCTTTTCTTTTGGCAAAATCTTGTATTTCATTT
63610501 GATGCTTTTCTTTTGGCAAAATCTTGTATTTCATTT
1 GATGCTTTTCTTTTGGCAAAATCTTGTATTTCATTT
63610537 CAACTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (36 bp):
GATGCTTTTCTTTTGGCAAAATCTTGTATTTCATTT
Found at i:63615502 original size:7 final size:7
Alignment explanation
Indices: 63615485--63615545 Score: 52
Period size: 7 Copynumber: 8.3 Consensus size: 7
63615475 AAATAAAATG
63615485 AAACAAAT
1 AAAC-AAT
63615493 AAACAAT
1 AAACAAT
*
63615500 AAATAA-
1 AAACAAT
*
63615506 AATAAAAT
1 AA-ACAAT
63615514 GAAACAAAT
1 -AAAC-AAT
63615523 AAACAAT
1 AAACAAT
63615530 AAACAAT
1 AAACAAT
*
63615537 AAAAAAT
1 AAACAAT
63615544 AA
1 AA
63615546 TCATACGGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
6 2 0.04
7 29 0.64
8 9 0.20
9 5 0.11
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (7 bp):
AAACAAT
Found at i:63615509 original size:30 final size:30
Alignment explanation
Indices: 63615475--63615532 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
63615465 GATGCAATGT
63615475 AAATAAAATGAAACAAATAAACAATAAATA
1 AAATAAAATGAAACAAATAAACAATAAATA
63615505 AAATAAAATGAAACAAATAAACAATAAA
1 AAATAAAATGAAACAAATAAACAATAAA
63615533 CAATAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (30 bp):
AAATAAAATGAAACAAATAAACAATAAATA
Found at i:63615537 original size:14 final size:15
Alignment explanation
Indices: 63615479--63615545 Score: 66
Period size: 14 Copynumber: 4.5 Consensus size: 15
63615469 CAATGTAAAT
63615479 AAAATGAAACAAATAA
1 AAAAT-AAACAAATAA
* * *
63615495 ACAATAAATAAA-AT
1 AAAATAAACAAATAA
63615509 AAAATGAAACAAATAA
1 AAAAT-AAACAAATAA
*
63615525 ACAATAAAC-AATAA
1 AAAATAAACAAATAA
63615539 AAAATAA
1 AAAATAA
63615546 TCATACGGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
14 16 0.39
15 16 0.39
16 9 0.22
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAACAAATAA
Found at i:63615543 original size:30 final size:30
Alignment explanation
Indices: 63615475--63615543 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
63615465 GATGCAATGT
*
63615475 AAATAAAATGAAACAAATAAACAATAAATA
1 AAATAAAATGAAACAAATAAACAATAAACA
63615505 AAATAAAATGAAACAAATAAACAATAAACA
1 AAATAAAATGAAACAAATAAACAATAAACA
63615535 ATAA-AAAAT
1 A-AATAAAAT
63615544 AATCATACGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (30 bp):
AAATAAAATGAAACAAATAAACAATAAACA
Found at i:63616262 original size:3 final size:3
Alignment explanation
Indices: 63616242--63616318 Score: 82
Period size: 3 Copynumber: 25.7 Consensus size: 3
63616232 AAGCTAAAAC
* * * * *
63616242 ATA ACA ATA ATA ACA ATA ATA TTA ATA ATA ATA CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
63616290 AGG ATA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
63616319 GAAAGTAATG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:63617737 original size:100 final size:100
Alignment explanation
Indices: 63617578--63618172 Score: 739
Period size: 100 Copynumber: 6.0 Consensus size: 100
63617568 AATGTCAGAA
* * * * * * * * * *
63617578 AAGCAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGTATCTG-CAGGGAGGTGAGATTTACT
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATC-GCCTGGGAAGTAAGATTCACC
* * * * *
63617642 GTTGTAGCTTCAATCTATTT-GACTGCAAAGTCGGGG
65 GTTGTGGCTTCAATCT-TTTAAATTGCAATGTTGGGG
* * * * *
63617678 AAGGAAGATTCATTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCG
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCG
*
63617743 TTGTGGCATCAATCTTTTAAATTGCAATGTTGGGG
66 TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
* * ** * *
63617778 AAGCAAGATTCGTCGTCCTAGCTTCAATCTGTTTTGTTGCATCGCCTGGAAAGTAAGATTCACCG
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCG
*
63617843 TTGTGGCTTCAATCTTTAAAATTGCAATGTTGGGG
66 TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
**
63617878 AAGCAAGATTCGTCGTCGTAGCTTCAA--TATGTCTCGCTGCATTACCTGGGAAGTAAGATTCAC
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTAT-TC-CGCTGCATCGCCTGGGAAGTAAGATTCAC
63617941 CGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
64 CGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
