Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 24 of 128
Found at i:7268455 original size:37 final size:35
Alignment explanation
Indices: 7268396--7268471 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 35
7268386 TTTTTTATTC
7268396 TTTTTTCTTTTTTTCTTTTTCTTCTATTTC-TTCTA
1 TTTTTTCTTTTTTTCTTTTTCTT-TATTTCTTTCTA
*
7268431 TTTTTTCTTTTTCTTTCTTTTTCTTTTTTTCTTTCTA
1 TTTTTTC-TTTT-TTTCTTTTTCTTTATTTCTTTCTA
7268468 TTTT
1 TTTT
7268472 CTTTCTTCCC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 7 0.19
36 9 0.24
37 21 0.57
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTTTTCTTTTTTTCTTTTTCTTTATTTCTTTCTA
Found at i:7268609 original size:20 final size:20
Alignment explanation
Indices: 7268586--7268623 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7268576 TTTTTTTCTC
7268586 TTTT-CTTTCTCTCCTTTCCT
1 TTTTCCTTTCTCT-CTTTCCT
7268606 TTTTCCTTTCTCTCTTTC
1 TTTTCCTTTCTCTCTTTC
7268624 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTCCTTTCTCTCTTTCCT
Found at i:7268626 original size:12 final size:12
Alignment explanation
Indices: 7268571--7268629 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
7268561 CCGGTATCTC
*
7268571 CTCTCTTTTTTT
1 CTCTCTTTCTTT
7268583 CTCT-TTTCTTT
1 CTCTCTTTCTTT
7268594 CTCTC---CTTT
1 CTCTCTTTCTTT
*
7268603 C-CTTTTTCCTTT
1 CTCTCTTT-CTTT
7268615 CTCTCTTTCTTT
1 CTCTCTTTCTTT
7268627 CTC
1 CTC
7268630 CCCTCTTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
11 10 0.26
12 16 0.42
13 5 0.13
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
CTCTCTTTCTTT
Found at i:7268876 original size:15 final size:15
Alignment explanation
Indices: 7268858--7268888 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7268848 TGTTTGTAGT
7268858 GGTGGTGGTGGTTGC
1 GGTGGTGGTGGTTGC
*
7268873 GGTGGTGGTGTTTGC
1 GGTGGTGGTGGTTGC
7268888 G
1 G
7268889 CGAGGGTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.58, T:0.35
Consensus pattern (15 bp):
GGTGGTGGTGGTTGC
Found at i:7269262 original size:30 final size:30
Alignment explanation
Indices: 7269184--7269301 Score: 125
Period size: 29 Copynumber: 4.0 Consensus size: 30
7269174 TTTCTGGGGA
* * * *
7269184 AAAATGTAATTTTAAGAAA-ATACGGGGCC
1 AAAATGAAATTTTAAGAAAGTTAAGGGGTC
*
7269213 AAAATGTAATTTT-AGAAAGTTAAGGGGTC
1 AAAATGAAATTTTAAGAAAGTTAAGGGGTC
7269242 AAAATGAAATTTTAAGAAAGTTAAGGGGTC
1 AAAATGAAATTTTAAGAAAGTTAAGGGGTC
* * *
7269272 AAGAT-ACAATTTTGAAAAAAGTTTAGGGGT
1 AAAATGA-AATTTT-AAGAAAGTTAAGGGGT
7269302 TGAAATGTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 5 0.06
29 33 0.42
30 26 0.33
31 14 0.18
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTTAAGAAAGTTAAGGGGTC
Found at i:7282797 original size:36 final size:35
Alignment explanation
Indices: 7282732--7282800 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
7282722 AAAAAAATAG
*
7282732 TAAAAATAACAATAAAAAAAGAATTATATAATATC
1 TAAAAATAACAATAAAAAAAGAATAATATAATATC
* * *
7282767 TAAATAATAACAATAAAATATGAGTAATATAATA
1 TAAA-AATAACAATAAAAAAAGAATAATATAATA
7282801 GCAAAATGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (35 bp):
TAAAAATAACAATAAAAAAAGAATAATATAATATC
Found at i:7283336 original size:2 final size:2
Alignment explanation
Indices: 7283329--7283354 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7283319 GTTTTATGTG
7283329 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7283355 ATTAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7290070 original size:30 final size:30
Alignment explanation
Indices: 7290034--7290094 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
7290024 AAGTTTGCAG
7290034 ACTAAAAAAATCTTTCTATTGTCTCAAACA
1 ACTAAAAAAATCTTTCTATTGTCTCAAACA
*
7290064 ACTAAAAAAATTTTTCTATTGTCTCAAACA
1 ACTAAAAAAATCTTTCTATTGTCTCAAACA
7290094 A
1 A
7290095 GCTCCAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.34
Consensus pattern (30 bp):
ACTAAAAAAATCTTTCTATTGTCTCAAACA
Found at i:7291304 original size:30 final size:30
Alignment explanation
Indices: 7291268--7291328 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
7291258 CCCTATGGAA
7291268 AATGATTTACATGCATAAAGTTGAGTTCTT
1 AATGATTTACATGCATAAAGTTGAGTTCTT
*
7291298 AATGATTTACATGTATAAAGTTGAGTTCTT
1 AATGATTTACATGCATAAAGTTGAGTTCTT
7291328 A
1 A
7291329 CTCTTAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (30 bp):
AATGATTTACATGCATAAAGTTGAGTTCTT
Found at i:7291419 original size:87 final size:86
Alignment explanation
Indices: 7291315--7291478 Score: 247
Period size: 87 Copynumber: 1.9 Consensus size: 86
7291305 TACATGTATA
* * * *
7291315 AAGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGATCCTATTGAGACAAACT
1 AAGTTAAGTTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAACT
*
7291380 TTATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
* * *
7291401 AAGTTAAGTTTCTTACTCTTAATCAGTTAATATCCCAAAGTTTGGGTGGTCCTATTGAGACTAAC
1 AAGTTAAG-TTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAAC
7291466 TTGATGAATTCAC
65 TTGATGAATTCAC
7291479 CGAACTTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
86 7 0.10
87 62 0.90
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (86 bp):
AAGTTAAGTTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAACT
TGATGAATTCACTGACATGTG
Found at i:7314331 original size:26 final size:26
Alignment explanation
Indices: 7314300--7314353 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
7314290 AATGCATTAA
7314300 GGAATGATTGCATTGCATATGCATGT
1 GGAATGATTGCATTGCATATGCATGT
*
7314326 GGAATGATTGCGTTGCATATGCATGT
1 GGAATGATTGCATTGCATATGCATGT
7314352 GG
1 GG
7314354 GGAGGACGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.33
Consensus pattern (26 bp):
GGAATGATTGCATTGCATATGCATGT
Found at i:7317808 original size:69 final size:69
Alignment explanation
Indices: 7317728--7317885 Score: 199
Period size: 69 Copynumber: 2.3 Consensus size: 69
7317718 GATGTACATA
* * * * *
7317728 ACCATGGTTGGACCATGGTAATGTTTACATAAGACCATAGCGAGACTATGATAGTTTTTCAGATG
1 ACCATGGTTGGACCATGGCAATATTCACATAAAACCATAGCGAGACTATAATAGTTTTTCAGATG
7317793 CAAG
66 CAAG
* * * **
7317797 ACCATGGTTGGACCATGGCAATATTCACGTAAAACCATAGCGAGGCTATAATAGTTTTTCATACA
1 ACCATGGTTGGACCATGGCAATATTCACATAAAACCATAGCGAGACTATAATAGTTTTTCAGATG
*
7317862 TAAG
66 CAAG
**
7317866 GTCATGGTTGGACCATGGCA
1 ACCATGGTTGGACCATGGCA
7317886 GTGTATATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (69 bp):
ACCATGGTTGGACCATGGCAATATTCACATAAAACCATAGCGAGACTATAATAGTTTTTCAGATG
CAAG
Found at i:7322894 original size:20 final size:19
Alignment explanation
Indices: 7322844--7322906 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
7322834 TAAATTCTGA
*
7322844 AATTTTTATAAATATTTTG
1 AATTTTTAAAAATATTTTG
*
7322863 AA-TTTCAAAAATCATTTTG
1 AATTTTTAAAAAT-ATTTTG
7322882 AATTTTTAAAAATTATTTTG
1 AATTTTTAAAAA-TATTTTG
7322902 AATTT
1 AATTT
7322907 CTTTTTGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 8 0.21
19 10 0.26
20 19 0.50
21 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (19 bp):
AATTTTTAAAAATATTTTG
Found at i:7324941 original size:21 final size:22
Alignment explanation
Indices: 7324911--7324961 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
7324901 ATATTGTATA
*
7324911 ATTTTTTAAATTA-ATAAA-AT
1 ATTTTTTAAAATATATAAATAT
7324931 ATTTTATTAAAATATATAAATAT
1 ATTTT-TTAAAATATATAAATAT
7324954 ATTATTTT
1 ATT-TTTT
7324962 GTTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 5 0.19
23 7 0.27
24 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTTTAAAATATATAAATAT
Found at i:7325411 original size:28 final size:30
Alignment explanation
Indices: 7325362--7325418 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
7325352 TTTCTCATAA
7325362 AAATCATAAAAAAAGAGGAAAAAATTATAC
1 AAATCATAAAAAAAGAGGAAAAAATTATAC
* *
7325392 AAATCA-AAAAAAATA-TAAAAAATTATA
1 AAATCATAAAAAAAGAGGAAAAAATTATA
7325419 AATTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (30 bp):
AAATCATAAAAAAAGAGGAAAAAATTATAC
Found at i:7325927 original size:10 final size:9
Alignment explanation
Indices: 7325885--7325939 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
7325875 NNNNNNNNNA
7325885 TATAAAAA-
1 TATAAAAAT
7325893 TATAAAAAT
1 TATAAAAAT
7325902 TATAATAAAT
1 TATAA-AAAT
*
7325912 TCTAAAAATT
1 TATAAAAA-T
*
7325922 TATAAAACT
1 TATAAAAAT
*
7325931 AATAAAAAT
1 TATAAAAAT
7325940 ATATTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 8 0.21
9 16 0.41
10 15 0.38
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:7330292 original size:21 final size:21
Alignment explanation
Indices: 7330254--7330293 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7330244 TAACCTTTCC
*
7330254 ATTAAAGCTTATGTTGCTAAA
1 ATTAAAGATTATGTTGCTAAA
7330275 ATTAAAGATT-TGTGTGCTA
1 ATTAAAGATTATGT-TGCTA
7330294 TGTTAGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTAAAGATTATGTTGCTAAA
Found at i:7335245 original size:15 final size:15
Alignment explanation
Indices: 7335201--7335253 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
7335191 AATTTAAATT
7335201 AAATTATAAAATTAAA
1 AAATTA-AAAATTAAA
* **
7335217 AAAATAAAGGTTAAA
1 AAATTAAAAATTAAA
*
7335232 AAATTAAATATTAAA
1 AAATTAAAAATTAAA
*
7335247 AATTTAA
1 AAATTAA
7335254 GTACTAAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 25 0.83
16 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
AAATTAAAAATTAAA
Found at i:7335481 original size:15 final size:14
Alignment explanation
Indices: 7335452--7335487 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
7335442 ATAATATAAT
7335452 ATTAAAATAAATTA
1 ATTAAAATAAATTA
*
7335466 ATTAAAATTGAATTA
1 ATTAAAA-TAAATTA
7335481 ATTAAAA
1 ATTAAAA
7335488 ATATTCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
ATTAAAATAAATTA
Found at i:7335603 original size:180 final size:181
Alignment explanation
