Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 118 of 172
Found at i:33741956 original size:45 final size:43
Alignment explanation
Indices: 33741858--33741958 Score: 103
Period size: 45 Copynumber: 2.3 Consensus size: 43
33741848 CAAAGCTCTT
* * *
33741858 AAATGAACAAATTAATCAAGATAACAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAACAAATTTTGCAAAAATACA
** **
33741901 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AAAT--GAATAAATTAATCAAGATAACAAATTTTG-CAAAAATAC-A
33741948 AAATGAATAAA
1 AAATGAATAAA
33741959 ATGGAAATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.09
45 31 0.66
46 7 0.15
47 5 0.11
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAACAAATTTTGCAAAAATACA
Found at i:33744156 original size:62 final size:63
Alignment explanation
Indices: 33744054--33744173 Score: 224
Period size: 62 Copynumber: 1.9 Consensus size: 63
33744044 CTAAACTCAA
*
33744054 CGTACTTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAGTGTAATGTTGATGCATAAATG
1 CGTACTTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATAAATG
33744117 CGTA-TTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCAT
1 CGTACTTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCAT
33744174 GGAAAAAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 52 0.93
63 4 0.07
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (63 bp):
CGTACTTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATAAATG
Found at i:33748240 original size:59 final size:59
Alignment explanation
Indices: 33748176--33748319 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
33748166 TATTTTTAAA
* * * * *
33748176 AAAATATTACTCAGTTACATAAATTATTATAATTTTTGT-GATATTTTGTGTAATTACAT
1 AAAATATTACTCAATTACATAAATTATTATAATATTTATAG-TATTTTGTATAAATACAT
* * *
33748235 AAAATATTACTAAATTACATAAATTATTGTAATATTTATAGTGTTTTGTATAAATACAT
1 AAAATATTACTCAATTACATAAATTATTATAATATTTATAGTATTTTGTATAAATACAT
*
33748294 AAAATATTA-TCTAATTACACAAATTA
1 AAAATATTACTC-AATTACATAAATTA
33748320 CTACAAATCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 71 0.97
60 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (59 bp):
AAAATATTACTCAATTACATAAATTATTATAATATTTATAGTATTTTGTATAAATACAT
Found at i:33748715 original size:31 final size:31
Alignment explanation
Indices: 33748657--33748718 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
33748647 AACTATTATT
** *
33748657 TTTTCTTGCTATTTTTTACTGTTTTTTGCTA
1 TTTTCTTGCTATTTTTTACACTATTTTGCTA
* *
33748688 TTTTCTTGTTATTTTTTTCACTATTTTGCTA
1 TTTTCTTGCTATTTTTTACACTATTTTGCTA
33748719 CTATTTCACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.08, T:0.68
Consensus pattern (31 bp):
TTTTCTTGCTATTTTTTACACTATTTTGCTA
Found at i:33752144 original size:10 final size:10
Alignment explanation
Indices: 33752114--33752146 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33752104 GCCCAATACC
33752114 TTAAACCCAAA
1 TTAAACCC-AA
33752125 TT-AACCCAA
1 TTAAACCCAA
33752134 TTAAACCCAA
1 TTAAACCCAA
33752144 TTA
1 TTA
33752147 TAATGGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.19
10 15 0.71
11 2 0.10
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAACCCAA
Found at i:33754571 original size:4 final size:4
Alignment explanation
Indices: 33754554--33754587 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
33754544 TAAAATTAGT
33754554 TAAA T-AA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
33754588 AATGATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:33760392 original size:9 final size:9
Alignment explanation
Indices: 33760378--33760402 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33760368 TCAATTTTGG
33760378 AAAAAAAAT
1 AAAAAAAAT
33760387 AAAAAAAAT
1 AAAAAAAAT
33760396 AAAAAAA
1 AAAAAAA
33760403 TAATAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:33760502 original size:39 final size:39
Alignment explanation
Indices: 33760440--33760548 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
33760430 GAGAGGTAGG
*
33760440 CAACTTTTTTTTTGCGCTGTTTTTTTTTTTTTGATTTTTCT
1 CAACTTTTTTTTT--GCTCTTTTTTTTTTTTTGATTTTTCT
**
33760481 CAACTCTTTTTTTTGCT-TTTTTTTTTTTAAGATTTTTCT
1 CAACT-TTTTTTTTGCTCTTTTTTTTTTTTTGATTTTTCT
*
33760520 CAA--TTTTTTTTGCTCTTTTTGCTTTTTTT
1 CAACTTTTTTTTTGCTCTTTTT-TTTTTTTT
33760549 ATTAACTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
36 11 0.18
37 5 0.08
38 5 0.08
39 23 0.38
40 3 0.05
41 5 0.08
42 8 0.13
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.71
Consensus pattern (39 bp):
CAACTTTTTTTTTGCTCTTTTTTTTTTTTTGATTTTTCT
Found at i:33761134 original size:31 final size:32
Alignment explanation
Indices: 33761075--33761139 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
33761065 GGCAAATTAC
33761075 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
33761107 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
33761138 AA
1 AA
33761140 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:33765597 original size:5 final size:5
Alignment explanation
Indices: 33765589--33765614 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33765579 GATATGGAAT
33765589 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
33765615 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:33766303 original size:30 final size:29
Alignment explanation
Indices: 33766269--33766327 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
33766259 AGGTGGGATG
*
33766269 GGGAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGGAGGGAATAAAAATTTT-GGGGAAAAGT
33766299 GGGAGGGAATAAAAATTTTGGGGAAAAGT
1 GGGAGGGAATAAAAATTTTGGGGAAAAGT
33766328 AAAAGGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (29 bp):
GGGAGGGAATAAAAATTTTGGGGAAAAGT
Found at i:33766554 original size:9 final size:9
Alignment explanation
Indices: 33766540--33766576 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33766530 TATAGTTTGA
33766540 TATTCGAAT
1 TATTCGAAT
*
33766549 TATTCGAGT
1 TATTCGAAT
33766558 TATTCGAAT
1 TATTCGAAT
*
33766567 TATTTGAAT
1 TATTCGAAT
33766576 T
1 T
33766577 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33766579 original size:15 final size:16
Alignment explanation
Indices: 33766535--33766580 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
33766525 AATATTATAG
33766535 TTTGATATTCGAATTA
1 TTTGATATTCGAATTA
*
33766551 TTCGAGTTATTCGAATTA
1 TTTGA--TATTCGAATTA
33766569 TTTGA-ATTCGAA
1 TTTGATATTCGAA
33766581 AACTCAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
18 15 0.58
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (16 bp):
TTTGATATTCGAATTA
Found at i:33769456 original size:16 final size:16
Alignment explanation
Indices: 33769435--33769467 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33769425 TTAATCTACA
33769435 GTTTTTATTAT-TATAT
1 GTTTTT-TTATCTATAT
33769451 GTTTTTTTATCTATAT
1 GTTTTTTTATCTATAT
33769467 G
1 G
33769468 CTAAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (16 bp):
GTTTTTTTATCTATAT
Found at i:33770348 original size:24 final size:24
Alignment explanation
Indices: 33770321--33770381 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
33770311 TTTTAACGAA
33770321 TATTTTTATATAT-ATACGTATATT
1 TATTTTTATATATAATAC-TATATT
* *
33770345 TATTTTTATTTTTAATACTATATT
1 TATTTTTATATATAATACTATATT
33770369 TATTATTTA-ATAT
1 TATT-TTTATATAT
33770382 TTTTTCTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTTTTATATATAATACTATATT
Found at i:33773109 original size:20 final size:20
Alignment explanation
Indices: 33773054--33773101 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33773044 TTATAATTAT
* *
33773054 TTATATATCTTTATATCTTA
1 TTATATATATATATATCTTA
33773074 TTATATATATATATATCTTA
1 TTATATATATATATATCTTA
33773094 TTATATAT
1 TTATATAT
33773102 GTGTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATATATATATATCTTA
Found at i:33773228 original size:36 final size:37
Alignment explanation
Indices: 33773141--33773229 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 37
33773131 CATTTTTTAG
33773141 TTTATATATATACATACATACATATTTTTATATACTT
1 TTTATATATATACATACATACATATTTTTATATACTT
* * *
33773178 TATA-AT-TCTAACATACGTACATATTTTT-TA-ACTT
1 TTTATATATAT-ACATACATACATATTTTTATATACTT
33773212 ATTTATATATATACATAC
1 -TTTATATATATACATAC
33773230 TTATGTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
34 4 0.09
35 7 0.16
36 27 0.63
37 5 0.12
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.48
Consensus pattern (37 bp):
TTTATATATATACATACATACATATTTTTATATACTT
Found at i:33774816 original size:21 final size:21
Alignment explanation
Indices: 33774799--33774852 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
33774789 ACAATCAACT
33774799 TTTTTAAT-TTTTACATCAAA
1 TTTTTAATATTTTACATCAAA
*
33774819 TTTTTAATATTTTAAATACATAAA
1 TTTTTAATATTTTACAT-C--AAA
33774843 TTTTTAATAT
1 TTTTTAATAT
33774853 GTTCTAGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 1 0.03
24 13 0.45
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTAATATTTTACATCAAA
Found at i:33786618 original size:44 final size:43
Alignment explanation
Indices: 33786570--33786706 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 43
33786560 TTGCAGATCA
* *
33786570 TATCTCCCTAAGCAGTAATGGAGCAGATCGAATATGGTGAATCT
1 TATCTCCCTAAGCAGTAATGGAGCAGATC-AAAACGGTGAATCT
* * ** **** *
33786614 TATCTTCCC-AAGGTAGTAA-GGAAGCAAATTTAAACCACCAGTCT
1 TATC-TCCCTAA-GCAGTAATGG-AGCAGATCAAAACGGTGAATCT
*
33786658 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCT
1 TATCTCCCTAAGCAGTAATGGAGCAGATCAAA-ACGGTGAATCT
33786702 TATCT
1 TATCT
33786707 TTCCAAGGTA
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 17 0.26
44 33 0.50
45 16 0.24
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAATGGAGCAGATCAAAACGGTGAATCT
Found at i:33786681 original size:88 final size:88
Alignment explanation
Indices: 33786570--33786791 Score: 318
Period size: 88 Copynumber: 2.5 Consensus size: 88
33786560 TTGCAGATCA
* * * * *
33786570 TATCTCCCTAAGCAGTAATGGAGCAGATCGAATATGGTGAATCTTATCTTCCCAAGGTAGTAAGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGG
*
33786635 AAGCAAATTTAAACCACCAGTCT
66 AAGCAAATTTAAACCACCAGTCC
* *
33786658 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAATAGGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGG
* *
33786723 AAGCAGATTTAAACCACTAGTCC
66 AAGCAAATTTAAACCACCAGTCC
** * *
33786746 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCGAATCTTA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTA
33786792 CTTTCTCGGG
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 120 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (88 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGG
AAGCAAATTTAAACCACCAGTCC
Found at i:33786773 original size:43 final size:43
Alignment explanation
Indices: 33786636--33786774 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
33786626 GTAGTAAGGA
* *
33786636 AGCAAATTTAAACCACCAGTCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATTTAAACCACTAGTCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
33786679 AGCAGA-TCAAA-GACGGTGAATCTTATCTTTCC-AAGGTAATAG-GG