* * * * *
63617978 AAGCAAGATTCGCCCTCGTAGCTTCAATCTGTTCCGCTACATCGCCTGGGAATTAAGATTCACCG
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCG
* *
63618043 TTGTGGCTTTAATCTTTTAAATTGCAATGTCGGGG
66 TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
** * * * *
63618078 AAGCAAGATTCACCATCGTAGCTTCAATCTATTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCA
1 AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCG
63618143 TTGTGGCTTCAATCTTTTAAATTGCAATGT
66 TTGTGGCTTCAATCTTTTAAATTGCAATGT
63618173 ATAGTTTCTT
Statistics
Matches: 428, Mismatches: 61, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
98 2 0.00
99 5 0.01
100 417 0.97
101 2 0.00
102 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGCAAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCG
TTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGG
Found at i:63617746 original size:50 final size:50
Alignment explanation
Indices: 63617595--63618157 Score: 241
Period size: 50 Copynumber: 11.3 Consensus size: 50
63617585 ATTCGCCATC
* * * * * * * *
63617595 GTAGCTTCAATCTGTTCCACTGTATCTG-CAGGGAGGTGAGATTTACTGTT
1 GTAGCTTCAATCTATTCCGCTGCATC-GCCTGGGAAGTAAGATTCACCGTT
* ** * * * **
63617645 GTAGCTTCAATCTATT-TGACTGCAAAGTCGGGGAAGGAAGATTCATTGTT
1 GTAGCTTCAATCTATTCCG-CTGCATCGCCTGGGAAGTAAGATTCACCGTT
*
63617695 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
* * * **** * * ** *
63617745 GTGGCATCAATCTTTTAAATTGCAAT-G-TTGGGGAAGCAAGATTCGTCGTC
1 GTAGCTTCAATCTATTCCGCTGC-ATCGCCT-GGGAAGTAAGATTCACCGTT
* * ** * *
63617795 CTAGCTTCAATCTGTTTTGTTGCATCGCCTGGAAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
* **** * * ** *
63617845 GTGGCTTCAATCT-TTAAAATTGCAAT-G-TTGGGGAAGCAAGATTCGTCGTC
1 GTAGCTTCAATCTATT-CCGCTGC-ATCGCCT-GGGAAGTAAGATTCACCGTT
**
63617895 GTAGCTTCAA--TATGTCTCGCTGCATTACCTGGGAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTAT-TC-CGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
* * **** * * * * *
63617945 GTGGCTTCAATCTTTTAAATTGCAAT-G-TTGGGGAAGCAAGATTCGCCCTC
1 GTAGCTTCAATCTATTCCGCTGC-ATCGCCT-GGGAAGTAAGATTCACCGTT
* * *
63617995 GTAGCTTCAATCTGTTCCGCTACATCGCCTGGGAATTAAGATTCACCGTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
* * * **** * * * * *
63618045 GTGGCTTTAATCTTTTAAATTGCAAT-GTCGGGGAAGCAAGATTCACCATC
1 GTAGCTTCAATCTATTCCGCTGC-ATCGCCTGGGAAGTAAGATTCACCGTT
* * *
63618095 GTAGCTTCAATCTATTCCGCTGCATCGCCTGAGAAGTAAGATTCGCCATT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
*
63618145 GTGGCTTCAATCT
1 GTAGCTTCAATCT
63618158 TTTAAATTGC
Statistics
Matches: 370, Mismatches: 120, Indels: 46
0.69 0.22 0.09
Matches are distributed among these distances:
48 1 0.00
49 15 0.04
50 339 0.92
51 13 0.04
52 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTT
Found at i:63627514 original size:11 final size:11
Alignment explanation
Indices: 63627498--63627527 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
63627488 TTGAGTATAT
63627498 ATTCTTTTAAG
1 ATTCTTTTAAG
63627509 ATTCTTTTAAG
1 ATTCTTTTAAG
63627520 ATTCTTTT
1 ATTCTTTT
63627528 CATTCTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (11 bp):
ATTCTTTTAAG
Found at i:63631175 original size:100 final size:100
Alignment explanation
Indices: 63631000--63631445 Score: 491
Period size: 100 Copynumber: 4.5 Consensus size: 100
63630990 AAGAAACTAT
* * * *
63631000 ACATTGCAATTTAAAAGATTGAAGCTACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAT
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
63631065 AGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
66 AGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
* * *
63631100 ACATTGCAATTTAAAAAATTAAAGCCACAACGGCGAATCTTACTTCCCAGACGATGCAGCAGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * **
63631165 AGATTAAAGCTACGGCGGTGAATCTTGCTTCCCCA
66 AGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
* *
63631200 ACATTACAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTAGGCGATGCAGCAGAAC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * * *
63631265 AGATTGAAGCTACAACGACAAATCTTCCTTCCCCG