Indices: 7335403--7335763 Score: 715
Period size: 180 Copynumber: 2.0 Consensus size: 181
7335393 TCACCTTATT
7335403 CTACGCAAAAATCAAATTTTAAATGTAAATTTTTATAGGATAATATAATATTAAAATAAATTAAT
1 CTACGCAAAAATCAAATTTTAAATGTAAATTTTTATAGGATAATATAATATTAAAATAAATTAAT
7335468 TAAAATTGAATTAATTAAAAATATTCTCCACCAATTGATAAATCTAATTATTTTCCACATTTTTT
66 TAAAATTGAATTAATTAAAAATATTCTCCACCAATTGATAAATCTAATTATTTTCCACATTTTTT
7335533 CTAGAAAAATTCTATCACATTGATTTTATTTTAGATTATTAAACATGCCTA
131 CTAGAAAAATTCTATCACATTGATTTTATTTTAGATTATTAAACATGCCTA
7335584 CTACGC-AAAATCAAATTTTAAATGTAAATTTTTATAGGATAATATAATATTAAAATAAATTAAT
1 CTACGCAAAAATCAAATTTTAAATGTAAATTTTTATAGGATAATATAATATTAAAATAAATTAAT
7335648 TAAAATTGAATTAATTAAAAATATTCTCCACCAATTGATAAATCTAATTATTTTCCACATTTTTT
66 TAAAATTGAATTAATTAAAAATATTCTCCACCAATTGATAAATCTAATTATTTTCCACATTTTTT
7335713 CTAGAAAAATTCTATCACATTGATTTTATTTTAGATTATTAAACATGCCTA
131 CTAGAAAAATTCTATCACATTGATTTTATTTTAGATTATTAAACATGCCTA
7335764 AAAAATTAAA
Statistics
Matches: 180, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
180 174 0.97
181 6 0.03
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (181 bp):
CTACGCAAAAATCAAATTTTAAATGTAAATTTTTATAGGATAATATAATATTAAAATAAATTAAT
TAAAATTGAATTAATTAAAAATATTCTCCACCAATTGATAAATCTAATTATTTTCCACATTTTTT
CTAGAAAAATTCTATCACATTGATTTTATTTTAGATTATTAAACATGCCTA
Found at i:7335661 original size:15 final size:14
Alignment explanation
Indices: 7335632--7335667 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
7335622 ATAATATAAT
7335632 ATTAAAATAAATTA
1 ATTAAAATAAATTA
*
7335646 ATTAAAATTGAATTA
1 ATTAAAA-TAAATTA
7335661 ATTAAAA
1 ATTAAAA
7335668 ATATTCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
ATTAAAATAAATTA
Found at i:7336189 original size:16 final size:15
Alignment explanation
Indices: 7336158--7336188 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7336148 ATTATTAATA
7336158 TAAAATTTTATTTTT
1 TAAAATTTTATTTTT
7336173 TAAAATTTTATTTTT
1 TAAAATTTTATTTTT
7336188 T
1 T
7336189 TTAACAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TAAAATTTTATTTTT
Found at i:7338492 original size:43 final size:43
Alignment explanation
Indices: 7338336--7338493 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
7338326 ATGTGATTTT
7338336 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGA-TTAC
* * * * *
7338380 GTGTAAGACCATGTTTGGGACATCGGCATCG-TA-TACGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTA-GATTAC
*
7338422 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTAGATTAC
* *
7338465 ATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
7338494 TGTAAGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
42 30 0.32
43 34 0.37
44 29 0.31
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTAGATTAC
Found at i:7350120 original size:2 final size:2
Alignment explanation
Indices: 7350113--7350149 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7350103 TTTTAGAATT
*
7350113 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7350150 CCATGTACNN
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7350384 original size:30 final size:27
Alignment explanation
Indices: 7350326--7350384 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
7350316 TACGTGTACA
*
7350326 TATCTATTTTTATATTTTATATTTTTT
1 TATCTATTTTTATATTTTATATTGTTT
7350353 TATCTAGTTTCTT-TATTGTTATTATTGTTT
1 TATCTA-TTT-TTATATT-TTA-TATTGTTT
7350383 TA
1 TA
7350385 CTTGATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.22
28 7 0.26
29 5 0.19
30 9 0.33
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (27 bp):
TATCTATTTTTATATTTTATATTGTTT
Found at i:7351036 original size:108 final size:107
Alignment explanation
Indices: 7350579--7351117 Score: 798
Period size: 107 Copynumber: 5.0 Consensus size: 107
7350569 TCAAAAAAGA
7350579 AAAATTTTCTAAA-TAAGGCAATATTTTG-GATTTGGAAATTCGAGAAAACGTGCCCTAATGTGC
1 AAAA-TTTC-AAAGTAAGGCAATATTTTGCG-TTTGGAAATTCGAGAAAACGTGCCCTAATGTGC
* *
7350642 TGGGTTTCGATTTTTTTGTTCAACCAAATAGCTAAATATCCTTTT
63 TGGGTTTCGATTTTTTCGTTCGACCAAATAGCTAAATATCCTTTT
* * *
7350687 AAAATTTCAAAGTAAGGGAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTAG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* *
7350752 GTTTCGATTTTTTCATTCGACTAAATAGCTAAATATCCTTTT
66 GTTTCGATTTTTTCGTTCGACCAAATAGCTAAATATCCTTTT
*
7350794 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* *
7350859 GTTTCGATTTTTTCGTTCGATCAAATAGCTAAATATTCTTTT
66 GTTTCGATTTTTTCGTTCGACCAAATAGCTAAATATCCTTTT
* *
7350901 AAAAATTCAAAGTAAGGCAATATTTTGCGCTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* *
7350966 GTTTTGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GTTTCGATTTTT-TCGTTCGACCAAATAGCTAAATATCCTTTT
* * **
7351009 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTAGAAATTCGAGGAAACGTGTGCTAATGTGCTGG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
** * * *
7351074 GTTTCGA-TTTCCCGTTTGACCAAATAGGC-AAATATTCTCTT
66 GTTTCGATTTTTTCGTTCGACCAAATA-GCTAAATATCCTTTT
7351115 AAA
1 AAA
7351118 TCTCAGTCCA
Statistics
Matches: 393, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
106 29 0.07
107 267 0.68
108 97 0.25
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (107 bp):
AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
GTTTCGATTTTTTCGTTCGACCAAATAGCTAAATATCCTTTT
Found at i:7352763 original size:21 final size:19
Alignment explanation
Indices: 7352717--7352791 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
7352707 AATCTTCAAG
7352717 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7352736 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7352755 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
7352776 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7352792 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7355871 original size:43 final size:42
Alignment explanation
Indices: 7355775--7355888 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
7355765 AAAACATGCT
* * * * *
7355775 GCTAAAGGTCATGTTCTATAGCGTCATTTGTGGGAAATCAAC
1 GCTAAAGGTCATATTCTATAACGGCATTTGTGGAAAAGCAAC
* * * * *
7355817 GCTAAATGTCATCTTCTTTAATGGCATTTGTAGGAAAAGCACC
1 GCTAAAGGTCATATTCTATAACGGCATTTGT-GGAAAAGCAAC
*
7355860 GCTAAAGGTCATATTCTATAGCGGCATTT
1 GCTAAAGGTCATATTCTATAACGGCATTT
7355889 TTCTACATCA
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (42 bp):
GCTAAAGGTCATATTCTATAACGGCATTTGTGGAAAAGCAAC
Found at i:7362047 original size:42 final size:42
Alignment explanation
Indices: 7361981--7362102 Score: 144
Period size: 42 Copynumber: 2.9 Consensus size: 42
7361971 ACTATCATAT
7361981 ATCGATGCCAATAG-CC-AG-CTATGGTCTTACACGAATCTCAA
1 ATCGATGCCAAT-GTCCTAGAC-ATGGTCTTACACGAATCTCAA
* * *
7362022 ATCGATGCCAATGTCCTAGACATGGTCTTACATGAATCTTAT
1 ATCGATGCCAATGTCCTAGACATGGTCTTACACGAATCTCAA
*
7362064 ATCAATGCCAATGT-CTCAGACATGGTCTTACACGTAATC
1 ATCGATGCCAATGTCCT-AGACATGGTCTTACACG-AATC
7362103 ACATCTCAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
40 1 0.01
41 16 0.23
42 49 0.69
43 5 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCGATGCCAATGTCCTAGACATGGTCTTACACGAATCTCAA
Found at i:7363945 original size:17 final size:17
Alignment explanation
Indices: 7363923--7363957 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7363913 ATGAAGTTGA
7363923 GATTTAGTAGGTTAGTG
1 GATTTAGTAGGTTAGTG
*
7363940 GATTTAGTGGGTTAGTG
1 GATTTAGTAGGTTAGTG
7363957 G
1 G
7363958 GAAGTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (17 bp):
GATTTAGTAGGTTAGTG
Found at i:7364920 original size:13 final size:14
Alignment explanation
Indices: 7364886--7364923 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
7364876 GACATGTTAA
7364886 ATCTGTTATTTCTGT
1 ATCTG-TATTTCTGT
*
7364901 ATTTGTATTT-TGT
1 ATCTGTATTTCTGT
7364914 ATCTGTATTT
1 ATCTGTATTT
7364924 GGGGTGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 5 0.24
15 4 0.19
ACGTcount: A:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (14 bp):
ATCTGTATTTCTGT
Found at i:7366258 original size:22 final size:21
Alignment explanation
Indices: 7366233--7366274 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7366223 GTTTCGTTAA
7366233 TATATCTGATAAGTTAAATTAG
1 TATATCTGATAAG-TAAATTAG
* *
7366255 TATATTTTATAAGTAAATTA
1 TATATCTGATAAGTAAATTA
7366275 CTCCATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (21 bp):
TATATCTGATAAGTAAATTAG
Found at i:7368098 original size:20 final size:21
Alignment explanation
Indices: 7368073--7368112 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7368063 AGCTCCAAGT
7368073 TCAAGTAAAAATGAA-ATAGA
1 TCAAGTAAAAATGAAGATAGA
*
7368093 TCAAGTAAAATTGAAGATAG
1 TCAAGTAAAAATGAAGATAG
7368113 GCTTAGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (21 bp):
TCAAGTAAAAATGAAGATAGA
Found at i:7368956 original size:16 final size:15
Alignment explanation
Indices: 7368935--7368979 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
7368925 TGACCATCTA
7368935 TATCATACTTTTGGTG
1 TATCATA-TTTTGGTG
*
7368951 TATC--ATTTTGTTG
1 TATCATATTTTGGTG
7368964 TATCATATTTT-GTG
1 TATCATATTTTGGTG
7368978 TA
1 TA
7368980 GTAGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.44
14 5 0.20
15 5 0.20
16 4 0.16
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (15 bp):
TATCATATTTTGGTG
Found at i:7369184 original size:21 final size:22
Alignment explanation
Indices: 7369160--7369202 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7369150 TTACATGTAA
* *
7369160 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
7369181 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
7369203 ACTTCGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:7370410 original size:16 final size:16
Alignment explanation
Indices: 7370386--7370417 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7370376 TGCATAAAAA
7370386 GAAACAAAGAAAATAT
1 GAAACAAAGAAAATAT