1 AGCAGATTTAAACCAC--T-AGTCTTATC-TCCCTAA-GCAGTAGTGG
*
33786723 AAGCAGATTTAAACCACTAGTCCTATCTCCCTAAGCAGTAGTGG
1 -AGCAGATTTAAACCACTAGTCTTATCTCCCTAAGCAGTAGTGG
33786767 AGCAGATT
1 AGCAGATT
33786775 GAAGACAGCG
Statistics
Matches: 71, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 21 0.30
44 23 0.32
45 15 0.21
46 4 0.06
47 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (43 bp):
AGCAGATTTAAACCACTAGTCTTATCTCCCTAAGCAGTAGTGG
Found at i:33786875 original size:50 final size:50
Alignment explanation
Indices: 33786817--33786976 Score: 158
Period size: 50 Copynumber: 3.2 Consensus size: 50
33786807 CAAGTGGAAC
*
33786817 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* ** * * **** * ** *
33786867 AGATTGAAGCCACAACGGCGAATCTTATTTCTTTGGTGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* *
33786917 AGATTGAAGCTACAACGGTGAATCTTGCTTCCTCGACATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* *
33786967 ATATTAAAGC
1 AGATTGAAGC
33786977 CACTGTTAGA
Statistics
Matches: 79, Mismatches: 31, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
Found at i:33788641 original size:50 final size:49
Alignment explanation
Indices: 33788482--33789104 Score: 413
Period size: 50 Copynumber: 12.5 Consensus size: 49
33788472 TCCAACAGCC
* * * *
33788482 ACAATGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAATAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * * *
33788532 ATAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAAGATTGAAGCT
* * * * *
33788581 ACAATGGCGAATCTTATTTCTCTGGCGGTGCAGTGAAATAAATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAA-AGATTGAAGCT
* * * * * * * *
33788631 ACAACAGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAA-GATTGAAGCT
* *
33788681 ACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
** * *** * * *
33788731 ACAACAACGAATCTTGCTTCCCCAACATTGCAATTAAAAAGATTGAAG-T
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
* ** ** *
33788780 CACAACGGCGAATCTTACTTCCCTAGTGGTGCAGTGGATCATATTGAAGCT
1 -ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * * *
33788831 ACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAAGAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAA-AAGATTGAAGCT
* * * * * * *
33788881 ACAACAGCGAATCTTACCTCCCTAGCGGTGTAGTGGAACAGATTAAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* *** * * * *
33788931 ACAACGGCGAATCTTGCTTCCCCCACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
* **
33788981 ACAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAGTAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * *
33789031 ACAACGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
33789081 ACAACGGCGAATCTTA-TCTCCCTG
1 ACAACGGCGAATCTTACT-TCCCTG
33789105 AAGATAGCGA
Statistics
Matches: 416, Mismatches: 144, Indels: 26
0.71 0.25 0.04
Matches are distributed among these distances:
49 46 0.11
50 358 0.86
51 12 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (49 bp):
ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAAGATTGAAGCT
Found at i:33788726 original size:100 final size:100
Alignment explanation
Indices: 33788478--33789104 Score: 898
Period size: 100 Copynumber: 6.3 Consensus size: 100
33788468 GCGATCCAAC
* * * * * *
33788478 AGCCACAATGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAATAGATTGAAGCTATAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
33788543 TCTTGCTTCCCCGACATTACAATT-AAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * * * *
33788577 AGCCACAATGGCGAATCTTATTTCTCTGGCGGTGCAGTGAAATAAATTGAAGCTACAACAGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
33788642 TCTTGCTTCCCCGACATTGCAATTAAAAGGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
**
33788677 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACAACGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
33788742 TCTTGCTTCCCCAACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * * * *
33788777 AGTCACAACGGCGAATCTTACTTCCCTAGTGGTGCAGTGGATCATATTGAAGCTACAATGGTGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
33788842 TCTTGCTTCCCCGACATTGCAATTAAGAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * *
33788877 AGCCACAACAGCGAATCTTACCTCCCTAGCGGTGTAGTGGAACAGATTAAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
33788942 TCTTGCTTCCCCCACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * ** *
33788977 AGCCACAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAGTAGATTGAAGCTACAACGACGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
33789042 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
33789077 AGCCACAACGGCGAATCTTA-TCTCCCTG
1 AGCCACAACGGCGAATCTTACT-TCCCTG
33789105 AAGATAGCGA
Statistics
Matches: 475, Mismatches: 51, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
99 84 0.18
100 391 0.82
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (100 bp):
AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
Found at i:33791286 original size:17 final size:17
Alignment explanation
Indices: 33791264--33791296 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33791254 ATGTACTTAT
33791264 TTATATATATATGTATG
1 TTATATATATATGTATG
*
33791281 TTATATCTATATGTAT
1 TTATATATATATGTAT
33791297 ATATGCATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
TTATATATATATGTATG
Found at i:33791381 original size:21 final size:21
Alignment explanation
Indices: 33791357--33791404 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
33791347 ATCTACATGC
*
33791357 ATATGTTACTTCCGTAAATAT
1 ATATATTACTTCCGTAAATAT
33791378 ATATATTACTTCCGTAAATAT
1 ATATATTACTTCCGTAAATAT
33791399 ATATAT
1 ATATAT
33791405 CTATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (21 bp):
ATATATTACTTCCGTAAATAT
Found at i:33791514 original size:35 final size:35
Alignment explanation
Indices: 33791443--33791515 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
33791433 TACCCCTTTT
* *
33791443 TACATACATAGTTTTTATATTTTATGATTTGTATA
1 TACATACATAGTTTTTATATTTTATGAATTGCATA
*
33791478 TACATACATATTTTTTATATATTTTAT-AATT-CATA
1 TACATACATA-GTTTT-TATATTTTATGAATTGCATA
33791513 TAC
1 TAC
33791516 GCATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 16 0.48
36 7 0.21
37 10 0.30
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (35 bp):
TACATACATAGTTTTTATATTTTATGAATTGCATA
Found at i:33796005 original size:51 final size:51
Alignment explanation
Indices: 33795929--33796027 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
33795919 TAAAAACCTA
*
33795929 CAATATATACCTAAATACAGAATATCATTAACAATCAGAAACATTTAAATC
1 CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAAATC
*
33795980 CAATATATACCTAAATACAGAATATCACTAACAGTCAGAAACATTTAA
1 CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAA
33796028 GATTTACATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (51 bp):
CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAAATC
Found at i:33801909 original size:8 final size:8
Alignment explanation
Indices: 33801896--33801922 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
33801886 TATAAATCGT
33801896 ATTTTAAA
1 ATTTTAAA
33801904 ATTTTAAA
1 ATTTTAAA
33801912 ATTTTAAA
1 ATTTTAAA
33801920 ATT
1 ATT
33801923 AAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTTTAAA
Found at i:33802013 original size:19 final size:19
Alignment explanation
Indices: 33801978--33802025 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
33801968 TTTTAATAAA
*
33801978 ATTTATAAATATAATTTC-
1 ATTTATAAAAATAATTTCT
*
33801996 ATTTATTAAAAATTATTTCT
1 ATTTA-TAAAAATAATTTCT
33802016 ATTTTATAAA
1 A-TTTATAAA
33802026 CATTTTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 5 0.20
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATAAAAATAATTTCT
Found at i:33802202 original size:13 final size:13
Alignment explanation
Indices: 33802186--33802210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33802176 TAAATAGAGA
33802186 ATAAAAATAAAAC
1 ATAAAAATAAAAC
33802199 ATAAAAATAAAA
1 ATAAAAATAAAA
33802211 TTCTACAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAC
Found at i:33804377 original size:23 final size:22
Alignment explanation
Indices: 33804334--33804391 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
33804324 AAAGGGTATC
* *
33804334 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33804355 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
33804378 TACATATCATATCT
1 TACAAATCATATCT
33804392 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33804394 original size:19 final size:19
Alignment explanation
Indices: 33804347--33804444 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
33804337 AAATTAAATC
*
33804347 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
33804367 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
33804389 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
33804410 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
33804429 TCTAAGATTACATATC
1 TCTAAGATTACATATC
33804445 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:33804407 original size:21 final size:21
Alignment explanation
Indices: 33804381--33804443 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
33804371 CTAAGATTAC
33804381 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
33804402 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
33804421 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
33804442 AT
1 AT
33804444 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:33805114 original size:132 final size:132
Alignment explanation
Indices: 33804954--33806371 Score: 2396
Period size: 132 Copynumber: 10.8 Consensus size: 132
33804944 GAGATAGGAT
* *
33804954 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGACAAGATTTTCCGTTTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
* * *
33805019 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCTGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33805084 GC
131 GC
*
33805086 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
* * * *
33805150 CACTACTGCTTAGGGACATAAGATTTACAATCTTTAACCTACTCCGCTGCTGCTTAGGGAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
33805215 GGC
130 GGC
* *
33805218 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCT
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
*
33805283 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACTAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33805348 GC
131 GC
* ** *
33805350 CTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTTGATCTGCTCT
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
*
33805415 ACTACTGCTTAGGGGGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33805480 GC
131 GC
* * *
33805482 TTGGTGGCTTAAATCTACCTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
33805547 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33805612 GC
131 GC
*
33805614 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATATGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
* *
33805679 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGATAAT
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33805744 GC