66 AGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
* * * * * * * * * * * * **
63631300 ACATTAC-AGTCAAATAGATTGAAGCTATAACAGTGAATCTCACCTCCCTGGCGGTACAGTGGAA
1 ACATTGCAATTTAAA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAA
* * ** *
63631364 CAGATTGAAGTTACGATGACGAATCTTGCTTTTCCG
65 CAGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
* * ** * *
63631400 ACATTGTAA-CTAAAAGATTGAAGCTGCAACAGCGAATCTTATTTCC
1 ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
63631446 TCGACGAGAC
Statistics
Matches: 289, Mismatches: 55, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
99 31 0.11
100 257 0.89
101 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
ACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
AGATTGAAGCTACGACGACGAATCTTGCTTCCCCA
Found at i:63631269 original size:50 final size:50
Alignment explanation
Indices: 63631012--63631297 Score: 220
Period size: 50 Copynumber: 5.7 Consensus size: 50
63631002 ATTGCAATTT
* * *
63631012 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACGATGCAGCAG
* * * * ****
63631062 AATAGATTGAAGCTACGACGACGAATCTTGCTTCCCCA-AC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGACGA-TGCAGCAG
* * *
63631112 AAAAAATTAAAGCCACAACGGCGAATCTTACTTCCCAGACGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACGATGCAGCAG
* * ** * * * ****
63631162 AACAGATTAAAGCTACGGCGGTGAATCTTGCTTCCCCA-AC-ATTACAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGACGA-TGCAGCAG
* * *
63631212 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTAGGCGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACGATGCAGCAG
* * * *
63631262 AACAGATTGAAGCTACAACGACAAATCTTCCTTCCC
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC
63631298 CGACATTACA
Statistics
Matches: 175, Mismatches: 53, Indels: 16
0.72 0.22 0.07
Matches are distributed among these distances:
49 9 0.05
50 157 0.90
51 9 0.05
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACGATGCAGCAG
Found at i:63645492 original size:22 final size:19
Alignment explanation
Indices: 63645459--63645522 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 19
63645449 CTTTTTTATT
*
63645459 TTTTTAGAAAATTTTAAAA
1 TTTTTATAAAATTTTAAAA
* *
63645478 TTTTTAAATATAAATTTTGACA
1 TTTTT--ATA-AAATTTTAAAA
63645500 TTTTTATAAATATTTTAAAA
1 TTTTTATAAA-ATTTTAAAA
63645520 TTT
1 TTT
63645523 AAAAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 7 0.19
20 13 0.36
21 2 0.06
22 14 0.39
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTATAAAATTTTAAAA
Found at i:63645548 original size:20 final size:20
Alignment explanation
Indices: 63645520--63645561 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
63645510 TATTTTAAAA
*
63645520 TTTAAAAATTATTGT-AATT
1 TTTAAAAAATATTGTGAATT
*
63645539 TTTAAAAAATATTTTGAATT
1 TTTAAAAAATATTGTGAATT
63645559 TTT
1 TTT
63645562 TTTTGTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAAAAATATTGTGAATT
Found at i:63646620 original size:21 final size:21
Alignment explanation
Indices: 63646594--63646639 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
63646584 TATATATATA
63646594 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
63646615 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
63646636 TGAA
1 TGAA
63646640 CATCATTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (21 bp):
TGAAAATACAACAGAAATGCT
Found at i:63652900 original size:21 final size:21
Alignment explanation
Indices: 63652874--63652915 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
63652864 TAGTCTTGAA
*
63652874 ACATTGCAGATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
63652895 ACATTGCAAATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
63652916 TTTGAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
ACATTGCAAATTTTTTCAATT
Found at i:63656915 original size:23 final size:24
Alignment explanation
Indices: 63656877--63656927 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
63656867 ACTTCAATTT
*
63656877 TTTTTCTTTTATTTTCTTTGTTCC
1 TTTTTCTTTTATTTTCTTTATTCC
*
63656901 TTTTTCTTTTA-TTTCTTTATTTC
1 TTTTTCTTTTATTTTCTTTATTCC
63656924 TTTT