*
7370402 GAAAGAAAGAAAATAT
1 GAAACAAAGAAAATAT
7370418 AGTGAGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.16, T:0.12
Consensus pattern (16 bp):
GAAACAAAGAAAATAT
Found at i:7374048 original size:11 final size:11
Alignment explanation
Indices: 7374004--7374048 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
7373994 AATAAATAAA
7374004 TATTATTTTAT
1 TATTATTTTAT
*
7374015 TAATATTTTAGT
1 TATTATTTTA-T
*
7374027 GA-TATTTTAT
1 TATTATTTTAT
7374037 TATTATTTTAT
1 TATTATTTTAT
7374048 T
1 T
7374049 TAGTATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.07
11 25 0.86
12 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:7375765 original size:20 final size:20
Alignment explanation
Indices: 7375740--7375779 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7375730 CGTAAAATGA
*
7375740 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7375760 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7375780 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7375769 original size:34 final size:35
Alignment explanation
Indices: 7375725--7375791 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7375715 CAGTAAAATA
*
7375725 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
7375759 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
7375792 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:7375795 original size:14 final size:15
Alignment explanation
Indices: 7375719--7375795 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7375709 GATTGCCAGT
* *
7375719 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
7375733 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
7375747 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
7375767 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
7375782 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
7375796 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:7376904 original size:3 final size:3
Alignment explanation
Indices: 7376896--7376920 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7376886 ATAAAAGTAC
7376896 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7376921 CAAGTCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7384375 original size:29 final size:30
Alignment explanation
Indices: 7384332--7384410 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
7384322 TTGAACTACG
* *
7384332 ATCAAAATTTTATATATATAATTACAC-CAA
1 ATCAAAA-TTCATATATAAAATTACACACAA
*
7384362 ATCAAAATTCATATATAAAATTACACATTAA
1 ATCAAAATTCATATATAAAATTACACA-CAA
* *
7384393 ATCAAAATTGATTTATAA
1 ATCAAAATTCATATATAA
7384411 TTTTAAGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 17 0.40
30 7 0.17
31 18 0.43
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.35
Consensus pattern (30 bp):
ATCAAAATTCATATATAAAATTACACACAA
Found at i:7384412 original size:29 final size:29
Alignment explanation
Indices: 7384332--7384401 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
7384322 TTGAACTACG
*
7384332 ATCAAAATTTTATATATATAATTACACCAA
1 ATCAAAA-TTCATATATATAATTACACCAA
* *
7384362 ATCAAAATTCATATATAAAATTACACATTAA
1 ATCAAAATTCATATATATAATTACAC--CAA
7384393 ATCAAAATT
1 ATCAAAATT
7384402 GATTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 17 0.49
30 7 0.20
31 11 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (29 bp):
ATCAAAATTCATATATATAATTACACCAA
Found at i:7384672 original size:18 final size:19
Alignment explanation
Indices: 7384638--7384697 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
7384628 TTTCAATAAA
7384638 AAAATCATAAAAATTTA-G
1 AAAATCATAAAAATTTATG
*
7384656 AAAAT-ATATAAATTTTATG
1 AAAATCATA-AAAATTTATG
**
7384675 AAAATTTTCAAAAA-TTATG
1 AAAATCAT-AAAAATTTATG
7384694 AAAA
1 AAAA
7384698 ATTAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 12 0.34
19 15 0.43
20 4 0.11
21 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAATCATAAAAATTTATG
Found at i:7388980 original size:10 final size:10
Alignment explanation
Indices: 7388965--7388989 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7388955 TGGGATGGTC
7388965 AAGGTAATCA
1 AAGGTAATCA
7388975 AAGGTAATCA
1 AAGGTAATCA
7388985 AAGGT
1 AAGGT
7388990 CACAACTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (10 bp):
AAGGTAATCA
Found at i:7399858 original size:3 final size:3
Alignment explanation
Indices: 7399850--7399880 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7399840 GATAGAATGT
7399850 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
7399881 CAAAGCTGTA
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7400338 original size:17 final size:17
Alignment explanation
Indices: 7400297--7400339 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7400287 TTTGTGGGAT
7400297 TAATATAGTGATAATGAC
1 TAAT-TAGTGATAATGAC
**
7400315 TCCTTAGTGATAATGAC
1 TAATTAGTGATAATGAC
7400332 TAATTAGT
1 TAATTAGT
7400340 TAACTGGAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (17 bp):
TAATTAGTGATAATGAC
Found at i:7415646 original size:16 final size:17
Alignment explanation
Indices: 7415613--7415650 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7415603 TACTTTTGTA
* *
7415613 ATATATTTATTTATTTT
1 ATATATTTATATAATTT
7415630 ATATA-TTATATAATTT
1 ATATATTTATATAATTT
7415646 ATATA
1 ATATA
7415651 CATAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATATTTATATAATTT
Found at i:7436686 original size:15 final size:15
Alignment explanation
Indices: 7436666--7436695 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7436656 TTCTAATTTT
*
7436666 TTTTAAATTTTAAAA
1 TTTTAAATTTCAAAA
7436681 TTTTAAATTTCAAAA
1 TTTTAAATTTCAAAA
7436696 CATCAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAATTTCAAAA
Found at i:7437971 original size:24 final size:24
Alignment explanation
Indices: 7437944--7438006 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
7437934 TGGTCTCTAT
7437944 ATTTTTTTCGTTT-TGAGCTATTTA
1 ATTTTTTTCGTTTATGAGCT-TTTA
* **
7437968 ATTTTTTTTCTTTTATGTTCTTTTA
1 A-TTTTTTTCGTTTATGAGCTTTTA
7437993 ATTTTTTTC-TTTAT
1 ATTTTTTTCGTTTAT
7438007 TTTCTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 5 0.15
24 9 0.26
25 16 0.47
26 4 0.12
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.71
Consensus pattern (24 bp):
ATTTTTTTCGTTTATGAGCTTTTA
Found at i:7437977 original size:25 final size:25
Alignment explanation
Indices: 7437945--7438000 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
7437935 GGTCTCTATA
7437945 TTTTTTTCGTTT-TGAGCTATTTAAT
1 TTTTTTTCGTTTATGAGCT-TTTAAT
* **
7437970 TTTTTTTCTTTTATGTTCTTTTAAT
1 TTTTTTTCGTTTATGAGCTTTTAAT
7437995 TTTTTT
1 TTTTTT
7438001 CTTTATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.73
Consensus pattern (25 bp):
TTTTTTTCGTTTATGAGCTTTTAAT
Found at i:7440187 original size:31 final size:29
Alignment explanation
Indices: 7440120--7440190 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
7440110 AAATCAAAAT
*
7440120 TTTATGTATAAAATTGCACAAAATTAAAG
1 TTTATGTATAAAATTGCACAAAACTAAAG
* *
7440149 TTCATGTATAAAATTGCACATTAGACTAAAG
1 TTTATGTATAAAATTGCACA--AAACTAAAG
7440180 TTTATGTATAA
1 TTTATGTATAA
7440191 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTATGTATAAAATTGCACAAAACTAAAG
Found at i:7447168 original size:42 final size:42
Alignment explanation
Indices: 7447109--7447407 Score: 403
Period size: 42 Copynumber: 7.2 Consensus size: 42
7447099 AGATTTCAGG
* * *
7447109 GCAGGCTTAATGCCGGTGAAATAAT-TCCAGACTTTACATTTA
1 GCAGGCTTAATGCCGGTGAAACAATAT-CAGACTTTACGTCTA
7447151 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
1 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
* * * *
7447193 GAAGGCTTAATGCCGGTGAAATAATTTCAAACTTTACGTCTA
1 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
7447235 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
1 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
7447277 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
1 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
* * *
7447319 GCAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTA
1 GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
* * *
7447360 GTAGGC-TAAGTGCCGGTG-TACTAA-ATCA-AGCTTTAAGTCTA
1 GCAGGCTTAA-TGCCGGTGAAAC-AATATCAGA-CTTTACGTCTA
7447401 GCAGGCT
1 GCAGGCT
7447408 AAGTGCTAGT
Statistics
Matches: 231, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
40 6 0.03
41 46 0.20
42 178 0.77
43 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
GCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTA
Found at i:7456929 original size:22 final size:24
Alignment explanation
Indices: 7456883--7456931 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
7456873 TAACTATAAA
**
7456883 TTTTTTTATCATATTTTTGGGAAT
1 TTTTTTTATCATATTTTTGAAAAT
7456907 TTTTTTTAT-A-ATTTTTGAAAAT
1 TTTTTTTATCATATTTTTGAAAAT
7456929 TTT
1 TTT
7456932 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 1 0.04
24 9 0.39
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTTTTATCATATTTTTGAAAAT
Found at i:7461062 original size:85 final size:85
Alignment explanation
Indices: 7460966--7461135 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
7460956 ATATATTAAT
7460966 TTTTGAGTATAGTAATTTTAATTTTTTCATTTAAAAATTATATAAAAGACAAAAATTTCATTAAA
1 TTTTGAGTATAGTAATTTTAATTTTTTCATTTAAAAATTATATAAAAGACAAAAATTTCATTAAA
7461031 ATAATAAATAATTAATAAAA
66 ATAATAAATAATTAATAAAA
7461051 TTTTGAGTATAGTAATTTTAATTTTTTCATTTAAAAATTATATAAAAGACAAAAATTTCATTAAA
1 TTTTGAGTATAGTAATTTTAATTTTTTCATTTAAAAATTATATAAAAGACAAAAATTTCATTAAA
*
7461116 ATAATAAATATTTAATAAAA
66 ATAATAAATAATTAATAAAA
7461136 AATAAATTCT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (85 bp):
TTTTGAGTATAGTAATTTTAATTTTTTCATTTAAAAATTATATAAAAGACAAAAATTTCATTAAA
ATAATAAATAATTAATAAAA
Found at i:7461764 original size:43 final size:43