131 GC
33805746 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
*
33805810 CACTACTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
33805875 GGC
130 GGC
* *
33805878 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
* * * *
33805943 ACTACTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGATAAT
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33806008 GC
131 GC
*
33806010 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
* *
33806075 ACTACTGCTTAGAGAGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
33806140 GC
131 GC
*
33806142 TTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
* *
33806206 CACTACTGCTTAGAGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGACAA
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
*
33806271 AGC
130 GGC
* * *
33806274 TTGGTGGCTTAAATCTGGTTCCCACTATCTTGAAAAGATAAGATTTGT-CGTCTTCGATCTGCTC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCTTTGATCTGCTC
33806338 CACTACTGCTTAGGGAGATAAGATCTAC-ATCTTC
65 CACTACTGCTTAGGGAGATAAGATCTACAATCTTC
33806372 GATCCACTTC
Statistics
Matches: 1221, Mismatches: 60, Indels: 11
0.95 0.05 0.01
Matches are distributed among these distances:
131 6 0.00
132 1213 0.99
133 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG
GC
Found at i:33805171 original size:44 final size:44
Alignment explanation
Indices: 33804993--33806361 Score: 322
Period size: 44 Copynumber: 31.1 Consensus size: 44
33804983 TTGGAAAGAC
* *
33804993 AAGATTT-TCCGTTTTTGATCTGCTCCACTACTGCTTAGGGAGAT
1 AAGATTTGT-CGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * ** * * * * * *
33805037 AAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCT-GGGAGAC
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCT-TAGGGAGAT
* * * *
33805081 AAGGCTTTGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* *
33805125 AAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGACAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * *
33805169 AAGATTT-ACAATCTTTAACCTACTCCGCTGCTGCTTAGGGAGAC
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * *
33805213 AAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* * *
33805257 AAGATTTGCCGTCTTTGATCTGCTCTACTACTGCTTAGGGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * *
33805301 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACT
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGA-T
* ** * * * *
33805346 AGGCCTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AAGATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
*** * * *
33805389 AAGATTCACCGTCTTTGATCTGCTCTACTACTGCTTAGGGGGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * * *
33805433 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * *
33805477 AAGGCTTGGT-GGCTTAAATCTACCTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCT-GCT-CCACTACTGCTTAGG-GAGAT
* *
33805521 AAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * * *
33805565 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * *
33805609 AAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* *
33805653 AAGATTT-TCCGTCTTTGATATGCTCCACTACTGCTTAGGGAGAT
1 AAGATTTGT-CGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * *
33805697 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAT
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * *
33805741 AATGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* *
33805785 AAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * * *
33805829 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * *
33805873 AAGGCTTTGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* * *
33805917 AAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * * *
33805961 AAGATCT-ACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGAT
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * *
33806005 AATGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* * *
33806049 AAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * * * * * * *
33806093 AAGATCT-ACAATCTTTAACCTACTCCGCTGCTGCTCAGGGAGAC
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * *
33806137 AAGGCTTTGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGAT
1 AA-GATTTGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-GAGAT
* *
33806181 AAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
* * * ** * * * * * *
33806225 AAGATCT-ACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGACA
1 AAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGGAGA-T
* * * * * **
33806270 AAGCTTGGT-GGCTTAAATCTGGTTCCCACTA-T-CTT-GAAAAGAT
1 AAGATTTGTCGTCTTTAATCT-GCT-CCACTACTGCTTAG-GGAGAT
**
33806313 AAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
33806357 AAGAT
1 AAGAT
33806362 CTACATCTTC
Statistics
Matches: 897, Mismatches: 327, Indels: 202
0.63 0.23 0.14
Matches are distributed among these distances:
42 59 0.07
43 98 0.11
44 634 0.71
45 66 0.07
46 40 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
AAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGGAGAT
Found at i:33806425 original size:44 final size:45
Alignment explanation
Indices: 33806348--33806718 Score: 355
Period size: 44 Copynumber: 8.4 Consensus size: 45
33806338 CACTACTGCT
* * * *
33806348 TAGGGAGATAAGATCTAC-ATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* *
33806391 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * * * * *
33806435 CATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* *
33806480 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * *
33806523 TAGGAAGACAGGATATGCTATCTTCGATCTACTTCAC-GCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * * * * * *
33806567 CATGAAGACAATATCTGCTTAACTTCGATCGACTTCGCCACCAATA
1 TAGGAAGACAAGATCTGC-TATCTTCGATCTACTTCACTACCAATA
* * * * *
33806613 TGGGAAGATAAGATCTGC-ATCTTTGATCCACTT-TCTACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * *
33806656 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCTAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
* * *
33806700 CATGAAGACAAAATCTGCT
1 TAGGAAGACAAGATCTGCT
33806719 TTTTCATTGA
Statistics
Matches: 263, Mismatches: 56, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
43 60 0.23
44 145 0.55
45 39 0.15
46 19 0.07
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACCAATA
Found at i:33806668 original size:133 final size:132
Alignment explanation
Indices: 33806353--33806719 Score: 644
Period size: 133 Copynumber: 2.8 Consensus size: 132
33806343 CTGCTTAGGG
*
33806353 AGATAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
1 AGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
* *
33806418 TCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
66 TCTACTTCACGCCAATACATGAAGACAATATCTGCTTACTTCGATCGACTTCGCCACCAATATGG
33806483 GA
131 GA
* *
33806485 AGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATATGCTATCTTCGA
1 AGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
33806550 TCTACTTCACGCCAATACATGAAGACAATATCTGCTTAACTTCGATCGACTTCGCCACCAATATG
66 TCTACTTCACGCCAATACATGAAGACAATATCTGCTT-ACTTCGATCGACTTCGCCACCAATATG
33806615 GGA
130 GGA
* *
33806618 AGATAAGATCTGCATCTTTGATCCACTTTCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
1 AGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
* *
33806683 TCTACTTCACGCTAATACATGAAGACAAAATCTGCTT
66 TCTACTTCACGCCAATACATGAAGACAATATCTGCTT
33806720 TTTCATTGAT
Statistics
Matches: 223, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
132 99 0.44
133 124 0.56
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (132 bp):
AGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGA
TCTACTTCACGCCAATACATGAAGACAATATCTGCTTACTTCGATCGACTTCGCCACCAATATGG
GA
Found at i:33811685 original size:19 final size:19
Alignment explanation
Indices: 33811657--33811698 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
33811647 ATAGATATAC
*
33811657 AAAATAATAA-TTACAGATG
1 AAAATAATAAGATA-AGATG
*
33811676 AAAATTATAAGATAAGATG
1 AAAATAATAAGATAAGATG
33811695 AAAA
1 AAAA
33811699 CAATTGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (19 bp):
AAAATAATAAGATAAGATG
Found at i:33812261 original size:23 final size:22
Alignment explanation
Indices: 33812218--33812275 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
33812208 AAAGGGTATC
* *
33812218 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33812239 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
33812262 TACATATCATATCT
1 TACAAATCATATCT
33812276 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33812278 original size:19 final size:19
Alignment explanation
Indices: 33812231--33812328 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
33812221 AAATTAAATC
*
33812231 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
33812251 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
33812273 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
33812294 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
33812313 TCTAAGATTACATATC
1 TCTAAGATTACATATC
33812329 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:33812291 original size:21 final size:21
Alignment explanation
Indices: 33812265--33812327 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
33812255 CTAAGATTAC
33812265 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
33812286 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
33812305 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
33812326 AT
1 AT
33812328 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:33821036 original size:20 final size:20
Alignment explanation
Indices: 33820989--33821036 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
33820979 GGATGACGTA
*
33820989 AATTAAAAAAAATATAAATC
1 AATTTAAAAAAATATAAATC
*
33821009 AA--TCAAAAAATATAAATC
1 AATTTAAAAAAATATAAATC
33821027 AATTTAAAAA
1 AATTTAAAAA
33821037 GTATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 16 0.70
20 7 0.30
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (20 bp):
AATTTAAAAAAATATAAATC
Found at i:33821042 original size:19 final size:18
Alignment explanation
Indices: 33820995--33821029 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33820985 CGTAAATTAA
33820995 AAAAAATATAAATCAATC
1 AAAAAATATAAATCAATC
33821013 AAAAAATATAAATCAAT
1 AAAAAATATAAATCAAT
33821030 TTAAAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAATCAATC
Found at i:33834689 original size:59 final size:59
Alignment explanation
Indices: 33834593--33834741 Score: 147
Period size: 59 Copynumber: 2.5 Consensus size: 59
33834583 TGCCTAAGCT
** * * * * * * * **
33834593 TTTTTTTTATCCAATTCAACACTTGAACTTGATACTTTTTGC-TAATCTGGTACTTGAGT
1 TTTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTT-CTTAATCTGGCACCTAAAC
* * * *
33834652 TTTTTTTTGTCTAATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGCACCTAAAC
1 TTTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTTCTTAATCTGGCACCTAAAC
33834711 TTTTTTTTATCCAATTTGATACCTAAACTTG
1 TTTTTTTTATCCAATTTGATACCTAAACTTG
33834742 TCAAATGTTA
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