1 TTTT
63656928 CTTACCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTATTTTCTTTATTCC
Found at i:63656941 original size:33 final size:33
Alignment explanation
Indices: 63656874--63656941 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
63656864 AACACTTCAA
* * *
63656874 TTTTTTTTCTTTTATTTTCTTTGTTCCTTTTTC
1 TTTTATTTCTTTTATTTTCTTTCTTCCTTGTTC
63656907 TTTTATTTC-TTTA-TTTCTTTTCTTACCTTGTTC
1 TTTTATTTCTTTTATTTTC-TTTCTT-CCTTGTTC
63656940 TT
1 TT
63656942 CACTTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.13
32 9 0.30
33 17 0.57
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (33 bp):
TTTTATTTCTTTTATTTTCTTTCTTCCTTGTTC
Found at i:63662148 original size:29 final size:31
Alignment explanation
Indices: 63662099--63662157 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
63662089 ATTAATTTGA
* *
63662099 ACCACAATTAAAGTTTCATGTGTATAATTAT
1 ACCACAATTAAAGATTCATGTATATAATTAT
63662130 ACCA-AATTAAA-ATTCATGTATATAATTA
1 ACCACAATTAAAGATTCATGTATATAATTA
63662158 CGCATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 7 0.27
31 4 0.15
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
ACCACAATTAAAGATTCATGTATATAATTAT
Found at i:63662325 original size:15 final size:16
Alignment explanation
Indices: 63662300--63662330 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63662290 CAAAAGTTAT
63662300 AATTAATTTTTATAAA
1 AATTAATTTTTATAAA
63662316 AATT-ATTTTTATAAA
1 AATTAATTTTTATAAA
63662331 TTTCCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTTATAAA
Found at i:63663745 original size:15 final size:16
Alignment explanation
Indices: 63663720--63663750 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63663710 CAAAAGTTAT
63663720 AATTAATTTTTATAAA
1 AATTAATTTTTATAAA
63663736 AATT-ATTTTTATAAA
1 AATTAATTTTTATAAA
63663751 TTTCCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTTATAAA
Found at i:63664268 original size:23 final size:24
Alignment explanation
Indices: 63664242--63664288 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
63664232 TTTTTTTAGA
63664242 AAATTTTAAAATTTTT-TAAATAT
1 AAATTTTAAAATTTTTATAAATAT
*
63664265 AAATTTTGAAATTTTTATAAATAT
1 AAATTTTAAAATTTTTATAAATAT
63664289 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTAAAATTTTTATAAATAT
Found at i:63664298 original size:19 final size:20
Alignment explanation
Indices: 63664267--63664318 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
63664257 TTAAATATAA
*
63664267 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
63664287 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
63664306 ATTGTGAATTTTT
1 ATTTTGAATTTTT
63664319 TTTGTTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:63665699 original size:2 final size:2
Alignment explanation
Indices: 63665692--63665716 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63665682 TTAATATAGT
63665692 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
63665717 TCTTAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63666623 original size:21 final size:22
Alignment explanation
Indices: 63666593--63666635 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
63666583 AAAGAAAACC
*
63666593 TTGTTGTTTTTTCA-TGTTTTG
1 TTGTTATTTTTTCACTGTTTTG
63666614 TTGTTATTTTTTCACTGTTTTG
1 TTGTTATTTTTTCACTGTTTTG
63666636 CTACAAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.70
Consensus pattern (22 bp):
TTGTTATTTTTTCACTGTTTTG
Found at i:63667798 original size:20 final size:22
Alignment explanation
Indices: 63667757--63667800 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
63667747 AATTTAATTA
*
63667757 TTTTACTTTTATTTTTAGAAAT
1 TTTTACTTTTATTTTTACAAAT
63667779 TTTTA-TTTTATTTTT-CAAAT
1 TTTTACTTTTATTTTTACAAAT
63667799 TT
1 TT
63667801 CAATACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTACTTTTATTTTTACAAAT
Found at i:63668903 original size:42 final size:42
Alignment explanation
Indices: 63668759--63668913 Score: 153
Period size: 41 Copynumber: 3.8 Consensus size: 42
63668749 TTTAAACAAA
* * * *
63668759 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCT-GAG