Alignment explanation
Indices: 7461624--7461930 Score: 374
Period size: 43 Copynumber: 7.2 Consensus size: 43
7461614 AGAAAAAAAT
** *
7461624 GCCGCTAAAGGCCATGTTCTTTAGCGGCGC--TTATCTAAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATC-ACAAAC
* * * *
7461666 GCCGGTAAAGATCATATTCTTTAGCGGCGC--TTAACGAAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATC-ACAAAC
* *
7461708 GCCGTTAAAGATCATGCTCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
7461751 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
7461794 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
*
7461837 GCAGCTAAAGATCATGTTCTTTAGCGGCGCTTTCT-TCACAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT-TATCACAAAC
* * * * * * *
7461880 GCCGCTAGAGAACATGAGT-TTTAGCGGTGTTTTTATGAAAAAC
1 GCCGCTAAAGATCATG-TTCTTTAGCGGCGCTTTTATCACAAAC
*
7461923 GCCACTAA
1 GCCGCTAA
7461931 TTTTGGGATT
Statistics
Matches: 236, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
42 64 0.27
43 166 0.70
44 6 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCACAAAC
Found at i:7462327 original size:21 final size:21
Alignment explanation
Indices: 7462303--7462350 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
7462293 TTTTGAACCC
* *
7462303 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCCCTCGATGCAGCCT
*
7462324 CTGCTTCCCTCGATGCCGCCT
1 CTGCTTCCCTCGATGCAGCCT
7462345 CTGCTT
1 CTGCTT
7462351 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.44, G:0.19, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGATGCAGCCT
Found at i:7466468 original size:34 final size:35
Alignment explanation
Indices: 7466424--7466490 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
7466414 CAGTAAAATA
*
7466424 TTTTCCGTAAAATAATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
* * *
7466458 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTT
7466491 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:7467357 original size:114 final size:110
Alignment explanation
Indices: 7467011--7467359 Score: 260
Period size: 114 Copynumber: 3.1 Consensus size: 110
7467001 GCTGAAACGA
* *
7467011 TGCGTTTTGGTCAAAATTTTTGCGGCGCTTAAGCAGAAGCGCCACTAAAAGCTGATATATAGCGG
1 TGCGTTTTGTTCAAAA-TTTTGCGGCGATTAAGCA-AAGCGCCACTAAAAGCTGATATATAGCGG
7467076 CGTTTACGGGTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGT
64 CGTTTAC-GGTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAA-GT
* * * * * * * ** **
7467125 TGCGTTTCGGTTTAAAATTTTTCGG-TATTTTTTAGTTAAA-CGCCGCTATTTA--TGGGATATA
1 TGCGTTT-TGTTCAAAATTTTGCGGCGA---TTAAG-CAAAGCGCCACTA-AAAGCTGATATATA
* * * * ** * *
7467186 GCGGCATTTGCAGGTAAGCGCCACTAATGCCTTTATA-CGTCAAGCCCGAACA-A
60 GCGGCGTTTAC-GGTAAGCGCCACTAAAGGCGCTATAGC-TCAAG-ACGAA-AGT
* * *
7467239 TGCGTTTTGTTCAAAATATTTGCGGCGATTCAGGAATAGCGCCACGAAAAGCTGATATATAGCGG
1 TGCGTTTTGTTCAAAAT-TTTGCGGCGATTAAGCAA-AGCGCCACTAAAAGCTGATATATAGCGG
* *
7467304 CGTTTTCGGCTAAGCGCCGCTAAAGGCGCTATAGCTCAAGACGAAATGT
64 CGTTTACGG-TAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAA-GT
7467353 TGCGTTT
1 TGCGTTT
7467360 CGGTTTCAAA
Statistics
Matches: 173, Mismatches: 43, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
111 2 0.01
112 7 0.04
113 21 0.12
114 115 0.66
115 19 0.11
116 8 0.05
117 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (110 bp):
TGCGTTTTGTTCAAAATTTTGCGGCGATTAAGCAAAGCGCCACTAAAAGCTGATATATAGCGGCG
TTTACGGTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAAGT
Found at i:7467481 original size:228 final size:229
Alignment explanation
Indices: 7467005--7467486 Score: 564
Period size: 228 Copynumber: 2.1 Consensus size: 229
7466995 CGTGAAGCTG
* * *
7467005 AAACGATGCGTTTTGG-TCAAAATTTTTGCGGCGCTTAAGCAGAAGCGCCACTAAAAGCTGATAT
1 AAACGATGCGTTTTGGTTCAAAATATTTGCGGCGATTAAGCAGAAGCGCCACGAAAAGCTGATAT
*
7467069 ATAGCGGCGTTTACGGGTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCG
66 ATAGCGGCGTTTACGGCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCG
* * * * * *
7467134 GTTTAAAATTTTTCGGTATTTTTTAGTTAAACGCCGCTATTTATGGGATATAGCGGCATTTGCAG
131 GTTTAAAATGTTCCGGCATTTTTCAGTTAAACGCCGCTATATACGGGATATAGCGGCATTTGCAG
** * * *
7467199 GTAAGCGCCACTAATGCCTTTATACGTCAAGCCC
196 ACAAGCGCCACTAATGCCTCTATACCTCAAGACC
* * * *
7467233 GAACAATGCGTTTT-GTTCAAAATATTTGCGGCGATTCAGGA-ATAGCGCCACGAAAAGCTGATA
1 AAACGATGCGTTTTGGTTCAAAATATTTGCGGCGATTAAGCAGA-AGCGCCACGAAAAGCTGATA
* * *
7467296 TATAGCGGCGTTTTCGGCTAAGCGCCGCTAAAGGCGCTATAGCTCAAGACGAAATGTTGCGTTTC
65 TATAGCGGCGTTTACGGCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTC
* * ** * * *
7467361 GGTTTCAAAA-GTTCCGGCGTTTTTCGGTTACGCGCCGCTA-ATAGCGGGCTATAGCGGCGTTTT
130 GGTTT-AAAATGTTCCGGCATTTTTCAGTTAAACGCCGCTATATA-CGGGATATAGCGGCATTTG
* * * * **
7467424 C-GACAGGCGCCACTATTGGCTCTATGCCTCATTACC
193 CAGACAAGCGCCACTAATGCCTCTATACCTCAAGACC
*
7467460 AAACGCTGCGTTTTGGTTC-AAATATTT
1 AAACGATGCGTTTTGGTTCAAAATATTT
7467487 TACGGCGCTT
Statistics
Matches: 211, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
227 47 0.22
228 160 0.76
229 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (229 bp):
AAACGATGCGTTTTGGTTCAAAATATTTGCGGCGATTAAGCAGAAGCGCCACGAAAAGCTGATAT
ATAGCGGCGTTTACGGCTAAGCGCCACTAAAGGCGCTATAGCTCAAGACGAAACGTTGCGTTTCG
GTTTAAAATGTTCCGGCATTTTTCAGTTAAACGCCGCTATATACGGGATATAGCGGCATTTGCAG
ACAAGCGCCACTAATGCCTCTATACCTCAAGACC
Found at i:7475386 original size:14 final size:14
Alignment explanation
Indices: 7475366--7475404 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7475356 TCTTTGATTG
7475366 ATTATTTTATTTTA
1 ATTATTTTATTTTA
*
7475380 GTTA-TTTATTTTA
1 ATTATTTTATTTTA
*
7475393 ATTTTTTTATTT
1 ATTATTTTATTT
7475405 GACTTGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTATTTTATTTTA
Found at i:7482400 original size:44 final size:44
Alignment explanation
Indices: 7482321--7482412 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
7482311 GGGCAAACCG
* * * * *
7482321 TGTATAATTCAAATATAGAGTCACACGGCCGTGTCATTAGGCCA
1 TGTACAATTCAAATATAGAGTCACACAGCCATGTCAATAGACCA
* * *
7482365 TGTACAATTCGAATATAGGGTCACACATCCATGTCAATAGACCA
1 TGTACAATTCAAATATAGAGTCACACAGCCATGTCAATAGACCA
7482409 TGTA
1 TGTA
7482413 ACTCCTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
TGTACAATTCAAATATAGAGTCACACAGCCATGTCAATAGACCA
Found at i:7482497 original size:17 final size:17
Alignment explanation
Indices: 7482475--7482512 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
7482465 GTCATGTAAG
*
7482475 GACCGTGTGGGACACAC
1 GACCGTGCGGGACACAC
7482492 GACCGTGCGGGACACAC
1 GACCGTGCGGGACACAC
7482509 GACC
1 GACC
7482513 ATGCAGTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.34, G:0.34, T:0.08
Consensus pattern (17 bp):
GACCGTGCGGGACACAC
Found at i:7488392 original size:24 final size:24
Alignment explanation
Indices: 7488342--7488396 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
7488332 AATATTTGCT
7488342 TTCTTTGAAAATAAAGTTCTTTCC
1 TTCTTTGAAAATAAAGTTCTTTCC
*
7488366 TTCCTTTGAAAAT-CAGTT-TTTCTC
1 TT-CTTTGAAAATAAAGTTCTTTC-C
7488390 TTCTTTG
1 TTCTTTG
7488397 TAAACTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.32
24 9 0.32
25 10 0.36
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (24 bp):
TTCTTTGAAAATAAAGTTCTTTCC
Found at i:7488409 original size:24 final size:23
Alignment explanation
Indices: 7488344--7488409 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
7488334 TATTTGCTTT
*
7488344 CTTTGAAAATAAAGTTCTTTCCTTC
1 CTTTGAAAATCAA-TT-TTTCCTTC
*
7488369 CTTTGAAAATCAGTTTTTCTCTT-
1 CTTTGAAAATCAATTTTTC-CTTC
*
7488392 CTTTGTAAACTCAATTTT
1 CTTTG-AAAATCAATTTT
7488410 ACCTGACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.26
24 15 0.43
25 11 0.31
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (23 bp):
CTTTGAAAATCAATTTTTCCTTC
Found at i:7491362 original size:31 final size:31
Alignment explanation
Indices: 7491302--7491385 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
7491292 AAGTTATGGA
* * *
7491302 TTTAGTCCTTATA-TTTT-AATTTGATCAAT
1 TTTAGTCCCTATACTTTTCAAATTGGTCAAT
* * *
7491331 TTTAGTTCTTTTACTTTTCAAATTGGTCAAT
1 TTTAGTCCCTATACTTTTCAAATTGGTCAAT
7491362 TTTAGTCCCTATACTTTTCAAATT
1 TTTAGTCCCTATACTTTTCAAATT
7491386 TTGAACTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
29 11 0.24
30 4 0.09
31 31 0.67
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTCAAATTGGTCAAT
Found at i:7492206 original size:18 final size:19
Alignment explanation
Indices: 7492185--7492224 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7492175 TTGAAATTAT
7492185 AAAAAGCA-TAAAAATATA
1 AAAAAGCATTAAAAATATA
* *
7492203 AAAAATCATTAAAATTATA
1 AAAAAGCATTAAAAATATA
7492222 AAA
1 AAA
7492225 TATATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAAGCATTAAAAATATA
Found at i:7495689 original size:38 final size:43
Alignment explanation
Indices: 7495629--7495878 Score: 248
Period size: 46 Copynumber: 5.7 Consensus size: 43
7495619 TTTGAGTACT
*
7495629 TATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCT-AC
1 TATCT-ATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTAAC
7495672 -A-CT-T-AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACAC
1 TATCTATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTA-AC
*
7495712 TTATCTGATCAAGTGACAAAA-TGATAAGTGGTAGCCATAGCTACAC
1 -TATCT-ATCAAGTGA-AAAAGTGATAAGTGGTAGCCTTAGCTA-AC
*
7495758 TTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACAC
1 -TATCT-ATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTA-AC
* *
7495804 TTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGTTACAC
1 -TATCT-ATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTA-AC
* *
7495849 TTATCTGATC-AG-GGACAAGTGATAAGTGGT
1 -TATCT-ATCAAGTGAAAAAGTGATAAGTGGT
7495879 CATACGTAAG
Statistics
Matches: 185, Mismatches: 12, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