58 1 0.01
59 70 0.99
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.48
Consensus pattern (59 bp):
TTTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTTCTTAATCTGGCACCTAAAC
Found at i:33835177 original size:9 final size:9
Alignment explanation
Indices: 33835152--33835184 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
33835142 TAATAAATTT
33835152 TTAAA-AAA
1 TTAAATAAA
33835160 TTGAAATAAA
1 TT-AAATAAA
33835170 TTAAATAAA
1 TTAAATAAA
33835179 TTAAAT
1 TTAAAT
33835185 TGAAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 16 0.70
10 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
TTAAATAAA
Found at i:33835195 original size:24 final size:26
Alignment explanation
Indices: 33835157--33835204 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
33835147 AATTTTTAAA
33835157 AAATTGAAATAAATT-AA-ATAAATT
1 AAATTGAAATAAATTGAACATAAATT
33835181 AAATTGAAAGT-AATTGAACATAAA
1 AAATTGAAA-TAAATTGAACATAAA
33835205 AAGAAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 13 0.62
25 3 0.14
26 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTGAAATAAATTGAACATAAATT
Found at i:33836316 original size:7 final size:7
Alignment explanation
Indices: 33836304--33836329 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33836294 GGAACCAAAA
33836304 TTAAATT
1 TTAAATT
33836311 TTAAATT
1 TTAAATT
33836318 TTAAATT
1 TTAAATT
33836325 TTAAA
1 TTAAA
33836330 GAGTCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:33845997 original size:64 final size:64
Alignment explanation
Indices: 33845865--33845998 Score: 151
Period size: 64 Copynumber: 2.1 Consensus size: 64
33845855 CTGTGTGACT
* * * * ** * * *
33845865 CTAAATCTGAACTCATGAAGTTACATGGCCTAGACACACGCTCGTTTGCCTTGTCTGTGTGACT
1 CTAAATCTGAACTCAGGAAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
* ** *
33845929 CTAAATCTTAACTCAGGGCGTTACACGGCCTGGACACACGCTCGTGTGACTTACCCGTGTAACC
1 CTAAATCTGAACTCAGGAAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
33845993 CTAAAT
1 CTAAAT
33845999 TAAAACTCAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (64 bp):
CTAAATCTGAACTCAGGAAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
Found at i:33847889 original size:15 final size:15
Alignment explanation
Indices: 33847846--33847889 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
33847836 TTCCTATGTG
*
33847846 GGGTTCACACATACA
1 GGGTTCACACATATA
* *
33847861 TGGTTCGCACATATA
1 GGGTTCACACATATA
33847876 GGGTTCACACATAT
1 GGGTTCACACATAT
33847890 GATTGGTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (15 bp):
GGGTTCACACATATA
Found at i:33851749 original size:27 final size:28
Alignment explanation
Indices: 33851672--33851779 Score: 89
Period size: 29 Copynumber: 3.9 Consensus size: 28
33851662 CTTGGGTTTT
* *
33851672 TTTACTAAAATA-ATACAAAAGAAATAAAA
1 TTTACCAAAATATATACAAAA-AAA-AATA
**
33851701 AATACCAAAATAATATACAAAAAAAAATA
1 TTTACCAAAAT-ATATACAAAAAAAAATA
* **
33851730 TTTACCAAAATAT-TATAAAAAAATTTA
1 TTTACCAAAATATATACAAAAAAAAATA
*
33851757 TTTA-CAAAA-ATATACCAAAAAAA
1 TTTACCAAAATATATACAAAAAAAA
33851780 CAAAAAAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
25 2 0.03
26 13 0.20
27 15 0.23
28 2 0.03
29 20 0.31
30 4 0.06
31 8 0.12
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (28 bp):
TTTACCAAAATATATACAAAAAAAAATA
Found at i:33851776 original size:26 final size:26
Alignment explanation
Indices: 33851712--33851779 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 26
33851702 ATACCAAAAT
*
33851712 AATATACAAAAAAAAATATTTACCAA
1 AATATACAAAAAAAAATATTTACAAA
* **
33851738 AATATTATAAAAAAATTTATTTACAAA
1 AATA-TACAAAAAAAAATATTTACAAA
*
33851765 AATATACCAAAAAAA
1 AATATACAAAAAAAA
33851780 CAAAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (26 bp):
AATATACAAAAAAAAATATTTACAAA
Found at i:33851877 original size:27 final size:27
Alignment explanation
Indices: 33851846--33851923 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
33851836 GGAGGGTTCC
* * *
33851846 TGATTGGCGGCACCAAAGGTGCCAATG
1 TGATTGGCGGCACCGATGGTGCCAAGG
33851873 TGATTGGCGGCACCGATGGTGCCAAGG
1 TGATTGGCGGCACCGATGGTGCCAAGG
*
33851900 AGATTGGCGGCACCGATGGTGCCA
1 TGATTGGCGGCACCGATGGTGCCA
33851924 TACTAAGTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (27 bp):
TGATTGGCGGCACCGATGGTGCCAAGG
Found at i:33851934 original size:27 final size:27
Alignment explanation
Indices: 33851850--33851939 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
33851840 GGTTCCTGAT
* * * * *
33851850 TGGCGGCACCAAAGGTGCCAATGTGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
* *
33851877 TGGCGGCACCGATGGTGCCAAGGAGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
*
33851904 TGGCGGCACCGATGGTGCCATACTA-AG
1 TGGCGGCACCGATGGTGCCA-ACGAGAG
33851931 TGGCGGCAC
1 TGGCGGCAC
33851940 TACTTGTGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 53 0.96
28 2 0.04
ACGTcount: A:0.22, C:0.24, G:0.37, T:0.17
Consensus pattern (27 bp):
TGGCGGCACCGATGGTGCCAACGAGAG
Found at i:33852289 original size:27 final size:27
Alignment explanation
Indices: 33852259--33852376 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 27
33852249 CCAAGATTAA
*
33852259 TAAAATATTTTTTTTGTAATATTTTGG
1 TAAAAAATTTTTTTTGTAATATTTTGG
*** *
33852286 TAAAAAACCCATTTTTGTATTATTTTGG
1 TAAAAAA-TTTTTTTTGTAATATTTTGG
*
33852314 TAAATAAAATTTTTTTTATAATATTTTGG
1 T-AA-AAAATTTTTTTTGTAATATTTTGG
****
33852343 T-ATTTTTATTTTTTTGTAATATTTTGG
1 TAAAAAAT-TTTTTTTGTAATATTTTGG
33852370 TAAAAAA
1 TAAAAAA
33852377 CCCTTTTAGT
Statistics
Matches: 67, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
26 1 0.01
27 26 0.39
28 18 0.27
29 18 0.27
30 4 0.06
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (27 bp):
TAAAAAATTTTTTTTGTAATATTTTGG
Found at i:33852301 original size:28 final size:29
Alignment explanation
Indices: 33852269--33852344 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
33852259 TAAAATATTT
*
33852269 TTTTTGTAATATTTTGGTAAA-AAACCCA
1 TTTTTGTAATATTTTGGTAAATAAAACCA
* ***
33852297 TTTTTGTATTATTTTGGTAAATAAAATTT
1 TTTTTGTAATATTTTGGTAAATAAAACCA
*
33852326 TTTTTATAATATTTTGGTA
1 TTTTTGTAATATTTTGGTA
33852345 TTTTTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (29 bp):
TTTTTGTAATATTTTGGTAAATAAAACCA
Found at i:33852451 original size:36 final size:37
Alignment explanation
Indices: 33852380--33852456 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 37
33852370 TAAAAAACCC
*
33852380 TTTTAGTTAGTATTATTTTTAGTAAAACCCTAATTAATAA
1 TTTTAGTTAGTATTATTTTGAGTAAAA--C-AATTAATAA
* *
33852420 TTTTAGTTAGTATTATTTTGAGTATAA-AATTATTAA
1 TTTTAGTTAGTATTATTTTGAGTAAAACAATTAATAA
33852456 T
1 T
33852457 ATTATTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 9 0.26
40 25 0.74
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (37 bp):
TTTTAGTTAGTATTATTTTGAGTAAAACAATTAATAA
Found at i:33855911 original size:12 final size:12
Alignment explanation
Indices: 33855892--33855944 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
33855882 TTGTTCCGGA
33855892 TCTGGCTGGGGC
1 TCTGGCTGGGGC
*
33855904 AT-TGGCTGTGGC
1 -TCTGGCTGGGGC
33855916 TCTGGCTGGGGC
1 TCTGGCTGGGGC
*
33855928 TTCT-GCTTGGGC
1 -TCTGGCTGGGGC
33855940 TCTGG
1 TCTGG
33855945 TGGTTCCGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 4 0.12
12 26 0.76
13 4 0.12
ACGTcount: A:0.02, C:0.23, G:0.43, T:0.32
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:33858205 original size:16 final size:15
Alignment explanation
Indices: 33858184--33858213 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33858174 AATAAAAATA
33858184 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
33858200 TATTATTTTATATT
1 TATTATTTTATATT
33858214 ATTTCAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:33858773 original size:10 final size:10
Alignment explanation
Indices: 33858738--33858884 Score: 72
Period size: 10 Copynumber: 14.4 Consensus size: 10
33858728 TTACCTTTTT
*
33858738 TTTCTT-TTT
1 TTTCTTCTTC
33858747 TTTCTTCCTTC
1 TTTCTT-CTTC
**
33858758 CCTCTTCTTC
1 TTTCTTCTTC
* *
33858768 TTTCTTTTTTT
1 TTTC-TTCTTC
*
33858779 TTCTCTTCTCC
1 TT-TCTTCTTC
33858790 TTTCCTT-TTC
1 TTT-CTTCTTC
33858800 TTTCCTTCTT-
1 TTT-CTTCTTC
*
33858810 TTTCTTTCTTT
1 TTTC-TTCTTC
*
33858821 TTTCTTCTCC
1 TTTCTTCTTC
33858831 TTTCCTT-TTC
1 TTT-CTTCTTC
*
33858841 TTTCCTCTT-
1 TTTCTTCTTC
*
33858850 TTTCTTTCTTT
1 TTTC-TTCTTC
*
33858861 TTTCTTCTCC
1 TTTCTTCTTC
33858871 TTTCCTT-TTC
1 TTT-CTTCTTC
33858881 TTTC
1 TTTC
33858885 CTTATTTTTC
Statistics
Matches: 106, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
9 14 0.13
10 54 0.51
11 36 0.34
12 2 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:33858795 original size:5 final size:5
Alignment explanation
Indices: 33858787--33858954 Score: 79
Period size: 5 Copynumber: 34.6 Consensus size: 5
33858777 TTTTCTCTTC
* * * * *
33858787 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT TCTTTT TTCTT CTCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC-CTT TCCTT -TCCTT TCCTT
* * * *
33858838 TTCTT TCCTCT T--TT T-CTT TCTTTT TTCTT CTCCTT TCCTT TTCTT
1 TCCTT TCCT-T TCCTT TCCTT TC-CTT TCCTT -TCCTT TCCTT TCCTT
* * * * *
33858883 TCCTT AT--TT TTCTT T-CTT TCCTC TCCTC TCCTT TCCTT TTCTT TCTTT
1 TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
33858931 TCC-T TCCTT T-CTT T-CTT T-CTT TCC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCC
33858955 CTCTCCTTCT
Statistics
Matches: 125, Mismatches: 24, Indels: 28
0.71 0.14 0.16
Matches are distributed among these distances:
3 3 0.02
4 29 0.23
5 76 0.61
6 17 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:33858795 original size:40 final size:40
Alignment explanation
Indices: 33858760--33858951 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
33858750 CTTCCTTCCC
*
33858760 TCTTCTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TCTTCTT-TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTT
33858802 TCCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT
1 T-CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT
*
33858843 TCCTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT
1 TCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT
* * *
33858883 TCCTTATTTTTCTTTCTTTCCTCTCCTCTCCTTTCCTTTTCTT
1 T-CTTCTTTTTCTTTCTTT--TTTCTTCTCCTTTCCTTTTCTT
*
33858926 TCTT-TTCCTTCCTTTCTTTCTTTCTT
1 TCTTCTT--TTTCTTTCTTT-TTTCTT
33858952 TCCCTCTCCT
Statistics
Matches: 135, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
40 39 0.29
41 38 0.28
42 21 0.16
43 37 0.27
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (40 bp):
TCTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTT
Found at i:33858885 original size:10 final size:10
Alignment explanation
Indices: 33858765--33858954 Score: 87
Period size: 10 Copynumber: 18.8 Consensus size: 10
33858755 TTCCCTCTTC
*
33858765 TTCTTTCTTT
1 TTCTTTCCTT
*
33858775 TTTTTTCTCTT
1 TTCTTTC-CTT
*
33858786 CTCCTTTCCTT
1 -TTCTTTCCTT
33858797 TTCTTTCCTT
1 TTCTTTCCTT
33858807 CTT-TTT-CTT
1 -TTCTTTCCTT
* *
33858816 TCTTTTTTCTT
1 T-TCTTTCCTT
*
33858827 CTCCTTTCCTT