1 CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
* *
63668800 CGCCGCTAACT-TTAGGGCTTTTAGCGGCG-TT-TTTGATAATG
1 CGCCGCTAA-TGTTAGGGTTTTTAGCGGCGTTTGTTTG-TAAAG
* *
63668841 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAG
1 CGCCGCTAAT-GTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
63668883 CGCCGCTAATGTT-GGAG-TTTTAGCGGCGTTT
1 CGCCGCTAATGTTAGG-GTTTTTAGCGGCGTTT
63668914 TGATGGAAAC
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
39 4 0.04
40 4 0.04
41 61 0.66
42 18 0.19
43 6 0.06
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.39
Consensus pattern (42 bp):
CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
Found at i:63668904 original size:82 final size:82
Alignment explanation
Indices: 63668759--63668914 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 82
63668749 TTTAAACAAA
* *
63668759 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCTGAGCGCCGCTAACTTTAGGGCTTTTAG
1 CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTTTAG
63668824 CGGCGTTTTTGATAATG
66 CGGCGTTTTTGATAATG
*
63668841 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGCGCCGCTAA-TGTT-GGAG-TT
1 CGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTTGTTTCT-AAGCGCCGCTAACT-TTAGG-GCTT
63668902 TTAGCGGCGTTTT
62 TTAGCGGCGTTTT
63668915 GATGGAAACG
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
81 2 0.03
82 51 0.76
83 14 0.21
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.40
Consensus pattern (82 bp):
CGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTTTAG
CGGCGTTTTTGATAATG
Found at i:63668927 original size:82 final size:81
Alignment explanation
Indices: 63668738--63668928 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 81
63668728 TCAGAGGGAC
* * * * *
63668738 TTAGTGGCGTTTTTAAACAAACGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCTGAGCGC
1 TTAGCGGCGTTTTT-GATAAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGC
63668803 CGCTAACTTTAGGGCTT
65 CGCTAACTTTAGGGCTT
* *
63668820 TTAGCGGCGTTTTTGATAATGCGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGC
1 TTAGCGGCGTTTTTGATAA-ACGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTTGTTTCT-AAGC
63668884 GCCGCTAA-TGTT-GGAG-TT
63 GCCGCTAACT-TTAGG-GCTT
63668902 TTAGCGGCG-TTTTGATGGAAACGCCGC
1 TTAGCGGCGTTTTTGAT--AAACGCCGC
63668929 AAAATACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
81 12 0.13
82 66 0.70
83 16 0.17
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (81 bp):
TTAGCGGCGTTTTTGATAAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCC
GCTAACTTTAGGGCTT
Found at i:63669536 original size:7 final size:7
Alignment explanation
Indices: 63669524--63669611 Score: 86
Period size: 7 Copynumber: 11.9 Consensus size: 7
63669514 GGATTAAAGT
63669524 TTAGGGG
1 TTAGGGG
63669531 TTAGGGG
1 TTAGGGG
63669538 TTAGGGG
1 TTAGGGG
**
63669545 TTAGGAAT
1 TTAGG-GG
63669553 TTAGGGG
1 TTAGGGG
*
63669560 TTAGGGT
1 TTAGGGG
63669567 TTAGGGGG
1 TTA-GGGG
63669575 ATTTAGGGG
1 --TTAGGGG
*
63669584 TTAAGGG
1 TTAGGGG
*
63669591 TTAGGGAT
1 TTAGGG-G
63669599 TTAGGGG
1 TTAGGGG
63669606 TTAGGG
1 TTAGGG
63669612 TGTCAAGGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
7 45 0.68
8 14 0.21
9 4 0.06
10 3 0.05
ACGTcount: A:0.19, C:0.00, G:0.49, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:63669557 original size:22 final size:22
Alignment explanation
Indices: 63669531--63669611 Score: 117
Period size: 22 Copynumber: 3.6 Consensus size: 22
63669521 AGTTTAGGGG
*
63669531 TTAGGGGTTAGGGGTTAGGAAT
1 TTAGGGGTTAGGGGTTAGGGAT
*
63669553 TTAGGGGTTAGGGTTTAGGGGGAT
1 TTAGGGGTTAGGGGTTA--GGGAT
*
63669577 TTAGGGGTTAAGGGTTAGGGAT
1 TTAGGGGTTAGGGGTTAGGGAT
63669599 TTAGGGGTTAGGG
1 TTAGGGGTTAGGG
63669612 TGTCAAGGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 33 0.63
24 19 0.37
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (22 bp):
TTAGGGGTTAGGGGTTAGGGAT
Found at i:63669602 original size:8 final size:7
Alignment explanation
Indices: 63669504--63669612 Score: 60
Period size: 7 Copynumber: 15.0 Consensus size: 7
63669494 GGGGTATGGA
63669504 TTAGGGT