38 31 0.17
39 1 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 17 0.09
44 2 0.01
45 22 0.12
46 102 0.55
47 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (43 bp):
TATCTATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTAAC
Found at i:7495726 original size:46 final size:46
Alignment explanation
Indices: 7495676--7495878 Score: 306
Period size: 46 Copynumber: 4.5 Consensus size: 46
7495666 AGCTACACTT
7495676 AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
1 AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
*
7495722 AAGTGACAAAA-TGATAAGTGGTAGCCATAGCTACACTTATCTGATC
1 AAGTGA-AAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
* *
7495768 AAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATC
1 AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
* *
7495814 AAGTGACAAAGTGATAAGTGGTAGCC-TAGTTACACTTATCTGATC
1 AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
* *
7495859 -AG-GGACAAGTGATAAGTGGT
1 AAGTGAAAAAGTGATAAGTGGT
7495879 CATACGTAAG
Statistics
Matches: 144, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
43 15 0.10
44 2 0.01
45 21 0.15
46 102 0.71
47 4 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
AAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC
Found at i:7495772 original size:84 final size:83
Alignment explanation
Indices: 7495626--7495859 Score: 306
Period size: 92 Copynumber: 2.7 Consensus size: 83
7495616 AGATTTGAGT
** **
7495626 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTAAGTGAAAAAGTGAT
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATCAAGTGAT
7495691 AAGTGGTAGCCTTAGCTAC
65 AAGTGGTAGCCTTAGCTAC
*
7495710 ACTTATCTGATCAAGTGACAAAATGATAAGTGGTAGCCATAGCTACACTTATCTGATCAAGTGAA
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATC-------
*
7495775 AAAGTGATAAGTGGTAGCTTTAGCTAC
58 -AAGTGATAAGTGGTAGCCTTAGCTAC
* *
7495802 ACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTAGTTACACTTATCTGATCA
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCA
7495860 GGGACAAGTG
Statistics
Matches: 132, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
83 1 0.01
84 52 0.39
91 18 0.14
92 61 0.46
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (83 bp):
ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGATA
AGTGGTAGCCTTAGCTAC
Found at i:7504395 original size:49 final size:48
Alignment explanation
Indices: 7504323--7504467 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 48
7504313 CGTTTTCTCG
* * * *
7504323 ATGCCATAGTCCAACTATAGTCTTACACATAATCACAAATCACATACTA
1 ATGCCATAGCCCAGCTATGGTCTTACACA-AATCACAAATCACATACCA
* * * *
7504372 ATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTTCCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC-AAATCACAAATCACATACCA
*
7504421 ATGTCATAGCCCAGCTATGGTCTTACACAGAAATCACATAATCACAT
1 ATGCCATAGCCCAGCTATGGTCTTACAC--AAATCACA-AATCACAT
7504468 TTTCACATGT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 66 0.80
50 10 0.12
51 6 0.07
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (48 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAAATCACAAATCACATACCA
Found at i:7505504 original size:46 final size:46
Alignment explanation
Indices: 7505402--7505650 Score: 389
Period size: 46 Copynumber: 5.5 Consensus size: 46
7505392 CTTACGTATG
* *
7505402 ACCACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCT-AGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
7505445 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* * *
7505491 ACCACTTATCACTTTTTCACTTGATTAGATAAGTGTAACTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* *
7505537 ACCACTTATCACTTTTTCACTTGAT-AGATAAGTGTAGCTGAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* *
7505582 ACCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
7505628 ACCACTTATCACTTTGTCACTTG
1 ACCACTTATCACTTTGTCACTTG
7505651 TCACTGATCA
Statistics
Matches: 190, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 60 0.32
46 113 0.59
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:7505582 original size:91 final size:92
Alignment explanation
Indices: 7505402--7505650 Score: 382
Period size: 91 Copynumber: 2.8 Consensus size: 92
7505392 CTTACGTATG
* * *
7505402 ACCACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCA
1 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCA
7505464 CTTGATCAGATAAGTGTAGCTAAGGCT
66 CTTGATCAGATAAGTGTAGCTAAGGCT
* * *
7505491 ACCACTTATCACTTTTTCACTTGATTAGATAAGTGTAACTAAGGCTACCACTTATCACTTTTTCA
1 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCA
*
7505556 CTTGAT-AGATAAGTGTAGCTGAGGCT
66 CTTGATCAGATAAGTGTAGCTAAGGCT
*
7505582 ACCACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTC
7505646 ACTTG
65 ACTTG
7505651 TCACTGATCA
Statistics
Matches: 145, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
89 12 0.08
90 4 0.03
91 98 0.68
92 31 0.21
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (92 bp):
ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCA
CTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:7505590 original size:137 final size:135
Alignment explanation
Indices: 7505402--7505650 Score: 410
Period size: 137 Copynumber: 1.8 Consensus size: 135
7505392 CTTACGTATG
7505402 ACCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 ACCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
* *
7505467 GATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTTTCACTTGATTAGATAAGTGTAACTA
66 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATTAGATAAGTGTAACTA
7505532 AGGCT
131 AGGCT
* * * *
7505537 ACCACTTATCACTTTTTCACTTGAT-AGATAAGTGTAGCTGAGGCTACCACTTATCACTTTGTTA
1 ACCACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCA
7505601 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
63 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
7505651 TCACTGATCA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
135 12 0.11
136 17 0.16
137 76 0.72
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (135 bp):
ACCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATTAGATAAGTGTAACTA
AGGCT
Found at i:7518008 original size:31 final size:31
Alignment explanation
Indices: 7517970--7518049 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
7517960 ATTATGCAAA
*
7517970 GAGTGACTAAATTGTAAATTTACTAATAGTT
1 GAGTGACTAAATTGTAAATTTACTAATAATT
*
7518001 GAGTGACTAAATTATAAATTTACTAATAATT
1 GAGTGACTAAATTGTAAATTTACTAATAATT
*
7518032 GAGTGACCAAATTGTAAA
1 GAGTGACTAAATTGTAAA
7518050 CTTGCTCGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.35
Consensus pattern (31 bp):
GAGTGACTAAATTGTAAATTTACTAATAATT
Found at i:7521691 original size:111 final size:107
Alignment explanation
Indices: 7521546--7521843 Score: 452
Period size: 111 Copynumber: 2.7 Consensus size: 107
7521536 CGAAAAAGAA
* * * *
7521546 AAAAAAGAAAAAAAAAATTTTGGGTGCTGTCCTGTCAATGGCCGGCACCCAGTAAACAGTAAATT
1 AAAAAA-ATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAT
* * *
7521611 TTTTTTCTTTTTTTTTCTTGTCAGAGTTAGATATAAAAATACG
65 TTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
*
7521654 AAAAAAAATTAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
1 -AAAAAAA-TAAAAAAA--ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
7521719 AATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
62 AATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
*
7521765 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGT-AAAAT
*
7521830 ATTTTTCTTTTTTT
65 TTTTTTCTTTTTTT
7521844 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
107 43 0.25
108 18 0.10
109 21 0.12
110 7 0.04
111 85 0.49
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (107 bp):
AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAATT
TTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
Found at i:7527909 original size:110 final size:110
Alignment explanation
Indices: 7527716--7528046 Score: 662
Period size: 110 Copynumber: 3.0 Consensus size: 110
7527706 CTAAGATCTT
7527716 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
1 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
7527781 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
66 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
7527826 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
1 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
7527891 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
66 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
7527936 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
1 TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
7528001 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
66 GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
7528046 T
1 T
7528047 TTTCCATAAT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 221 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (110 bp):
TCTGGTCTGGGAATGCTGAAACCCAAATAAGTTATATTTTTGGCTCTTTCACCATACTCACAAGT
GATTGTCCAGCCTGATCTGAACAATGAAGGGATCCCAAATTCCGG
Found at i:7538799 original size:22 final size:22
Alignment explanation
Indices: 7538771--7538815 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7538761 GGTCAGTTGA
7538771 TCGGATCGAGTGGATTGAGAAT
1 TCGGATCGAGTGGATTGAGAAT
7538793 TCGGATCGAGTGGATTGAGAAT
1 TCGGATCGAGTGGATTGAGAAT
7538815 T
1 T
7538816 GATTGGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (22 bp):
TCGGATCGAGTGGATTGAGAAT
Found at i:7549054 original size:28 final size:27
Alignment explanation
Indices: 7549022--7549106 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
7549012 GAAAAATTGA
7549022 AAATTTTAACGGGTTAACAAATAAACTT
1 AAATTTTAACGGGTTAACAAATAAA-TT
7549050 AAATTTTAAC-GG-T---AAATAAA-T
1 AAATTTTAACGGGTTAACAAATAAATT
7549071 --ATTTTAACGAGGTTAACAAATAAATTT