1 -TTCTTTCCTT
*
33858838 TTCTTTCCTC
1 TTCTTTCCTT
33858848 TT-TTT-CTT
1 TTCTTTCCTT
* *
33858856 TCTTTTTTCTT
1 T-TCTTTCCTT
*
33858867 CTCCTTTCCTT
1 -TTCTTTCCTT
33858878 TTCTTTCCTT
1 TTCTTTCCTT
33858888 ATT-TTT-C-T
1 -TTCTTTCCTT
33858896 TTCTTTCCTCT
1 TTCTTTCCT-T
33858907 CCTCTCCTTTCCTT
1 --T-T-CTTTCCTT
33858921 TTCTTT-CTT
1 TTCTTTCCTT
*
33858930 TTCCTTCC-T
1 TTCTTTCCTT
33858939 TTCTTT-C-T
1 TTCTTTCCTT
33858947 TTCTTTCC
1 TTCTTTCC
33858955 CTCTCCTTCT
Statistics
Matches: 141, Mismatches: 17, Indels: 45
0.69 0.08 0.22
Matches are distributed among these distances:
7 2 0.01
8 16 0.11
9 25 0.18
10 51 0.36
11 29 0.21
12 8 0.06
13 1 0.01
14 2 0.01
15 7 0.05
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTTCCTT
Found at i:33858886 original size:81 final size:84
Alignment explanation
Indices: 33858763--33858944 Score: 264
Period size: 81 Copynumber: 2.2 Consensus size: 84
33858753 CCTTCCCTCT
* * * *
33858763 TCTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTT-TTTCTT
1 TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCTCCT
33858827 CTCCTTTCCTTTTCTTTCC
66 CTCCTTTCCTTTTCTTTCC
33858846 TCTT-TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTCC
1 TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTT-CTCTCC
33858909 TCTCCTTTCCTTTTCTTT-C
65 TCTCCTTTCCTTTTCTTTCC
* *
33858928 TTTTCCTTCCTTTCTTT
1 TCTT-CTTTCTTTCTTT
33858945 CTTTCTTTCC
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
81 38 0.43
82 16 0.18
83 25 0.28
84 10 0.11
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (84 bp):
TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCTCCT
CTCCTTTCCTTTTCTTTCC
Found at i:33859049 original size:27 final size:27
Alignment explanation
Indices: 33858999--33859050 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33858989 TTATAATACT
* **
33858999 GGTGCCGCCAATGACTTTGGCTCCATC
1 GGTGCCGCCAATCACTTTCCCTCCATC
*
33859026 GGTGCCGCCAATCTCTTTCCCTCCA
1 GGTGCCGCCAATCACTTTCCCTCCA
33859051 CCAGGGAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.13, C:0.38, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTGCCGCCAATCACTTTCCCTCCATC
Found at i:33859090 original size:6 final size:6
Alignment explanation
Indices: 33859079--33859118 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
33859069 AGTGCAGGCT
33859079 TTTTTA TTTTTA TTTTTA TTTTT- TGTTTT- TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTT
33859119 GGTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.88
Consensus pattern (6 bp):
TTTTTA
Found at i:33859128 original size:17 final size:17
Alignment explanation
Indices: 33859089--33859128 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
33859079 TTTTTATTTT
* *
33859089 TATTTTTATTTTTTGTT
1 TATTTTTATTTTTGGTA
*
33859106 TTTTTTTATTTTTGGTA
1 TATTTTTATTTTTGGTA
33859123 TATTTT
1 TATTTT
33859129 CGTAAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (17 bp):
TATTTTTATTTTTGGTA
Found at i:33861791 original size:3 final size:3
Alignment explanation
Indices: 33861783--33861808 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33861773 GAAATGAGCT
33861783 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
33861809 GATCAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33862136 original size:19 final size:19
Alignment explanation
Indices: 33862108--33862166 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
33862098 TAGATTAATT
*
33862108 AATTATAGTATATATATTA
1 AATTAAAGTATATATATTA
* *
33862127 AATTAAAGTAAAGATATTAA
1 AATTAAAGTATATATATT-A
33862147 AATTTAAA-TCATATATATTA
1 AA-TTAAAGT-ATATATATTA
33862167 TCTTTCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.47
20 5 0.16
21 12 0.38
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAAAGTATATATATTA
Found at i:33867365 original size:3 final size:3
Alignment explanation
Indices: 33867359--33867389 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33867349 AAACTAATAA
33867359 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
33867390 GTAGTAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:33867394 original size:3 final size:3
Alignment explanation
Indices: 33867388--33867419 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33867378 TTATTATTAT
33867388 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
33867420 ATATTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:33870734 original size:33 final size:33
Alignment explanation
Indices: 33870697--33871027 Score: 143
Period size: 33 Copynumber: 9.5 Consensus size: 33
33870687 ATCTGTGGAT
*
33870697 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
33870730 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAA
*
33870773 TCAGCACTTAGCAACCACCAATCATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
33870806 TCAACACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * * *
33870833 TTAGCACTTAGCAACCCCCTTCACATTTAAAGATACTGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T---GATTC-GGGGAA
*
33870876 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* *
33870909 TTAGCACTTAGCAACC-CC-TTGA----GGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
33870936 TCAGCACTTAGCAACC-CCTTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC----A-A--T---GATTCGG-GGAA
*
33870979 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
33871012 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
33871028 CCTTCATATT
Statistics
Matches: 231, Mismatches: 20, Indels: 94
0.67 0.06 0.27
Matches are distributed among these distances:
26 3 0.01
27 39 0.17
28 2 0.01
29 1 0.00
31 4 0.02
32 4 0.02
33 74 0.32
34 15 0.06
35 1 0.00
36 1 0.00
37 5 0.02
38 2 0.01
39 5 0.02
40 4 0.02
42 12 0.05
43 55 0.24
44 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:33870917 original size:103 final size:103
Alignment explanation
Indices: 33870725--33871031 Score: 492
Period size: 103 Copynumber: 3.0 Consensus size: 103
33870715 CAGTGATTCG
*
33870725 GGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATA-TGGTGGAATCAGCACTTAGCAACC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACT-GTGGAATCAGCACTTAGCAACC
* * *
33870789 ACCAATCATTCGGGGAATCAACACTTAGCAACCCCTTG-
65 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGA
* *
33870827 GGAGAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACC
1 GG-GAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACC
*
33870892 ACCAATGAGTCGGGGAATTAGCACTTAGCAACCCCTTGA
65 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGA
* * *
33870931 GGGAATCAGCACTTAGCAACCCCTTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACCA
33870996 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
66 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
33871032 CATATTCAAT
Statistics
Matches: 189, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
102 2 0.01
103 184 0.97
104 3 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (103 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGA
Found at i:33870936 original size:27 final size:27
Alignment explanation
Indices: 33870872--33870955 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 27
33870862 AAGATACTGT
*
33870872 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACC-CC-TTGA----G
*
33870905 GGAATTAGCACTTAGCAACCCCTTGAG
1 GGAATCAGCACTTAGCAACCCCTTGAG
33870932 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
33870956 TTATATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 24 0.50
31 3 0.06
32 2 0.04
33 19 0.40
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTGAG
Found at i:33872124 original size:11 final size:12
Alignment explanation
Indices: 33872097--33872129 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
33872087 CCCAAACGTT
33872097 GAAATTTTTGAAC
1 GAAATTTTT-AAC
33872110 GAAATTTTT-AC
1 GAAATTTTTAAC
33872121 GAAATTTTT
1 GAAATTTTT
33872130 CCGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (12 bp):
GAAATTTTTAAC
Found at i:33875702 original size:9 final size:9
Alignment explanation
Indices: 33875688--33875717 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
33875678 CTAGTTTCTG
33875688 ATGGCACGT
1 ATGGCACGT
33875697 ATGGCACGT
1 ATGGCACGT
33875706 ATGGCACGT
1 ATGGCACGT
33875715 ATG
1 ATG
33875718 ACGCATCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (9 bp):
ATGGCACGT
Found at i:33878507 original size:103 final size:103
Alignment explanation
Indices: 33878347--33878654 Score: 501
Period size: 103 Copynumber: 3.0 Consensus size: 103
33878337 CCAGTGATTC
* * *
33878347 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACC
*
33878412 ACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTG
*
33878450 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGATGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACC
* *
33878515 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTG
* * * *
33878553 GGAGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACC
33878618 ACCAATGAGTT-AGGGAATCAGCACTTAGCAACCCCTT
66 ACCAATGA-TTCAGGGAATCAGCACTTAGCAACCCCTT
33878655 CATATTCATT
Statistics
Matches: 190, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 189 0.99
104 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACC
ACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:33878532 original size:33 final size:33
Alignment explanation
Indices: 33878495--33878650 Score: 119
Period size: 33 Copynumber: 4.6 Consensus size: 33
33878485 AAGATATGAT
33878495 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
33878528 GGAATCAGCACTTAGCAACC-CC--T---T-GG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
33878554 GAGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGG
1 G-GAATCAGCACTTAGCAACCACC---A-A--T-GA-AT-CGG
* **
33878597 TGGAATCAGCACTTAGCAACCACCAATGAGTTAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
33878631 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
33878651 CCTTCATATT
Statistics
Matches: 100, Mismatches: 5, Indels: 36
0.71 0.04 0.26
Matches are distributed among these distances:
26 3 0.03
27 20 0.20
28 2 0.02
30 1 0.01
32 2 0.02
33 40 0.40
34 1 0.01
35 1 0.01
36 2 0.02
37 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
43 23 0.23
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:33879745 original size:11 final size:12
Alignment explanation
Indices: 33879717--33879750 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
33879707 GCCCAAACGT
33879717 CGAAATTTTTGAA
1 CGAAATTTTT-AA
33879730 CGAAATTTTT-A
1 CGAAATTTTTAA
33879741 CGAAATTTTT
1 CGAAATTTTT
33879751 CCATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:33907580 original size:23 final size:24
Alignment explanation
Indices: 33907554--33907601 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33907544 AATATCACTT
* *
33907554 TACATTA-ATACAATAATTAAAAA
1 TACATTATATAAAAAAATTAAAAA
*
33907577 TACATTATTTAAAAAAATTAAAAA
1 TACATTATATAAAAAAATTAAAAA
33907601 T
1 T
33907602 TAAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
TACATTATATAAAAAAATTAAAAA
Found at i:33907616 original size:6 final size:7