1 TTAGGGT
*
63669511 TT-GGGA
1 TTAGGGT
**
63669517 TTAAAGT
1 TTAGGGT
*
63669524 TTAGGGG
1 TTAGGGT
*
63669531 TTAGGGG
1 TTAGGGT
*
63669538 TTAGGGG
1 TTAGGGT
*
63669545 TTAGGAAT
1 TTAGG-GT
*
63669553 TTAGGGG
1 TTAGGGT
63669560 TTAGGGT
1 TTAGGGT
63669567 TTAGGGGGAT
1 TTA--GGG-T
63669577 TTAGGGGT
1 TTA-GGGT
*
63669585 TAAGGG-
1 TTAGGGT
63669591 TTAGGGAT
1 TTAGGG-T
*
63669599 TTAGGGG
1 TTAGGGT
63669606 TTAGGGT
1 TTAGGGT
63669613 GTCAAGGGTA
Statistics
Matches: 79, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
6 10 0.13
7 44 0.56
8 14 0.18
9 7 0.09
10 4 0.05
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (7 bp):
TTAGGGT
Found at i:63669621 original size:15 final size:15
Alignment explanation
Indices: 63669528--63669621 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
63669518 TAAAGTTTAG
*
63669528 GGGTTAGGG-GTTAG
1 GGGTTAGGGTGTTAA
* *
63669542 GGGTTAGGAAT-TTAG
1 GGGTTAGG-GTGTTAA
*
63669557 GGGTTAGGGT-TTAGG
1 GGGTTAGGGTGTTA-A
63669572 GGGATTTAGGG-GTTAA
1 GGG--TTAGGGTGTTAA
*
63669588 GGGTTAGGGAT-TTAG
1 GGGTTAGGG-TGTTAA
*
63669603 GGGTTAGGGTGTCAA
1 GGGTTAGGGTGTTAA
63669618 GGGT
1 GGGT
63669622 ACTCAAGTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.29
15 34 0.52
16 3 0.05
17 9 0.14
ACGTcount: A:0.19, C:0.01, G:0.49, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGTGTTAA
Found at i:63671160 original size:13 final size:13
Alignment explanation
Indices: 63671129--63671162 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
63671119 GACAAATCAC
63671129 TTTTCCCCCCAAA
1 TTTTCCCCCCAAA
**
63671142 AATTCCCCCCAAA
1 TTTTCCCCCCAAA
63671155 TTTTCCCC
1 TTTTCCCC
63671163 AAAAATCCCC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (13 bp):
TTTTCCCCCCAAA
Found at i:63672608 original size:69 final size:69
Alignment explanation
Indices: 63672459--63672651 Score: 300
Period size: 69 Copynumber: 2.8 Consensus size: 69
63672449 ATTTTATTGG
* * * * *
63672459 TAATAAACTTT-TAATTTTAAAAATAATTGTAAATGTTATTTT-TAAATAATAAAACCTATATTT
1 TAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTT
63672522 TCAA
66 TCAA
* *
63672526 AAATAATTTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTT
1 TAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTT
63672591 TCAA
66 TCAA
*
63672595 TAATAAATTTTATAATTTTAGAAATAATTGTAAATGCTATTTTCTAAATATTAACAT
1 TAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACAT
63672652 AATACATAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 8 0.07
68 30 0.26
69 76 0.67
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (69 bp):
TAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATTT
TCAA
Found at i:63672692 original size:9 final size:9
Alignment explanation
Indices: 63672678--63672772 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
63672668 ATTAATATTA
63672678 TACATAACT
1 TACATAACT
63672687 TACATAA--
1 TACATAACT
63672694 TACATAACT
1 TACATAACT
* *
63672703 TACGTTAATATT
1 TAC-AT-A-ACT
63672715 ATACATAACT
1 -TACATAACT
*
63672725 TACACAACT
1 TACATAACT
63672734 TACATAACT
1 TACATAACT
*
63672743 TAAATAACT
1 TACATAACT
*
63672752 TATATAA--
1 TACATAACT
63672759 TACATAACT
1 TACATAACT
63672768 TACAT
1 TACAT
63672773 TAATATGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 13 0.19
9 45 0.65
10 3 0.04
11 2 0.03
12 3 0.04
13 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:63672721 original size:22 final size:21
Alignment explanation
Indices: 63672653--63672727 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
63672643 TATTAACATA
63672653 ATACATAACTATCACATTAATATT
1 ATACATAACT-T-AC-TTAATATT
63672677 ATACATAACTTAC---ATA--
1 ATACATAACTTACTTAATATT
63672693 ATACATAACTTACGTTAATATT
1 ATACATAACTTAC-TTAATATT
63672715 ATACATAACTTAC
1 ATACATAACTTAC
63672728 ACAACTTACA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 3 0.07
20 3 0.07
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (21 bp):
ATACATAACTTACTTAATATT
Found at i:63672739 original size:18 final size:18
Alignment explanation
Indices: 63672678--63672772 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