1 AAATTTTAACG-GGTTAACAAATAAA-TT
7549098 AAATTTTAA
1 AAATTTTAA
7549107 AATTCAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
19 8 0.17
21 3 0.06
22 1 0.02
23 7 0.15
25 7 0.15
26 1 0.02
27 3 0.06
28 10 0.21
29 7 0.15
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATTTTAACGGGTTAACAAATAAATT
Found at i:7549118 original size:47 final size:47
Alignment explanation
Indices: 7549020--7549119 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 47
7549010 ATGAAAAATT
**
7549020 GAAA-ATTTTAACGGGTTAACAAATAAACTTAAATTTTAACGGTAAA
1 GAAATATTTTAACGGGTTAACAAATAAACTTAAATTTTAACAATAAA
* * **
7549066 TAAATATTTTAACGAGGTTAACAAATAAATTTAAATTTTAA-AATTCA
1 GAAATATTTTAACG-GGTTAACAAATAAACTTAAATTTTAACAATAAA
7549113 GAAATAT
1 GAAATAT
7549120 AGAGATTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 3 0.07
47 17 0.38
48 25 0.56
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (47 bp):
GAAATATTTTAACGGGTTAACAAATAAACTTAAATTTTAACAATAAA
Found at i:7555867 original size:12 final size:12
Alignment explanation
Indices: 7555850--7555884 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
7555840 TTGGAGCAAC
7555850 TGCTGCTGCTGT
1 TGCTGCTGCTGT
7555862 TGCTGCTGCTGT
1 TGCTGCTGCTGT
*
7555874 TGTTGCTGCTG
1 TGCTGCTGCTG
7555885 ATGCAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.34, T:0.43
Consensus pattern (12 bp):
TGCTGCTGCTGT
Found at i:7555869 original size:15 final size:15
Alignment explanation
Indices: 7555849--7555884 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7555839 TTTGGAGCAA
7555849 CTGCTGCTGCTGTTG
1 CTGCTGCTGCTGTTG
*
7555864 CTGCTGCTGTTGTTG
1 CTGCTGCTGCTGTTG
7555879 CTGCTG
1 CTGCTG
7555885 ATGCAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.25, G:0.33, T:0.42
Consensus pattern (15 bp):
CTGCTGCTGCTGTTG
Found at i:7557898 original size:3 final size:3
Alignment explanation
Indices: 7557890--7557916 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7557880 TTTCCATGGA
7557890 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
7557917 GATGGCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:7563104 original size:23 final size:21
Alignment explanation
Indices: 7563077--7563121 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
7563067 ACGAAACGAA
7563077 ACAGAAAGCAAAAAAAATGAAAG
1 ACAGAAA--AAAAAAAATGAAAG
*
7563100 ACAGAAAAGAAAAAATGAAAG
1 ACAGAAAAAAAAAAATGAAAG
7563121 A
1 A
7563122 AAGGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (21 bp):
ACAGAAAAAAAAAAATGAAAG
Found at i:7564128 original size:40 final size:39
Alignment explanation
Indices: 7564000--7564137 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
7563990 CTTCGAGTCG
* ***
7564000 ATGAGACACTGGGTGTC-AATTTCCTACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAAATTT--TACTTCGAATT-ATCCA
* * *
7564041 ATGAGACACTGGGTG-CCAA-TTTACTTCGATTTAACCA
1 ATGAGACACTGGGTGTCAAATTTTACTTCGAATTATCCA
*
7564078 AAGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCA
1 ATGAGACACTGGGTGTCAAATT-TTACTTCGAATTATCCA
* *
7564118 ATGAGGCACTGGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
7564138 CTGGTGTGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 15 0.19
38 12 0.15
39 1 0.01
40 35 0.44
41 17 0.21
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAAATTTTACTTCGAATTATCCA
Found at i:7568154 original size:24 final size:24
Alignment explanation
Indices: 7568127--7568175 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
7568117 ACCCTTATAA
*
7568127 TCATCTTCATCTCCA-CTCTCGACT
1 TCATCTTCATCCCCACCT-TCGACT
7568151 TCATCTTCATCCCCACCTTCGACT
1 TCATCTTCATCCCCACCTTCGACT
7568175 T
1 T
7568176 TGTTTTCGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.16, C:0.43, G:0.04, T:0.37
Consensus pattern (24 bp):
TCATCTTCATCCCCACCTTCGACT
Found at i:7575303 original size:45 final size:45
Alignment explanation
Indices: 7575234--7575320 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
7575224 TATAGGTGTA
* * *
7575234 AAAATAAGTAAGATCATAGTTGAAAGATGCTATAACATCATGACG
1 AAAATAAGTAAGACCATAGCTGAAAGACGCTATAACATCATGACG
* * **
7575279 AAAATGAGTAAGACCATGGCTGAAAGACGCTATGGCATCATG
1 AAAATAAGTAAGACCATAGCTGAAAGACGCTATAACATCATG
7575321 GTAAAAAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (45 bp):
AAAATAAGTAAGACCATAGCTGAAAGACGCTATAACATCATGACG
Found at i:7576572 original size:27 final size:27
Alignment explanation
Indices: 7576521--7576572 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7576511 TACTCTAAAT
* *
7576521 GAATCGCCTTTGTGGCGTACTCTGTGG
1 GAATCGCCTTTGTGGCATACCCTGTGG
*
7576548 GAATCGCCTTTGTGGCATTCCCTGT
1 GAATCGCCTTTGTGGCATACCCTGT
7576573 ATGGATCACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.35
Consensus pattern (27 bp):
GAATCGCCTTTGTGGCATACCCTGTGG
Found at i:7582383 original size:21 final size:21
Alignment explanation
Indices: 7582300--7582423 Score: 81
Period size: 21 Copynumber: 5.9 Consensus size: 21
7582290 GAAGCTCAAA
* *
7582300 AGCTGAATAGAAACTCATGAG
1 AGCTGAACAGAAACTCATAAG
* *
7582321 AGCTAAACAGAAACTCATACG
1 AGCTGAACAGAAACTCATAAG
* * * * *
7582342 GGTTGAACGGAAGCTCGTAAG
1 AGCTGAACAGAAACTCATAAG
* *
7582363 AGCTGAACGGAAACCCATAAG
1 AGCTGAACAGAAACTCATAAG
* * *
7582384 -GGTTAAGCAGAAGCTCAATAA-
1 AGCTGAA-CAGAAACTC-ATAAG
*
7582405 AGCTGAACGGAAACTCATA
1 AGCTGAACAGAAACTCATA
7582424 TGAGTTAAAC
Statistics
Matches: 75, Mismatches: 25, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
20 7 0.09
21 60 0.80
22 8 0.11
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAACTCATAAG
Found at i:7582387 original size:42 final size:41
Alignment explanation
Indices: 7582319--7582450 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
7582309 GAAACTCATG
* * * *
7582319 AGAGCTAAACAGAAACTCATACGGGTTGAACGGAAGCTCGTA
1 AGAGCTGAACGGAAACTCATAAGGGTT-AACAGAAGCTCGTA
* *
7582361 AGAGCTGAACGGAAACCCATAAGGGTTAAGCAGAAGCTCAATA
1 AGAGCTGAACGGAAACTCATAAGGGTTAA-CAGAAGCTC-GTA
* * * *
7582404 A-AGCTGAACGGAAACTCATATGAGTTAAACAGATGCTCGTG
1 AGAGCTGAACGGAAACTCATAAGGGTT-AACAGAAGCTCGTA
7582445 AGAGCT
1 AGAGCT
7582451 AAACAAAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
41 4 0.05
42 65 0.88
43 5 0.07
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (41 bp):
AGAGCTGAACGGAAACTCATAAGGGTTAACAGAAGCTCGTA
Found at i:7584960 original size:26 final size:26
Alignment explanation
Indices: 7584931--7584980 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
7584921 ATTTTCCCAT
7584931 TAAAAGTAAAGAAAATATCTTCTCAC
1 TAAAAGTAAAGAAAATATCTTCTCAC
*
7584957 TAAAAGTAAAGAAAATATTTTCTC
1 TAAAAGTAAAGAAAATATCTTCTC
7584981 TTCCTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAAGTAAAGAAAATATCTTCTCAC
Found at i:7593046 original size:19 final size:19
Alignment explanation
Indices: 7593022--7593064 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
7593012 AATATTGGTA
7593022 AAATCTCAT-AAATTTTCGT
1 AAATCT-ATAAAATTTTCGT
*
7593041 AAATCTATAGAAATTTTGGT
1 AAATCTATA-AAATTTTCGT
7593061 AAAT
1 AAAT
7593065 TGTTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 6 0.29
20 13 0.62
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATCTATAAAATTTTCGT
Found at i:7593117 original size:80 final size:80
Alignment explanation
Indices: 7593011--7593177 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 80
7593001 GAAATTTTGG
* * * ** *
7593011 AAATATTGGTAAAATCTCATAAATTTTCGTAAAT-CTATAGAAATTTTGGTAAATTGTTAAATAT
1 AAATATTAGTAAAATCTCATAAATTTTCGTAAATCCT-TAAAAATTTTAGTAAATCATTAAACAT
*
7593075 GTTGGTAATTCCTTAA
65 GTTGGTAAATCCTTAA
* *
7593091 AAATATTAGT-AAATCATCA-AATATTTTGGTAAATCCTTAAAAATTTTAGTAAATCATTAGACA
1 AAATATTAGTAAAATC-TCATAA-ATTTTCGTAAATCCTTAAAAATTTTAGTAAATCATTAAACA
* *
7593154 TTTTGGTAAATCCTTAG
64 TGTTGGTAAATCCTTAA
7593171 AAATATT
1 AAATATT
7593178 GGGAAAATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 7 0.10
80 64 0.88
81 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (80 bp):
AAATATTAGTAAAATCTCATAAATTTTCGTAAATCCTTAAAAATTTTAGTAAATCATTAAACATG
TTGGTAAATCCTTAA
Found at i:7593659 original size:20 final size:20
Alignment explanation
Indices: 7593031--7593670 Score: 193
Period size: 20 Copynumber: 31.6 Consensus size: 20
7593021 AAAATCTCAT
*
7593031 AAATTTTCGTAAATC-TATAG
1 AAATTTTGGTAAATCAT-TAG
**
7593051 AAATTTTGGTAAATTGTTA-
1 AAATTTTGGTAAATCATTAG
* * * *
7593070 AATATGTTGGTAATTCCTTAA
1 AA-ATTTTGGTAAATCATTAG
* * *
7593091 AAATATTAGTAAATCATCA-
1 AAATTTTGGTAAATCATTAG
* *
7593110 AATATTTTGGTAAATCCTTAA
1 AA-ATTTTGGTAAATCATTAG
*
7593131 AAATTTTAGTAAATCATTAG
1 AAATTTTGGTAAATCATTAG
* *
7593151 ACATTTTGGTAAATCCTTAG
1 AAATTTTGGTAAATCATTAG
* * *
7593171 AAATATTGGGAAAAT-GTTAG
1 AAAT-TTTGGTAAATCATTAG
* ** * * *
7593191 ATATACTAGTATATCCTTAG
1 AAATTTTGGTAAATCATTAG
*
7593211 ATATTTTGGTAAAGTCA-TAG
1 AAATTTTGGTAAA-TCATTAG
* **
7593231 AAATTTCGGT-AATTGTTA-
1 AAATTTTGGTAAATCATTAG
* *
7593249 AAACTTGGTATAAGGTTTAGAA-AATTTAA
1 AAA-TT--T-T--GG--TA-AATCA-TTAG
* ** *
7593278 AAATATCAGTAAAAT-TTTAG
1 AAATTTTGGT-AAATCATTAG
* * *
7593298 AAAATATTGGTAAAGTC-TCAT
1 -AAATTTTGGTAAA-TCATTAG
* * * *
7593319 AAATATTGGTAATTCAATAA
1 AAATTTTGGTAAATCATTAG
*
7593339 AAATTTTGGTAAATCGTTAG
1 AAATTTTGGTAAATCATTAG
* * *
7593359 ATATTTTGATAAAACATT-G
1 AAATTTTGGTAAATCATTAG
**
7593378 AAAATTTTGGTAAATTGTTAG
1 -AAATTTTGGTAAATCATTAG
** *
7593399 ATGTTTTGGTAACA-CTTTA-
1 AAATTTTGGTAA-ATCATTAG
* * **
7593418 AATTTTTTGGTAATTTGTTAG
1 AA-ATTTTGGTAAATCATTAG
* * *
7593439 ATATATCGGTAAATTC-TTAG
1 AAATTTTGGTAAA-TCATTAG
7593459 AAATTTTGGTAAA-CTATTAG
1 AAATTTTGGTAAATC-ATTAG
* * *
7593479 ATATATTGGTAAATCCTTAG
1 AAATTTTGGTAAATCATTAG
* * * * *
7593499 AAATATTGGTAAAACCTCAC
1 AAATTTTGGTAAATCATTAG
* *
7593519 AAGTATTGGTAAATCGA-TAG
1 AAATTTTGGTAAATC-ATTAG
* *
7593539 AAATTTTGG-AAAACTGTTAG
1 AAATTTTGGTAAATC-ATTAG
* *
7593559 ATATTTTGGTAAATCCTTA-