Alignment explanation
Indices: 33907589--33907613 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33907579 CATTATTTAA
33907589 AAAAATT
1 AAAAATT
33907596 AAAAATT
1 AAAAATT
33907603 AAAAATT
1 AAAAATT
33907610 AAAA
1 AAAA
33907614 TTATATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:33926570 original size:17 final size:17
Alignment explanation
Indices: 33926548--33926592 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
33926538 AGAAGAACCG
33926548 AGGAAAGAAGAAAAGAA
1 AGGAAAGAAGAAAAGAA
*
33926565 AGGAAAG-AG-AAAGAG
1 AGGAAAGAAGAAAAGAA
*
33926580 AGGGAAGAAGAAA
1 AGGAAAGAAGAAA
33926593 GAATTGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 4 0.17
17 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGGAAAGAAGAAAAGAA
Found at i:33931203 original size:111 final size:111
Alignment explanation
Indices: 33930999--33931219 Score: 268
Period size: 111 Copynumber: 2.0 Consensus size: 111
33930989 TGGTTGCATA
* * *
33930999 TATGTCATCCTGGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCATTCCG
1 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCACTCCG
* * ** *
33931064 GTCCCTGGTATGCCATTCTATGTATTGTTCTACAGAAGCAGGAGTG
66 GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGTG
33931110 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTC-AGCATCTCCC-TGACCCTCACTC
1 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGA-CATC-CCCTTGACCCTCACTC
* * ** * *
33931173 TGAG-CCCTGCTTTGCTGTTCGACATCTTGTTCAACTGAAGCAGGAGT
64 CG-GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGT
33931220 AGCAGATGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
110 1 0.01
111 88 0.95
112 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (111 bp):
TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCACTCCG
GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGTG
Found at i:33939347 original size:33 final size:33
Alignment explanation
Indices: 33939168--33939400 Score: 130
Period size: 33 Copynumber: 6.9 Consensus size: 33
33939158 TGGAAATGTT
* *
33939168 TAAATGTAAGACCATAGCTGGGCTATGTCA-TT
1 TAAATGTAAGACCATAGCTGGGCTATGGCACTA
* * * *
33939200 TTAATGAAAAGACCATAACTGGGTTATGGCACCT-
1 TAAATG-TAAGACCATAGCTGGGCTATGGCA-CTA
* * * * * *
33939234 TGAACGTAAGACCATAGTTGGACCATGGCAGTA
1 TAAATGTAAGACCATAGCTGGGCTATGGCACTA
* * *
33939267 TAAATATATGTAAGACCATAGCTGGGCTAAGGCATTC
1 T--A-A-ATGTAAGACCATAGCTGGGCTATGGCACTA
* * *
33939304 T-GATGATAAGACCATAACTGGGTTATGGCACTA
1 TAAATG-TAAGACCATAGCTGGGCTATGGCACTA
* * * * *
33939337 TAAATGTAAGACCATGGCAGGGCCATGGCAATG
1 TAAATGTAAGACCATAGCTGGGCTATGGCACTA
* ** * *
33939370 CATGTGTAAGACCATAGTTGGACTATGGCAC
1 TAAATGTAAGACCATAGCTGGGCTATGGCAC
33939401 AAAAAAAAAC
Statistics
Matches: 146, Mismatches: 45, Indels: 19
0.70 0.21 0.09
Matches are distributed among these distances:
32 9 0.06
33 104 0.71
34 7 0.05
35 1 0.01
36 1 0.01
37 24 0.16
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (33 bp):
TAAATGTAAGACCATAGCTGGGCTATGGCACTA
Found at i:33939363 original size:103 final size:103
Alignment explanation
Indices: 33939171--33939366 Score: 277
Period size: 103 Copynumber: 1.9 Consensus size: 103
33939161 AAATGTTTAA
* * * *
33939171 ATGTAAGACCATAGCTGGGCTATGTCATTTTAATGAAAAGACCATAACTGGGTTATGGCACCTTG
1 ATGTAAGACCATAGCTGGGCTAAGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTTA
**
33939236 AACGTAAGACCATAGTTGGACCATGGCAGTATAAATAT
66 AACGTAAGACCATAGCAGGACCATGGCAGTATAAATAT
* *
33939274 ATGTAAGACCATAGCTGGGCTAAGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTAT
1 ATGTAAGACCATAGCTGGGCTAAGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCT-T
* * *
33939338 AAATGTAAGACCATGGCAGGGCCATGGCA
65 AAACGTAAGACCATAGCAGGACCATGGCA
33939367 ATGCATGTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 2 0.02
103 79 0.98
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (103 bp):
ATGTAAGACCATAGCTGGGCTAAGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTTA
AACGTAAGACCATAGCAGGACCATGGCAGTATAAATAT
Found at i:33939397 original size:66 final size:68
Alignment explanation
Indices: 33939239--33939400 Score: 161
Period size: 66 Copynumber: 2.4 Consensus size: 68
33939229 CACCTTGAAC
* * * * *
33939239 GTAAGACCATAGTTGGACCATGGCAGTATAAATATATGTAAGACCATAGCTGGGCTAAGGCATTC
1 GTAAGACCATAGTTGGACTATGGCACTAT-AATATATGTAAGACCATAGCAGGGCCAAGGCATGC
33939304 TGAT
65 TGAT
** ** * *
33939308 GATAAGACCATAACTGGGTTATGGCACTAT-A-A-ATGTAAGACCATGGCAGGGCCATGGCAATG
1 G-TAAGACCATAGTTGGACTATGGCACTATAATATATGTAAGACCATAGCAGGGCCAAGGC-ATG
33939370 CATG-T
64 C-TGAT
33939375 GTAAGACCATAGTTGGACTATGGCAC
1 GTAAGACCATAGTTGGACTATGGCAC
33939401 AAAAAAAAAC
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
66 43 0.57
67 6 0.08
68 3 0.04
69 1 0.01
70 22 0.29
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (68 bp):
GTAAGACCATAGTTGGACTATGGCACTATAATATATGTAAGACCATAGCAGGGCCAAGGCATGCT
GAT
Found at i:33942734 original size:20 final size:19
Alignment explanation
Indices: 33942711--33942780 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 19
33942701 AAAAAAATTA
33942711 TAAAATATAATATTAAATAT
1 TAAAATATAATATTAAA-AT
33942731 T--AA-A-AATATTAAAAT
1 TAAAATATAATATTAAAAT
*
33942746 TAATATA-AACTTATTAAAAT
1 TAAAATATAA--TATTAAAAT
33942766 TATAAATATATATAT
1 TA-AAATATA-ATAT
33942781 AAATACTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
15 3 0.08
16 9 0.22
17 2 0.05
18 5 0.12
20 12 0.30
21 7 0.17
22 1 0.03
23 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATATAATATTAAAAT
Found at i:33942735 original size:29 final size:29
Alignment explanation
Indices: 33942703--33942803 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
33942693 GAAAAATTAA
33942703 AAAAATTATAAAATATAATATTAAATATT
1 AAAAATTATAAAATATAATATTAAATATT
33942732 AAAAA-TATTAAAAT-TAATA-TAAACTTATT
1 AAAAATTA-TAAAATATAATATTAAA--TATT
33942761 -AAAATTAT-AAATAT-ATATATAAATACTT
1 AAAAATTATAAAATATAATAT-TAAATA-TT
33942789 ATAAATATTATAAAA
1 A-AAA-ATTATAAAA
33942804 ACATAAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 21
0.74 0.00 0.26
Matches are distributed among these distances:
27 13 0.22
28 15 0.25
29 21 0.35
30 3 0.05
31 5 0.08
32 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTATAAAATATAATATTAAATATT
Found at i:33942736 original size:31 final size:31
Alignment explanation
Indices: 33942698--33942803 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 31
33942688 AATTAGAAAA
33942698 ATTAAAAAAATTATAAAATATAATATTAAAT
1 ATTAAAAAAATTATAAAATATAATATTAAAT
*
33942729 ATTAAAAATA-T-TAAAAT-TAATA-TAAA-
1 ATTAAAAAAATTATAAAATATAATATTAAAT
* **
33942755 CTTATTAAAATTAT-AAATAT-ATATATAAAT
1 ATTAAAAAAATTATAAAATATAATAT-TAAAT
* *
33942785 ACTTATAAATATTATAAAA
1 A-TTAAAAAAATTATAAAA
33942804 ACATAAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
26 6 0.10
27 12 0.20
28 7 0.12
29 10 0.17
30 1 0.02
31 20 0.34
32 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTAAAAAAATTATAAAATATAATATTAAAT
Found at i:33942740 original size:16 final size:15
Alignment explanation
Indices: 33942695--33942748 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
33942685 AAAAATTAGA
*
33942695 AAAATTAAAAAAATT
1 AAAATTAAAAATATT
* *
33942710 ATAAAAT-ATAATATT
1 A-AAATTAAAAATATT
33942725 AAATATTAAAAATATT
1 AAA-ATTAAAAATATT
33942741 AAAATTAA
1 AAAATTAA
33942749 TATAAACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 2 0.06
15 15 0.48
16 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAAAAATATT
Found at i:33942821 original size:57 final size:56
Alignment explanation
Indices: 33942667--33942830 Score: 156
Period size: 57 Copynumber: 2.8 Consensus size: 56
33942657 TTTCTCATAA
* * *
33942667 AAATGATTAAAAAT-TTATAAAAATTAGAAAAATTAAAAAAATTATAAAATATAATATT
1 AAAT-ATTAAAAATATTATAAAAA--ATAAAAATTTATAAAATTATAAAATATAATATT
* * *
33942725 AAATATTAAAAATATTA-AAATTAATATAAACTTATTAAAATTAT-AAATAT-ATATAT
1 AAATATTAAAAATATTATAAA-AAATAAAAATTTA-TAAAATTATAAAATATAATAT-T
*
33942781 AAATACTTATAAATATTATAAAAACATAAAAATTTATAAAATTAATAAAA
1 AAATA-TTAAAAATATTATAAAAA-ATAAAAATTTATAAAATT-ATAAAA
33942831 CTTATTTAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
55 4 0.05
56 19 0.22
57 39 0.45
58 22 0.25
59 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (56 bp):
AAATATTAAAAATATTATAAAAAATAAAAATTTATAAAATTATAAAATATAATATT
Found at i:33942904 original size:9 final size:9
Alignment explanation
Indices: 33942663--33942907 Score: 106
Period size: 9 Copynumber: 25.8 Consensus size: 9
33942653 ATTTTTTCTC
*
33942663 ATAAAAATG
1 ATAAAAATT
33942672 ATTAAAAATTT
1 A-TAAAAA-TT
33942683 ATAAAAATT
1 ATAAAAATT
*
33942692 AGAAAAATT
1 ATAAAAATT
*
33942701 AAAAAAATT
1 ATAAAAATT
*
33942710 ATAAAATATA
1 ATAAAA-ATT
*
33942720 ATATTAAA-T
1 ATA-AAAATT
33942729 ATTAAAAA-T
1 A-TAAAAATT
*
33942738 ATTAAAATT
1 ATAAAAATT
*
33942747 AATATAAACTT
1 -ATA-AAAATT
*
33942758 ATTAAAATT
1 ATAAAAATT
33942767 ATAAATATATAT
1 ATAAA-A-AT-T
*
33942779 ATAAATACTT
1 ATAAA-AATT
*
33942789 ATAAATATT
1 ATAAAAATT
*
33942798 ATAAAAA-C
1 ATAAAAATT
33942806 ATAAAAATT
1 ATAAAAATT
33942815 -TATAAAATT
1 ATA-AAAATT
*
33942824 AATAAAACTT
1 -ATAAAAATT
*
33942834 ATTTAAAATT
1 A-TAAAAATT
33942844 A-AAAAATGT
1 ATAAAAAT-T
* * *
33942853 GTTAGAATT
1 ATAAAAATT
*
33942862 CTTAAAAGA-T
1 -ATAAAA-ATT
*
33942872 ATTAAAATT
1 ATAAAAATT
*
33942881 GATATAAACTT
1 -ATA-AAAATT
33942892 ATAAAAATT
1 ATAAAAATT
33942901 ATAAAAA
1 ATAAAAA
33942908 ATCATAAATA
Statistics
Matches: 178, Mismatches: 35, Indels: 46
0.69 0.14 0.18
Matches are distributed among these distances:
8 20 0.11
9 74 0.42
10 56 0.31
11 20 0.11
12 8 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:33943241 original size:10 final size:10
Alignment explanation
Indices: 33943226--33943272 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
33943216 GTTTTATTAA
33943226 TTTTATATTT
1 TTTTATATTT
*
33943236 TTTTATAATT
1 TTTTATATTT
* * *
33943246 TATTAGATTC
1 TTTTATATTT
33943256 TTTTATATTT
1 TTTTATATTT
33943266 TTTTATA
1 TTTTATA
33943273 AATTTTATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATATTT
Found at i:33948188 original size:16 final size:15
Alignment explanation
Indices: 33948164--33948193 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33948154 TTATTTCGTG
33948164 TTTTTATATTATTTA
1 TTTTTATATTATTTA
33948179 TTTTTAATATTATTT
1 TTTTT-ATATTATTT
33948194 TTTAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTATATTATTTA
Found at i:33949741 original size:15 final size:16
Alignment explanation
Indices: 33949714--33949743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33949704 GGTGATGGTA
33949714 TTAGGTATAAATTATT
1 TTAGGTATAAATTATT
33949730 TTAGGT-TAAATTAT
1 TTAGGTATAAATTAT
33949744 GACTGTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
TTAGGTATAAATTATT
Found at i:33950560 original size:51 final size:51
Alignment explanation
Indices: 33950500--33950614 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
33950490 TCCTCTCTAA
*
33950500 TCCTCTCAATTTCCTTCCAAAATTCTCTCGAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
33950551 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