63672668 ATTAATATTA
63672678 TACATAACTTACATAA--
1 TACATAACTTACATAACT
* *
63672694 TACATAACTTACGTTAATATT
1 TACATAACTTAC-AT-A-ACT
*
63672715 ATACATAACTTACACAACT
1 -TACATAACTTACATAACT
*
63672734 TACATAACTTAAATAACT
1 TACATAACTTACATAACT
*
63672752 TATATAA--TACATAACT
1 TACATAACTTACATAACT
63672768 TACAT
1 TACAT
63672773 TAATATGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
16 24 0.38
17 1 0.02
18 23 0.36
19 3 0.05
20 1 0.02
22 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (18 bp):
TACATAACTTACATAACT
Found at i:63672755 original size:38 final size:38
Alignment explanation
Indices: 63672652--63672771 Score: 125
Period size: 38 Copynumber: 3.0 Consensus size: 38
63672642 ATATTAACAT
* *
63672652 AATACATAACTATCACATTAATATTATACATAACTTACAT
1 AATACATAACT-T-ACAATAATATTATACATAACTTACAC
**
63672692 AATACATAACTTACGTTAATATTATACATAACTTACAC
1 AATACATAACTTACAATAATATTATACATAACTTACAC
63672730 AACTTACATAACTTA-AATAACTTATATAATACATAACTTACA
1 AA--TACATAACTTACAATAA--TAT-T-ATACATAACTTACA
63672772 TTAATATGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
38 26 0.37
39 4 0.06
40 22 0.31
41 3 0.04
42 1 0.01
43 14 0.20
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (38 bp):
AATACATAACTTACAATAATATTATACATAACTTACAC
Found at i:63672898 original size:16 final size:16
Alignment explanation
Indices: 63672851--63672890 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
63672841 ATATTTAACC
63672851 TACATAACTTACATAA
1 TACATAACTTACATAA
*
63672867 TACACAACTTACATAA
1 TACATAACTTACATAA
63672883 TACATAAC
1 TACATAAC
63672891 CTTCATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:63678456 original size:18 final size:18
Alignment explanation
Indices: 63678433--63678478 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
63678423 GAATATGTTT
63678433 CAGCAGTCGCAACAGCCG
1 CAGCAGTCGCAACAGCCG
*
63678451 CAGCAGCCGCAACAGCCG
1 CAGCAGTCGCAACAGCCG
*
63678469 CAACAGTCGC
1 CAGCAGTCGC
63678479 CGTCTTAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.41, G:0.26, T:0.04
Consensus pattern (18 bp):
CAGCAGTCGCAACAGCCG
Found at i:63678457 original size:9 final size:9
Alignment explanation
Indices: 63678440--63678474 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
63678430 TTTCAGCAGT
63678440 CGCAACAGC
1 CGCAACAGC
*
63678449 CGCAGCAGC
1 CGCAACAGC
63678458 CGCAACAGC
1 CGCAACAGC
63678467 CGCAACAG
1 CGCAACAG
63678475 TCGCCGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.31, C:0.43, G:0.26, T:0.00
Consensus pattern (9 bp):
CGCAACAGC
Found at i:63678816 original size:43 final size:42
Alignment explanation
Indices: 63678722--63679118 Score: 442
Period size: 43 Copynumber: 9.2 Consensus size: 42
63678712 TCTGCCAAAA
* * *
63678722 TTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAAGGCCTT-AGTCT
1 TTAGCGGCGTTTGTGTG-AAAGCGCCGCT-AAAGGTCTTGA-TCT
* * *
63678766 TTTGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCT
1 TTAGCGGCGTTTGTGTG-AAAGCGCCGCTAAAGGTCTTGATCT
*
63678809 TTAGCGGCGTTTGTCGTGTAAGCGCCGCTAAATGGTCGTTG-TCT
1 TTAGCGGCGTTTGT-GTGAAAGCGCCGCTAAA-GGTC-TTGATCT
*
63678853 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCGTTG-TCT
1 TTAGCGGCGTTTGTGT-GAAAGCGCCGCTAAAGGTC-TTGATCT
* *
63678896 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGCTCT
1 TTAGCGGCGTTTGTGT-GAAAGCGCCGCTAAAGGTCTTGATCT
* * *
63678939 TTAGCGGCGTTTGTGCTGGATGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTG-TGAAAGCGCCGCTAAAGGTCTTGATCT
* *
63678982 TTAGCGGCGTTTGTGTGAAAAGCGCCGGTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTG-AAAGCGCCGCTAAAGGTCTTGATCT
*
63679025 TTAGCGGCGTTTGTGTCGAAAGCGCCGCTAAAGATCTTGGA-CT
1 TTAGCGGCGTTTGTGT-GAAAGCGCCGCTAAAGGTCTT-GATCT
* * * **
63679068 TTGGCGGCGTTTGTGTTGGAAGCGCCGCTAAAGGTCTCGGCCT
1 TTAGCGGCGTTTGTG-TGAAAGCGCCGCTAAAGGTCTTGATCT
63679111 TTAGCGGC
1 TTAGCGGC
63679119 ATTTTTTACT
Statistics
Matches: 317, Mismatches: 24, Indels: 25
0.87 0.07 0.07
Matches are distributed among these distances:
42 6 0.02
43 241 0.76
44 67 0.21
45 3 0.01
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGTGAAAGCGCCGCTAAAGGTCTTGATCT