1 AAATTTTGGTAAATCATTAG
**
7593578 AAATTATTGGTAAATTGTTAG
1 AAATT-TTGGTAAATCATTAG
* * *
7593599 ATATATTGGTAAATCCTTAG
1 AAATTTTGGTAAATCATTAG
*
7593619 AAATTTTGGTAAATTATTAG
1 AAATTTTGGTAAATCATTAG
*
7593639 ACATTTTGGTAAAGTCA-TAG
1 AAATTTTGGTAAA-TCATTAG
*
7593659 AAATTTTAGTAA
1 AAATTTTGGTAA
7593671 TTATTATGAC
Statistics
Matches: 452, Mismatches: 125, Indels: 86
0.68 0.19 0.13
Matches are distributed among these distances:
18 5 0.01
19 26 0.06
20 362 0.80
21 44 0.10
22 1 0.00
23 1 0.00
24 2 0.00
26 2 0.00
28 6 0.01
29 3 0.01
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.40
Consensus pattern (20 bp):
AAATTTTGGTAAATCATTAG
Found at i:7593660 original size:40 final size:39
Alignment explanation
Indices: 7593321--7593670 Score: 278
Period size: 40 Copynumber: 8.7 Consensus size: 39
7593311 AGTCTCATAA
* * * *
7593321 ATATTGGTAATTCAATAAAAATTTTGGTAAATCGTTAGAT
1 ATATTGGTAAATC-TTAGAAATTTTGGTAAATTGTTAGAT
* * *
7593361 ATTTTGATAAAACATT-GAAAATTTTGGTAAATTGTTAGAT
1 ATATTGGTAAATC-TTAG-AAATTTTGGTAAATTGTTAGAT
* * * *
7593401 GTTTTGGTAACA-CTTTA-AATTTTTTGGTAATTTGTTAGAT
1 ATATTGGTAA-ATC-TTAGAA-ATTTTGGTAAATTGTTAGAT
* * *
7593441 ATATCGGTAAATTCTTAGAAATTTTGGTAAACTATTAGAT
1 ATATTGGTAAA-TCTTAGAAATTTTGGTAAATTGTTAGAT
* *** * *
7593481 ATATTGGTAAATCCTTAGAAATATTGGTAAAACCTCACA-
1 ATATTGGTAAAT-CTTAGAAATTTTGGTAAATTGTTAGAT
* * *
7593520 AGTATTGGTAAATCGATAGAAATTTTGGAAAACTGTTAGAT
1 A-TATTGGTAAATC-TTAGAAATTTTGGTAAATTGTTAGAT
*
7593561 ATTTTGGTAAATCCTTA-AAATTATTGGTAAATTGTTAGAT
1 ATATTGGTAAAT-CTTAGAAATT-TTGGTAAATTGTTAGAT
* *
7593601 ATATTGGTAAATCCTTAGAAATTTTGGTAAATTATTAGAC
1 ATATTGGTAAAT-CTTAGAAATTTTGGTAAATTGTTAGAT
* * *
7593641 ATTTTGGTAAAGTCATAGAAATTTTAGTAA
1 ATATTGGTAAA-TCTTAGAAATTTTGGTAA
7593671 TTATTATGAC
Statistics
Matches: 251, Mismatches: 44, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
39 11 0.04
40 228 0.91
41 12 0.05
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (39 bp):
ATATTGGTAAATCTTAGAAATTTTGGTAAATTGTTAGAT
Found at i:7593798 original size:168 final size:167
Alignment explanation
Indices: 7593582--7593982 Score: 492
Period size: 168 Copynumber: 2.4 Consensus size: 167
7593572 TCCTTAAAAT
* * *
7593582 TATTGGTAAATTG-TTAGATATATTGGTAAATCCTTAGAAATTTTGGTAAATTATTAGACATTTT
1 TATTGGTAAA-TGCTTAGAAATATTGGTAAATCCTTAGAAATTTTGGTAAATCATTAGATATTTT
7593646 GGTAAAGTCATAGAAATTTTAGTAATTATT-ATGACTTGGTAT-AGTGTTTAGAAAAATTGAAAA
65 GGTAAAGTCATAGAAATTTTAGTAATTATTAAT-ACTTGGTATAAG-GTTTAGAAAAATTGAAAA
* * *
7593709 TATTGGTAAAGTCTCATAAA-TATTGGTAAA-AAAGATAGAA
128 TATTGATAAAATCT-ATAAATTATTGGTAAAGAAACATA-AA
* * * *
7593749 TTTTGGGTAAATGCTTAGAAATATTGGTAAATCCTTAGAAATATTGGTAAATCCTTAGATATTAT
1 TATT-GGTAAATGCTTAGAAATATTGGTAAATCCTTAGAAATTTTGGTAAATCATTAGATATTTT
* * * *
7593814 GGTAAAGTTATAGAAATTTTGGTAATTGTTAATACTTGGTATAAGGTTTAGAAAATTTGAAAATA
65 GGTAAAGTCATAGAAATTTTAGTAATTATTAATACTTGGTATAAGGTTTAGAAAAATTGAAAATA
* * ***
7593879 TTGATAAAATCTTTAAATTTTTGGTAAAGTCTCATAAA
130 TTGATAAAATCTATAAATTATTGGTAAAGAAACATAAA
* *
7593917 TATTGGTAAAATGAC--AGAAATTTTGGTAAATCCTTAGAAATTTTGGTAAATCGTTAGATATTT
1 TATTGGT-AAATG-CTTAGAAATATTGGTAAATCCTTAGAAATTTTGGTAAATCATTAGATATTT
7593980 TGG
64 TGG
7593983 GAATCCTTAG
Statistics
Matches: 202, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
167 59 0.29
168 135 0.67
169 8 0.04
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.39
Consensus pattern (167 bp):
TATTGGTAAATGCTTAGAAATATTGGTAAATCCTTAGAAATTTTGGTAAATCATTAGATATTTTG
GTAAAGTCATAGAAATTTTAGTAATTATTAATACTTGGTATAAGGTTTAGAAAAATTGAAAATAT
TGATAAAATCTATAAATTATTGGTAAAGAAACATAAA
Found at i:7593819 original size:20 final size:20
Alignment explanation
Indices: 7593754--7593807 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
7593744 TAGAATTTTG
*
7593754 GGTAAATGCTTAGAAATATT
1 GGTAAATCCTTAGAAATATT
7593774 GGTAAATCCTTAGAAATATT
1 GGTAAATCCTTAGAAATATT
7593794 GGTAAATCCTTAGA
1 GGTAAATCCTTAGA
7593808 TATTATGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
GGTAAATCCTTAGAAATATT
Found at i:7593992 original size:19 final size:20
Alignment explanation
Indices: 7593932--7594007 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
7593922 GTAAAATGAC
7593932 AGAAATTTTGGTAAATCCTT
1 AGAAATTTTGGTAAATCCTT
*
7593952 AGAAATTTTGGTAAATCGTT
1 AGAAATTTTGGTAAATCCTT
* *
7593972 AGATATTTTGG-GAATCCTT
1 AGAAATTTTGGTAAATCCTT
*
7593991 AGAAATATTGGTAAATC
1 AGAAATTTTGGTAAATC
7594008 TTTAAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (20 bp):
AGAAATTTTGGTAAATCCTT
Found at i:7594002 original size:39 final size:40
Alignment explanation
Indices: 7593897--7594007 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
7593887 ATCTTTAAAT
* *
7593897 TTTTGGTAAAGT-CTCATAAATATTGGTAAAAT-GACAGAAA
1 TTTTGGTAAA-TCCTTAGAAATATTGGT-AAATCGACAGAAA
* ** *
7593937 TTTTGGTAAATCCTTAGAAATTTTGGTAAATCGTTAGATA
1 TTTTGGTAAATCCTTAGAAATATTGGTAAATCGACAGAAA
*
7593977 TTTTGG-GAATCCTTAGAAATATTGGTAAATC
1 TTTTGGTAAATCCTTAGAAATATTGGTAAATC
7594008 TTTAAAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 28 0.46
40 33 0.54
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTTGGTAAATCCTTAGAAATATTGGTAAATCGACAGAAA
Found at i:7594145 original size:40 final size:40
Alignment explanation
Indices: 7594101--7594182 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
7594091 AGCCTCATAA
* ** *
7594101 ATATTGATATAATGATAGAAATATT-GATAAGTTGTTAGAT
1 ATATTGATAAAACAATAGAAAT-TTCGATAAATTGTTAGAT
* *
7594141 ATATTGGTAAAACAATATAAATTTCGATAAATTGTTAGAT
1 ATATTGATAAAACAATAGAAATTTCGATAAATTGTTAGAT
7594181 AT
1 AT
7594183 TTTGGTAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (40 bp):
ATATTGATAAAACAATAGAAATTTCGATAAATTGTTAGAT
Found at i:7594162 original size:60 final size:60
Alignment explanation
Indices: 7594097--7594211 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
7594087 GTAAAGCCTC
* *
7594097 ATAAATATT-GATATAA-TGATAGAAATATTGATAAGTTGTTAGATATATTGGTAAAACAAT
1 ATAAAT-TTCGATA-AATTGATAGAAATATTGATAAGTCGTTAGATATATAGGTAAAACAAT
* * * * *
7594157 ATAAATTTCGATAAATTGTTAGATATTTTGGTAAGTCGTTGGATATATAGGTAAA
1 ATAAATTTCGATAAATTGATAGAAATATTGATAAGTCGTTAGATATATAGGTAAA
7594212 TTCTTAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 42 0.91
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (60 bp):
ATAAATTTCGATAAATTGATAGAAATATTGATAAGTCGTTAGATATATAGGTAAAACAAT
Found at i:7594184 original size:20 final size:20
Alignment explanation
Indices: 7594161--7594230 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
7594151 AACAATATAA
*
7594161 ATTTCGATAAATTGTTAGAT
1 ATTTTGATAAATTGTTAGAT
* * * *
7594181 ATTTTGGTAAGTCGTTGGAT
1 ATTTTGATAAATTGTTAGAT
* * * *
7594201 ATATAGGTAAATTCTTAGAT
1 ATTTTGATAAATTGTTAGAT
7594221 ATTTTGATAA
1 ATTTTGATAA
7594231 GCCGATTGAA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTTTGATAAATTGTTAGAT
Found at i:7594523 original size:20 final size:20
Alignment explanation
Indices: 7594472--7594524 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7594462 GAAAATTTGG
*
7594472 AAATATTGATAAAATCTTAT
1 AAATATTGGTAAAATCTTAT
* * *
7594492 AAATTTTAGTAAAGTCTTAT
1 AAATATTGGTAAAATCTTAT
7594512 AAATATTGGTAAA
1 AAATATTGGTAAA
7594525 TCAATATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (20 bp):
AAATATTGGTAAAATCTTAT
Found at i:7596294 original size:46 final size:46
Alignment explanation
Indices: 7596242--7596400 Score: 176
Period size: 46 Copynumber: 3.5 Consensus size: 46
7596232 CATATGTTGT
* *
7596242 GGACTCGAGAATACAAGAATAGGTTCCAAGCTCCTGCATACGTTGC
1 GGACTCGAGAATACAAAAATAGGTTCCAAGCTCCTGCATACATTGC
* * ** * * * *
7596288 GTACTCGAGAATATAGGATTAGGTTTCGAGCTCCTACATACATTGC
1 GGACTCGAGAATACAAAAATAGGTTCCAAGCTCCTGCATACATTGC
* *
7596334 GGACTTGAGAATACAAAAATAGGTTCCAAGTTCCTGCAT-CTATTGC
1 GGACTCGAGAATACAAAAATAGGTTCCAAGCTCCTGCATAC-ATTGC
* *
7596380 GAACTTGAGAATACAAAAATA
1 GGACTCGAGAATACAAAAATA
7596401 TTAAGCCCTG
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
45 1 0.01
46 92 0.99
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (46 bp):
GGACTCGAGAATACAAAAATAGGTTCCAAGCTCCTGCATACATTGC
Found at i:7606671 original size:30 final size:31
Alignment explanation
Indices: 7606611--7606672 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
7606601 TAATAATGAT
* *
7606611 ATTTAATTATGAGAATGTTTTTGTTTTAATC
1 ATTTAATTATGAAAATGTTTTTGATTTAATC
7606642 ATTTAATTAT-AAAAT-TTTTTCGATTTAATC
1 ATTTAATTATGAAAATGTTTTT-GATTTAATC
7606672 A
1 A
7606673 CTAAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 13 0.46
31 10 0.36
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (31 bp):
ATTTAATTATGAAAATGTTTTTGATTTAATC
Found at i:7609583 original size:21 final size:21
Alignment explanation
Indices: 7609557--7609596 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7609547 ACACACGAAT
7609557 AGAAGCTCGTGAGAGCTGAAC
1 AGAAGCTCGTGAGAGCTGAAC
7609578 AGAAGCTCGTGAGAGCTGA
1 AGAAGCTCGTGAGAGCTGA
7609597 TCCACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.35, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTGAGAGCTGAAC
Found at i:7613924 original size:15 final size:15
Alignment explanation
Indices: 7613904--7613940 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
7613894 ACACACGGCC
7613904 GTGTCACCTGCCCTT
1 GTGTCACCTGCCCTT
*
7613919 GTGTCACCTGGCCTT
1 GTGTCACCTGCCCTT
7613934 GTGTCAC
1 GTGTCAC
7613941 ACACAGCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.35, G:0.24, T:0.32
Consensus pattern (15 bp):
GTGTCACCTGCCCTT
Found at i:7617634 original size:41 final size:41
Alignment explanation
Indices: 7617584--7617732 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
7617574 GTATCAGTGA
*
7617584 AATTCAGGCTTTGTGCTTAGCAGGCTTATTGCCGGTGAATT
1 AATTCAGGCTTTGTGCCTAGCAGGCTTATTGCCGGTGAATT
*
7617625 AATTCAGGCTTTGTGCCTAGCAGGCTTATTACCGGTGAATT