33950602 TCCCCTCAATTTC
1 TCCTCTCAATTTC
33950615 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:33950649 original size:9 final size:10
Alignment explanation
Indices: 33950629--33950679 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
33950619 TTTAAAATAA
33950629 TTTTATATTT
1 TTTTATATTT
33950639 TTTTATATTT
1 TTTTATATTT
* * **
33950649 TTTAAAATAA
1 TTTTATATTT
*
33950659 TTTTAAATTT
1 TTTTATATTT
33950669 TTTTATATTT
1 TTTTATATTT
33950679 T
1 T
33950680 CATCAATGGC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:33950649 original size:30 final size:30
Alignment explanation
Indices: 33950615--33950679 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
33950605 CCTCAATTTC
*
33950615 ATTTTTTAAAATAATTTTATATTTTTTTAT
1 ATTTTTTAAAATAATTTTAAATTTTTTTAT
33950645 ATTTTTTAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAATAATTTTAAATTTTTTTAT
33950675 ATTTT
1 ATTTT
33950680 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTTTTAAAATAATTTTAAATTTTTTTAT
Found at i:33951773 original size:7 final size:7
Alignment explanation
Indices: 33951761--33951785 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33951751 AGTCGATTGA
33951761 TATTTAG
1 TATTTAG
33951768 TATTTAG
1 TATTTAG
33951775 TATTTAG
1 TATTTAG
33951782 TATT
1 TATT
33951786 ATGCATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33952903 original size:25 final size:25
Alignment explanation
Indices: 33952875--33952943 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
33952865 TTTAAATTTA
*
33952875 TTATCTGATGTAATAAAATACAAGT
1 TTATTTGATGTAATAAAATACAAGT
* * *
33952900 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATACAAGT
*
33952925 TCTGTTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
33952944 ATCCTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 22 0.61
26 14 0.39
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATACAAGT
Found at i:33952962 original size:18 final size:18
Alignment explanation
Indices: 33952939--33953208 Score: 121
Period size: 18 Copynumber: 15.9 Consensus size: 18
33952929 TTTGATGTAA
* * *
33952939 TAAAAATCCTAATTTGAT
1 TAAAAACCCTAACTTAAT
33952957 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
33952975 TAAAAACCCTAACCCT-A-
1 TAAAAACCCTAA-CTTAAT
*
33952992 T------CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
33953004 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
**
33953022 TAAAAACCCTAAC---CC
1 TAAAAACCCTAACTTAAT
33953037 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
33953051 TAAAAACCCTAAC-T--C
1 TAAAAACCCTAACTTAAT
*
33953066 T---AA-CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
33953080 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
33953098 TAAAAACCCTAACCCTAATCTAATT
1 TAAAAACCCTAA--C---T-TAA-T
33953123 TAATTAAAACCCTAACTTAAT
1 T-A--AAAACCCTAACTTAAT
**
33953144 TAAAAACCCTAAC---CC
1 TAAAAACCCTAACTTAAT
33953159 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
33953173 TAAAAACCCTAACATAAT
1 TAAAAACCCTAACTTAAT
33953191 TAAAAACCCTAACCTTAA
1 TAAAAACCCTAA-CTTAA
33953209 CCTAATTTAA
Statistics
Matches: 190, Mismatches: 21, Indels: 81
0.65 0.07 0.28
Matches are distributed among these distances:
10 1 0.01
11 23 0.12
12 8 0.04
14 3 0.02
15 3 0.02
17 8 0.04
18 112 0.59
19 6 0.03
20 2 0.01
21 2 0.01
22 3 0.02
23 2 0.01
24 3 0.02
25 2 0.01
26 2 0.01
28 10 0.05
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:33952998 original size:47 final size:47
Alignment explanation
Indices: 33952944--33953064 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
33952934 TGTAATAAAA
*
33952944 ATCCTAATTTGATTAAAAACCCTAACTTAATTAAAAACCCTAACCCT
1 ATCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCT
33952991 ATCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCT
1 ATCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCT
* *
33953038 AACCTAACTTAATTAAAAACCCTAACT
1 ATCCTAATTTAATTAAAAACCCTAACT
33953065 CTAACCTAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (47 bp):
ATCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCT
Found at i:33953091 original size:47 final size:47
Alignment explanation
Indices: 33953040--33953662 Score: 543
Period size: 47 Copynumber: 13.0 Consensus size: 47
33953030 CTAACCCTAA
*
33953040 CCTAACTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
33953087 CCTAACTTAATTAAAAACCCTAACCCTAATCTAATTTAATT-AAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
33953133 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
* *
33953180 CCTAACATAATTAAAAACCCTAACCTTAACCTAATTTAATT-AAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
* * * * *
33953226 TCTAACTTAATTAAAAGCCGTAACCCTAACCTCACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
* * *
33953273 CCTAACTTAATTAAAAACACTAACCCTAATCTAACTTAATTAAAAATCCTAACCC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AA--C
***
33953328 TAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACA-T-AATTT
1 ---CCTAACTTAATTAAAAACCCTAACCCTAACCTAA-TTTA-ATTAAAAAC
** ** * * * ** * * *
33953378 GATAA-TT--TTACTAACCATTAACAC--A-TTTGTTGGACTTAATAA-
1 CCTAACTTAATTAAAAACC-CTAACCCTAACCTAATT-TAATTAAAAAC
** * * **** * *
33953420 TTTTACATAATTTGATAATTTTACTAACCATTAAAACCTTAACTTAATTAAAAAC
1 CCTAACTTAA-TT-A-AA-AACCCTAACC-CT--AACC-TAATTTAATTAAAAAC
* * *
33953475 TCTAACTTAATTAAAAACTCTAACCCTAACTTAATTTAATT-AAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
33953521 CCTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATT-AAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
33953567 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
* *
33953614 CCTAACTTAATTAAAAACCATAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
33953661 CC
1 CC
33953663 CAACCCTAAC
Statistics
Matches: 466, Mismatches: 75, Indels: 70
0.76 0.12 0.11
Matches are distributed among these distances:
41 2 0.00
42 5 0.01
43 3 0.01
44 7 0.02
45 5 0.01
46 175 0.38
47 188 0.40
48 7 0.02
49 3 0.01
50 1 0.00
51 6 0.01
52 2 0.00
53 4 0.01
54 9 0.02
55 10 0.02
56 2 0.00
58 32 0.07
59 4 0.01
60 1 0.00
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:33953093 original size:29 final size:29
Alignment explanation
Indices: 33953011--33953093 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
33953001 AATTAAAAAC
*
33953011 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACTCTAA
33953040 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACTCTAA
*
33953069 CCTAATTTAATTAAAAACCCTAACT
1 CCTAACTTAATTAAAAACCCTAACT
33953094 TAATTAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACTCTAA
Found at i:33953162 original size:93 final size:93
Alignment explanation
Indices: 33953040--33953662 Score: 559
Period size: 93 Copynumber: 6.5 Consensus size: 93
33953030 CTAACCCTAA
* *
33953040 CCTAACTTAATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
33953105 CCTAACCCTAATCTAATTTAATTAAAAC
66 CCTAACCCTAATCTAATTTAATTAAAAC
*
33953133 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACATAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
* *
33953198 CCTAACCTTAACCTAATTTAATTAAAAC
66 CCTAACCCTAATCTAATTTAATTAAAAC
* * * *
33953226 TCTAACTTAATTAAAAGCCGTAACCCTAACCTCACTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
* *
33953291 ACTAACCCTAATCTAACTTAATTAAAAATCCTAACCC
66 CCTAACCCTAATCTAATTTAATT---AA----AA--C
* ** *
33953328 TAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA-TT--TTACATAA-TTTGA--TAATTTT
1 ---CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTA-AAAACCCTAACTTAA--TT
** * * ** * *
33953387 ACTAACCATTAACAC--AT-TTGTTGGACTTAATAA-
60 AAAAACC-CTAACCCTAATCTAATT-TAATTAA-AAC
** * * **** * *
33953420 TTTTACATAATTTGATAATTTTACTAACCATTAAAACCTTAACTTAATTAAAAACTCTAACTTAA
1 CCTAACTTAA-TT-A-AA-AACCCTAACC-CT--AACC-TAACTTAATTAAAAACCCTAACTTAA
*
33953485 TTAAAAACTCTAACCCTAA-CTTAATTTAATTAAAAC
58 TTAAAAACCCTAACCCTAATC-TAATTTAATTAAAAC
* *
33953521 CCTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATT-AAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
* *
33953585 CCTAACCCTAACCTAACTTAATTAAAAAC
66 CCTAACCCTAATCTAATTTAATT-AAAAC
*
33953614 CCTAACTTAATTAAAAACCATAACCCTAACCTAACTTAATTAAAAACCC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCC
33953663 CAACCCTAAC
Statistics
Matches: 422, Mismatches: 69, Indels: 77
0.74 0.12 0.14
Matches are distributed among these distances:
89 6 0.01
90 2 0.00
91 1 0.00
92 43 0.10
93 226 0.54
94 12 0.03
95 3 0.01
96 7 0.02
97 9 0.02
98 6 0.01
99 9 0.02
100 23 0.05
101 17 0.04
102 18 0.04
103 8 0.02
104 2 0.00
105 30 0.07
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (93 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAATCTAATTTAATTAAAAC
Found at i:33953282 original size:18 final size:18
Alignment explanation
Indices: 33953259--33953296 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33953249 CCCTAACCTC
*
33953259 ACTTAATTAAAAACCCTA
1 ACTTAATTAAAAACACTA
33953277 ACTTAATTAAAAACACTA
1 ACTTAATTAAAAACACTA
33953295 AC
1 AC
33953297 CCTAATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
ACTTAATTAAAAACACTA
Found at i:33953316 original size:29 final size:28
Alignment explanation
Indices: 33953273--33953364 Score: 148
Period size: 29 Copynumber: 3.2 Consensus size: 28
33953263 AATTAAAAAC
33953273 CCTAACTTAATTAAAAACACTAACCCTAA
1 CCTAACTTAATTAAAAAC-CTAACCCTAA
*
33953302 TCTAACTTAATTAAAAATCCTAACCCTAA
1 CCTAACTTAATTAAAAA-CCTAACCCTAA
33953331 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAA-CCTAACCCTAA
33953360 CCTAA
1 CCTAA
33953365 TTTTACATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 58 0.98
30 1 0.02
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (28 bp):
CCTAACTTAATTAAAAACCTAACCCTAA
Found at i:33953524 original size:22 final size:22
Alignment explanation
Indices: 33953496--33953625 Score: 111
Period size: 22 Copynumber: 5.7 Consensus size: 22
33953486 TAAAAACTCT
33953496 AACCCTAACTTAATTTAATTAA
1 AACCCTAACTTAATTTAATTAA
* * **
33953518 AACCCTAACTTAATTAAAAACTCT
1 AACCCTAACTTAATT--TAATTAA
*
33953542 AACCCTAACCTAATTTAATTAA
1 AACCCTAACTTAATTTAATTAA
*
33953564 AACCCTAACTTAA-TTAA-AAA
1 AACCCTAACTTAATTTAATTAA
* *
33953584 CCCTAACCCTAACCTAACTTAATTAAA
1 ----AACCCTAACTTAATTTAATT-AA
33953611 AACCCTAACTTAATT
1 AACCCTAACTTAATT
33953626 AAAAACCATA
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.02
21 4 0.05
22 30 0.36
23 13 0.15
24 29 0.35
25 4 0.05
27 2 0.02
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (22 bp):
AACCCTAACTTAATTTAATTAA
Found at i:33953585 original size:18 final size:18
Alignment explanation
Indices: 33953452--33953637 Score: 96
Period size: 18 Copynumber: 10.6 Consensus size: 18
33953442 ACTAACCATT
*
33953452 AAAACCTTAACTTAATTA
1 AAAACCCTAACTTAATTA
*
33953470 AAAACTCTAACTTAATTAAA
1 AAAACCCTAACTTAATT--A
33953490 AACTCTAACCCTAACTTAATTTAA
1 AA----AACCCTAACTTAA-TT-A
33953514 TTAAAACCCTAACTTAATTA
1 --AAAACCCTAACTTAATTA
* **
33953534 AAAACTCTAAC---CCT-
1 AAAACCCTAACTTAATTA
*
33953548 --AA-CCTAATTTAATT-
1 AAAACCCTAACTTAATTA
33953562 AAAACCCTAACTTAATTA
1 AAAACCCTAACTTAATTA