Found at i:63679037 original size:129 final size:128
Alignment explanation
Indices: 63678722--63679118 Score: 521
Period size: 129 Copynumber: 3.1 Consensus size: 128
63678712 TCTGCCAAAA
* * * * * * *
63678722 TTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAAGGCCTTAGTCTTTTGCGGCATTTGTGAGAAAA
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCT-AAAGGTCTT-GTCTTTAGCGGCGTTTGTGTGGAAA
*
63678787 GCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGT-CGTGTAAGCGCCGCTAAATGGTCGTT-G
64 GCGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGC-TGGAAGCGCCGCTAAA-GGTC-TTGG
63678850 TCT
126 TCT
** *
63678853 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCGTTGTCTTTAGCGGCGTTTGTGTGGGAAG
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTC-TTGTCTTTAGCGGCGTTTGTGTGGAAAG
* *
63678918 CGCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTGTGCTGGATGCGCCGCTAAAGGTCTTGGTCT
65 CGCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGCTGGAAGCGCCGCTAAAGGTCTTGGTCT
* *
63678982 TTAGCGGCGTTTGTGTGAAAAGCGCCGGTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGTCGAAAG
1 TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTT-GTCTTTAGCGGCGTTTGTGTGGAAAG
* * * * *
63679047 CGCCGCTAAAGATCTTGGA-CTTTGGCGGCGTTTGTGTTGGAAGCGCCGCTAAAGGTCTCGGCCT
65 CGCCGCTAAAGGTCTT-GATCTTTAGCGGCGTTTGTGCTGGAAGCGCCGCTAAAGGTCTTGGTCT
63679111 TTAGCGGC
1 TTAGCGGC
63679119 ATTTTTTACT
Statistics
Matches: 236, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
128 4 0.02
129 128 0.54
130 76 0.32
131 28 0.12
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (128 bp):
TTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTTGTCTTTAGCGGCGTTTGTGTGGAAAGC
GCCGCTAAAGGTCTTGATCTTTAGCGGCGTTTGTGCTGGAAGCGCCGCTAAAGGTCTTGGTCT
Found at i:63679248 original size:22 final size:22
Alignment explanation
Indices: 63679216--63679258 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63679206 TACCGGCGCT
* *
63679216 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
63679238 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
63679259 GTTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:63683460 original size:48 final size:48
Alignment explanation
Indices: 63683408--63683508 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
63683398 ACCTTTTGTT
**
63683408 GAAGACAACGAAGAAAGTGAAGCCTATGAACCAGAAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
* **
63683456 GAAGATATTGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
63683504 GAAGA
1 GAAGA
63683509 ATTAATGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.55, C:0.09, G:0.27, T:0.09
Consensus pattern (48 bp):
GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
Found at i:63686655 original size:16 final size:16
Alignment explanation
Indices: 63686620--63686654 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
63686610 ATAAATAATC
*
63686620 AAAATGATTCAAACCT
1 AAAATGATCCAAACCT
63686636 AAAATGATCCAAA-CT
1 AAAATGATCCAAACCT
63686651 AAAA
1 AAAA
63686655 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATGATCCAAACCT
Found at i:63691167 original size:15 final size:16
Alignment explanation
Indices: 63691147--63691176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63691137 CACTGATGAG
63691147 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
63691162 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
63691177 TCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:63691631 original size:45 final size:45
Alignment explanation
Indices: 63691582--63691668 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
63691572 TCGAAGACAA
*
63691582 TGAAGAAAGTGAAACCTATGAACCAGAAGAAGAAGAAGAAGATAT
1 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGATAT
63691627 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGA
1 TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGA
63691669 ATTAATGGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.55, C:0.08, G:0.25, T:0.11
Consensus pattern (45 bp):
TGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAAGATAT
Done.