1 AATTCAGGCTTTGTGCCTAGCAGGCTTATTGCCGGTGAATT
* * * * * **
7617666 ATTTCA-GATTTATGTCTAGCAGGCTTCA-TGCCGGTGTACC
1 AATTCAGGCTTTGTGCCTAGCAGGCTT-ATTGCCGGTGAATT
*
7617706 AAATCAGGCTTTAG-GCCTAGCAGGCTT
1 AATTCAGGCTTT-GTGCCTAGCAGGCTT
7617733 CGTGTCGGTG
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 29 0.32
41 61 0.68
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
AATTCAGGCTTTGTGCCTAGCAGGCTTATTGCCGGTGAATT
Found at i:7617742 original size:81 final size:81
Alignment explanation
Indices: 7617601--7617752 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
7617591 GCTTTGTGCT
** * * *
7617601 TAGCAGGCTTATTGCCGGTGAATTAATTCAGGCTTTGTGCCTAGCAGGCTTATTACCGGTGAATT
1 TAGCAGGCTTATTGCCGGTGAACCAAATCAGGCTTTGTGCCTAGCAGGCTTAGTACCGGTGAATC
7617666 ATTTCAGATTTATGTC
66 ATTTCAGATTTATGTC
* * ** *
7617682 TAGCAGGCTTCA-TGCCGGTGTACCAAATCAGGCTTTAG-GCCTAGCAGGCTTCGTGTCGGTGTA
1 TAGCAGGCTT-ATTGCCGGTGAACCAAATCAGGCTTT-GTGCCTAGCAGGCTTAGTACCGGTGAA
7617745 TCATTTCA
64 TCATTTCA
7617753 ATACTCGTGC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 57 0.97
82 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (81 bp):
TAGCAGGCTTATTGCCGGTGAACCAAATCAGGCTTTGTGCCTAGCAGGCTTAGTACCGGTGAATC
ATTTCAGATTTATGTC
Found at i:7626512 original size:30 final size:30
Alignment explanation
Indices: 7626458--7626541 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
7626448 TACAGGGGAC
* * *
7626458 ACACGGCCAAACCACATG-CCGTGTGTCAT
1 ACACGGGCAAAACACACGCCCGTGTGTCAT
7626487 ACACGGGCAAAACACACGCCCGTGTGTCAT
1 ACACGGGCAAAACACACGCCCGTGTGTCAT
* *
7626517 ACA-TGGCTAAAACACACGCTCGTGT
1 ACACGGGC-AAAACACACGCCCGTGT
7626542 CTCTACCCGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 18 0.38
30 30 0.62
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (30 bp):
ACACGGGCAAAACACACGCCCGTGTGTCAT
Found at i:7627242 original size:64 final size:64
Alignment explanation
Indices: 7627137--7627256 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 64
7627127 AATCTATATT
* * *** * **
7627137 AGGACACTCATAAAGAGCTGCAGTATGTCCGCCTTATATGTAGGATCCATACCGATCATAAAAC
1 AGGACACTCACAAAGAGCTGCAGTATATCCGCAACACATGTAGGATAAATACCGATCATAAAAC
* *
7627201 AGGACGCTCACAAAGAGCTGCGGTATATCCGCAACACATGTAGGATAAATACCGAT
1 AGGACACTCACAAAGAGCTGCAGTATATCCGCAACACATGTAGGATAAATACCGAT
7627257 TAGGATGCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (64 bp):
AGGACACTCACAAAGAGCTGCAGTATATCCGCAACACATGTAGGATAAATACCGATCATAAAAC
Found at i:7635054 original size:25 final size:25
Alignment explanation
Indices: 7635008--7635056 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7634998 TTCAAGCGAG
*
7635008 CTATATCAGAAAGGTCACAAAGAGC
1 CTATATCAGAAAGCTCACAAAGAGC
* * *
7635033 CTATATCAGGATGCTCATAAAGAG
1 CTATATCAGAAAGCTCACAAAGAG
7635057 TTGTGGTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (25 bp):
CTATATCAGAAAGCTCACAAAGAGC
Found at i:7640695 original size:16 final size:16
Alignment explanation
Indices: 7640674--7640704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7640664 ATAATTTATA
7640674 TGTACATACATACATG
1 TGTACATACATACATG
*
7640690 TGTACATCCATACAT
1 TGTACATACATACAT
7640705 TTCTTGCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (16 bp):
TGTACATACATACATG
Found at i:7640743 original size:4 final size:4
Alignment explanation
Indices: 7640722--7640765 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
7640712 ATTTTTTATA
* *
7640722 ATTT CATTT GTTT GATTT ATTT ATTC ATTT ATTT ATTT ATTT AT
1 ATTT -ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
7640766 CCACTACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:7644055 original size:20 final size:19
Alignment explanation
Indices: 7644030--7644074 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
7644020 GAGTTTAGAT
7644030 TCAAAAAA-AAATTAAAAAAA
1 TCAAAAAACAAA--AAAAAAA
7644050 TCAAAAAATCAAAAAAAAAA
1 TCAAAAAA-CAAAAAAAAAA
7644070 TCAAA
1 TCAAA
7644075 GTCAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 20 0.87
22 3 0.13
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (19 bp):
TCAAAAAACAAAAAAAAAA
Found at i:7644679 original size:9 final size:9
Alignment explanation
Indices: 7644660--7644692 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
7644650 CTAAGTCAAA
7644660 AAAAAAGATG
1 AAAAAA-ATG
7644670 AAAAAAATG
1 AAAAAAATG
7644679 AAAAAAATG
1 AAAAAAATG
7644688 AAAAA
1 AAAAA
7644693 GTAAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:7646060 original size:88 final size:87
Alignment explanation
Indices: 7645906--7646157 Score: 355
Period size: 88 Copynumber: 2.9 Consensus size: 87
7645896 CAACGAAGTT
* * * *
7645906 AAAGGTCTTGCCTTCCTGC-ATTGACAGCGAAGCAGGTCAAAGACATAAACCTTGCCTCTCTCGG
1 AAAGATCTTGCC-TCCT-CTATGGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
7645970 TTGTGATGGAGCTGGTTGAAGACA
64 TTGTGATGGAGCTGGTTGAAGACA
*
7645994 AAAGATCTTGCC-CCTCTCTCGGAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
1 AAAGATCTTGCCTCCTCTAT-GG-ACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
7646058 TTGTGATGGAGCTGGTTGAAGACA
64 TTGTGATGGAGCTGGTTGAAGACA
* * * * *
7646082 AAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCTTCTCTCGGT
1 AAAGATCTTGCC-TCCTCTATGGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
7646147 TGTGATGGAGC
65 TGTGATGGAGC
7646158 AGATCTTGCC
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
85 1 0.01
86 4 0.03
87 1 0.01
88 136 0.92
89 1 0.01
90 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (87 bp):
AAAGATCTTGCCTCCTCTATGGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
GTGATGGAGCTGGTTGAAGACA
Found at i:7646136 original size:44 final size:46
Alignment explanation
Indices: 7645927--7646151 Score: 177
Period size: 44 Copynumber: 5.1 Consensus size: 46
7645917 CTTCCTGCAT
** *
7645927 TGACAGCGAAGCAGGTCAAAGACATAAACCTTGCCTCTCTCGGTTG
1 TGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * * *
7645973 TGA-TG-G-AGCTGGTTGAAGACAAAAGATCTTGCCCCTCTC--TCG
1 TGACAGCGAAGCAGGTTGAAGACACAA-ACCTTGCCTCTCTCGGTTG
*
7646015 -GAACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 TG-ACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
7646061 TGA-TG-G-AGCTGGTTGAAGACAAAAGATCTTGCCT-TC-CTGTAT-
1 TGACAGCGAAGCAGGTTGAAGACACAA-ACCTTGCCTCTCTCGGT-TG
* *
7646103 TGACAGCGAAGCAGATTGAAGACACAAACCTTGCTTCTCTCGGTTG
1 TGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
7646149 TGA
1 TGA
7646152 TGGAGCAGAT
Statistics
Matches: 135, Mismatches: 28, Indels: 32
0.69 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 9 0.07
43 34 0.25
44 43 0.32
45 35 0.26
46 12 0.09
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (46 bp):
TGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTG
Found at i:7646977 original size:50 final size:49
Alignment explanation
Indices: 7646901--7647149 Score: 277
Period size: 50 Copynumber: 5.0 Consensus size: 49
7646891 NNNNNNNNNN
7646901 AGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
1 AGCGGATCTTACTT-CCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
* * ** **
7646951 AGCGGATCTTACTCTCCT-AGCGTTGCAGTGGAGCAGATTGAAGCTACAAC
1 AGCGGATCTTACT-TCCTGA-CATTGCAATTAAAAAGATTGAAGCTACAAC
7647001 AGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
1 AGCGGATCTTACTT-CCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
* * * ** *
7647051 AGCGAATCTTACTTCCCAGGCGA-TGCAATGGAACAGATTGAAGCTACAAC
1 AGCGGATCTTACTT-CCTGAC-ATTGCAATTAAAAAGATTGAAGCTACAAC
* * * * *
7647101 GGCGAATCTCACTTCCCGACATTGCAATTTAAAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTCCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
7647150 GGTAAATCTT
Statistics
Matches: 168, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 30 0.18
50 134 0.80
51 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (49 bp):
AGCGGATCTTACTTCCTGACATTGCAATTAAAAAGATTGAAGCTACAAC
Found at i:7647088 original size:100 final size:100
Alignment explanation
Indices: 7646901--7647465 Score: 641
Period size: 100 Copynumber: 5.7 Consensus size: 100
7646891 NNNNNNNNNN
* * * * *
7646901 AGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTCT
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACT-T
* * * *
7646966 CCTA-GCGTTGCAGTGGAGCAGATTGAAGCTACAAC
65 CCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * * *
7647001 AGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTC
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
**
7647066 CCAGGCGATGCAATGGAACAGATTGAAGCTACAAC
66 CCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * ** *
7647101 GGCGAATCTCACTT-CCCGACATTGCAATTTAAAAGATTGAAGCTACAACGGTAAATCTTATTTC
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
* *
7647165 CCAGGC-AGTGCAGCGGAACAGATTGAAGCCACAAT
66 CCAGGCGA-TGCAGCGGAACAGATTGAAGCTACAAC
* * * * * *
7647200 GGCGAATCTTACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAATGGCGAATCTTACTTC
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
* **
7647265 CCAGGCGATGCAGCGAAACAGATTGAAGCTATGAC
66 CCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * * * * * * *
7647300 AGTGAATCTCGCTTCCCCGACATCGCAACTCAAAAGATTAAAGCCACAATGGCGAATCTTACTTC
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
* * *
7647365 CCAGGCAATGCAGCAGAACAGATTGAAGCTACGAC
66 CCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* ** * * * * *
7647400 AGTGAATCTCGTTTCCCCGACATTGCAAGTAAATAGATTAAAGCTACGACTGCGAATCTTACTTC
1 AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
7647465 C
66 C
7647466 TGAAATTGCA
Statistics
Matches: 411, Mismatches: 50, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
98 1 0.00
99 90 0.22
100 319 0.78
101 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (100 bp):
AGCGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTC
CCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
Done.