**
33953580 AAAACCCTAAC---CCT-
1 AAAACCCTAACTTAATTA
33953594 --AA-CCTAACTTAATTA
1 AAAACCCTAACTTAATTA
33953609 AAAACCCTAACTTAATTA
1 AAAACCCTAACTTAATTA
*
33953627 AAAACCATAAC
1 AAAACCCTAAC
33953638 CCTAACCTAA
Statistics
Matches: 129, Mismatches: 16, Indels: 46
0.68 0.08 0.24
Matches are distributed among these distances:
11 10 0.08
12 4 0.03
14 2 0.02
15 2 0.02
16 2 0.02
17 13 0.10
18 59 0.46
20 4 0.03
21 2 0.02
22 13 0.10
24 14 0.11
25 2 0.02
26 2 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAACCCTAACTTAATTA
Found at i:33953609 original size:29 final size:29
Alignment explanation
Indices: 33953567--33953695 Score: 118
Period size: 29 Copynumber: 4.8 Consensus size: 29
33953557 TAATTAAAAC
33953567 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
33953596 CCTAACTTAATTAAAAACCCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *** *
33953624 -TTAA---AAACCATAACCCTAA------
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
33953643 CCTAACTTAATTAAAAACCCCAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
33953672 CCTAACTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
33953696 TTAATTAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
20 3 0.04
23 10 0.13
24 11 0.14
27 3 0.04
28 4 0.05
29 46 0.60
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:33953694 original size:47 final size:47
Alignment explanation
Indices: 33953643--33953742 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
33953633 ATAACCCTAA
*
33953643 CCTAACTTAATTAAAAACCCCAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACACCAACCCTAACCTAACTTAATTAAAAAC
*
33953690 CCTAACTTAATTAAAAACACTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACACCAACCCTAACCTAACTTAATTAAAAAC
33953737 CCTAAC
1 CCTAAC
33953743 CCTAACCTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACACCAACCCTAACCTAACTTAATTAAAAAC
Found at i:33953695 original size:18 final size:18
Alignment explanation
Indices: 33953672--33953713 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
33953662 CCAACCCTAA
33953672 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
33953690 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
33953708 ACTAAC
1 CCTAAC
33953714 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:33953732 original size:29 final size:29
Alignment explanation
Indices: 33953690--33953752 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
33953680 AATTAAAAAC
33953690 CCTAACTTAATTAAAAACACTAACCCTAA
1 CCTAACTTAATTAAAAACACTAACCCTAA
*
33953719 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACACTAACCCTAA
33953748 CCTAA
1 CCTAA
33953753 TTTTACATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACACTAACCCTAA
Found at i:33953798 original size:388 final size:376
Alignment explanation
Indices: 33953067--33954120 Score: 1546
Period size: 388 Copynumber: 2.8 Consensus size: 376
33953057 CCCTAACTCT
33953067 AACC-TAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA-TCTAATTTAATTAA
1 AACCTTAA-TTAATTAAAAA-CCTAACTTAATTAAAAACCCTAACCCTAACT-TAATTTAATTAA
* *
33953130 AACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACATAATTAAA
63 AACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT-AAAACCCTAACTTAATTAAA
* * * * * *
33953195 AACCCTAACCTTAACCTAATTTAATT-AAAACTCTAACTTAATTAAAAGCCGTAACCCTAACCTC
127 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTA
*
33953259 ACTTAATTAAAAACCCTAACTTAATTAAAAACACTAACCCTAATCTAACTTAATTAAAAATCCTA
192 ACTTAATTAAAAACCCTAACTTAATT-AAAA-ACTAA--CTAACCTAACTTAATTAAAAA-CCTA
33953324 ACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACATAATTTGATAATTTTAC
252 ACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACATAATTTGATAATTTTAC
*
33953389 TAACCATTAACACATTTGTTGGACTTAATAATTTTACATAATTTGATAATTTTACTAACC
317 TAACCATTAACACAATTGTTGGACTTAATAATTTTACATAATTTGATAATTTTACTAACC
*
33953449 ATTAAAACCTTAACTTAATTAAAAACTCTAACTTAATTAAAAACTCTAACCCTAACTTAATTTAA
1 -----AACCTTAA-TTAATTAAAAAC-CTAACTTAATTAAAAACCCTAACCCTAACTTAATTTAA
*
33953514 TTAAAACCCTAACTTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATT
59 TTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATT
33953579 AAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAAC
124 AAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAAC
* * * * * *
33953644 CTAACTTAATTAAAAACCCCAACCCTAACCTAACTTAATTAA-AAACCCTAACTTAATTAAAAAC
189 CTAACTTAATTAAAAACCCTAA-CTTAA-TTAA--AAACTAACTAA-CCTAACTTAATTAAAAAC
33953708 ACTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACATAATTTGATAATT
249 -CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACATAATTTGATAATT
33953773 TTACTAACCATTAACACAATTGTTGGACTTAATAATTTTACATAATTTGATAATTTTACTAACC
313 TTACTAACCATTAACACAATTGTTGGACTTAATAATTTTACATAATTTGATAATTTTACTAACC
*
33953837 -A--TTAA--AA-T-----CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAC
1 AACCTTAATTAATTAAAAACCTAACTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAC
33953891 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAAAACC
66 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAAAACC
* *
33953956 CTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
131 CTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTAACTT
33954021 AATT-AAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCC
196 AATTAAAAACCCTAACTTAATTAAAAA--CTAA--CTAACCTAACTTAATTAAAAA-CCTAACCC
* *
33954085 TAACCTAACTTAATTAAAAATCGTAACCCTAACCTA
256 TAACCTAACTTAATTAAAAACCCTAACCCTAACCTA
33954121 CTTTAATTAA
Statistics
Matches: 619, Mismatches: 32, Indels: 50
0.88 0.05 0.07
Matches are distributed among these distances:
365 2 0.00
367 6 0.01
368 4 0.01
369 67 0.11
370 177 0.29
371 1 0.00
376 1 0.00
377 2 0.00
380 4 0.01
382 1 0.00
387 51 0.08
388 290 0.47
389 7 0.01
390 5 0.01
391 1 0.00
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (376 bp):
AACCTTAATTAATTAAAAACCTAACTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAC
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAAAACC
CTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCATAACCCTAACCTAACTT
AATTAAAAACCCTAACTTAATTAAAAACTAACTAACCTAACTTAATTAAAAACCTAACCCTAACC
TAACTTAATTAAAAACCCTAACCCTAACCTAATTTTACATAATTTGATAATTTTACTAACCATTA
ACACAATTGTTGGACTTAATAATTTTACATAATTTGATAATTTTACTAACC
Found at i:33953889 original size:46 final size:46
Alignment explanation
Indices: 33953837--33954186 Score: 502
Period size: 46 Copynumber: 7.3 Consensus size: 46
33953827 TTTACTAACC
*
33953837 ATTAAAATCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
33953883 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
*
33953929 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTA
1 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
33953975 ATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 ATT-AAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
*
33954022 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTA
1 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
* * *
33954068 ATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAATCGTAACCCTAACCTACTTTA
1 ATT---AA----AA--C---CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
* *
33954126 ATTAAAACCCTAACTTAATTAAAAACACTAACCCTAACCTAACTTA
1 ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
33954172 ATTAAAAACCCTAAC
1 ATT-AAAACCCTAAC
33954187 CCTAACCTAA
Statistics
Matches: 277, Mismatches: 13, Indels: 27
0.87 0.04 0.09
Matches are distributed among these distances:
46 174 0.63
47 56 0.20
49 3 0.01
51 2 0.01
53 2 0.01
55 3 0.01
58 37 0.13
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (46 bp):
ATTAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTA
Found at i:33954016 original size:29 final size:29
Alignment explanation
Indices: 33953984--33954139 Score: 115
Period size: 29 Copynumber: 5.8 Consensus size: 29
33953974 AATTAAAAAC
33953984 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
33954013 CCTAATTTAATT-AAAACCCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *****
33954040 -TTAA---AAACCCTAACCCTAA-CCT-A
1 CCTAACTTAATTAAAAACCCTAACCCTAA
33954063 ----ACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
33954088 CCTAACTTAATTAAAAATCGTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
33954117 CCT-ACTTTAATT-AAAACCCTAAC
1 CCTAAC-TTAATTAAAAACCCTAAC
33954140 TTAATTAAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.01
23 13 0.13
24 13 0.13
25 1 0.01
26 3 0.03
27 4 0.04
28 21 0.21
29 43 0.43
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:33954113 original size:35 final size:29
Alignment explanation
Indices: 33954030--33954139 Score: 179
Period size: 29 Copynumber: 3.8 Consensus size: 29
33954020 TAATTAAAAC
33954030 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
33954059 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
33954088 CCTAACTTAATTAAAAATCGTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
33954117 CCT-ACTTTAATT-AAAACCCTAAC
1 CCTAAC-TTAATTAAAAACCCTAAC
33954140 TTAATTAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
28 11 0.14
29 65 0.86
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:33954138 original size:75 final size:75
Alignment explanation
Indices: 33953937--33954196 Score: 332
Period size: 75 Copynumber: 3.5 Consensus size: 75
33953927 TAATTAAAAC
33953937 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATT-AAAACCCTAACTTAATTAAAAAC
33954002 CCTAACCCTAA
65 CCTAACCCTAA
* * * * ****
33954013 CCTAATTTAATT-AAAACCCTAA-CTTAA-TTAAAAACCCTAACCCTAA-CCTAACTTAATTAAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCT---AA-CTTAATTAAAACCCTAACTTAATTAAA
33954074 AACCCTAACCCTAA
62 AACCCTAACCCTAA
* *
33954088 CCTAACTTAATTAAAAATCGTAACCCTAACCT-ACTTTAATTAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAAC-TTAATTAAAACCCTAACTTAATTAAAAAC
*
33954152 ACTAACCCTAA
65 CCTAACCCTAA
33954163 CCTAACTTAATTAAAAACCCTAACCCTAACCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAA
33954197 TTTTACATAA
Statistics
Matches: 153, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
73 2 0.01
74 10 0.07
75 108 0.71
76 24 0.16
77 8 0.05
78 1 0.01
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (75 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAACCCTAACTTAATTAAAAACC
CTAACCCTAA
Found at i:33954150 original size:18 final size:17
Alignment explanation
Indices: 33954123--33954157 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33954113 CTAACCTACT
*
33954123 TTAATTAAAACCCTAAC
1 TTAATTAAAACACTAAC
33954140 TTAATTAAAAACACTAAC
1 TTAATT-AAAACACTAAC
33954158 CCTAACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAATTAAAACACTAAC
Found at i:33954176 original size:29 final size:29
Alignment explanation
Indices: 33954134--33954196 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
33954124 TAATTAAAAC
33954134 CCTAACTTAATTAAAAACACTAACCCTAA
1 CCTAACTTAATTAAAAACACTAACCCTAA
*
33954163 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACACTAACCCTAA
33954192 CCTAA
1 CCTAA
33954197 TTTTACATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACACTAACCCTAA
Done.