Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 86 of 325
Found at i:24616743 original size:45 final size:45
Alignment explanation
Indices: 24616692--24616782 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
24616682 AGATAAAAGC
*
24616692 TACTTATCACTTGATAAAGAACAAATTCAATTTATTTTATTTAAT
1 TACTTATCACTTAATAAAGAACAAATTCAATTTATTTTATTTAAT
* ** * * *
24616737 TACTTATCACTTAATAAATAATTATTTTATTTTATTTTATTTAAT
1 TACTTATCACTTAATAAAGAACAAATTCAATTTATTTTATTTAAT
24616782 T
1 T
24616783 TTATTTTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (45 bp):
TACTTATCACTTAATAAAGAACAAATTCAATTTATTTTATTTAAT
Found at i:24616768 original size:5 final size:5
Alignment explanation
Indices: 24616758--24616790 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24616748 TAATAAATAA
*
24616758 TTATT TTATT TTATT TTATT TAATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTA
24616791 CTATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:24625239 original size:128 final size:128
Alignment explanation
Indices: 24624976--24625239 Score: 384
Period size: 128 Copynumber: 2.1 Consensus size: 128
24624966 AATCTAGAGT
* *
24624976 AATTTTTTCTTTTTCTCAACCAAAAGAAGCCTTTTTATTCTGATTACAACCCAAAAATTGTGTAC
1 AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTGATTACAACCCAAAAATTGTGCAC
* * * * * *
24625041 AAAATGCCCTTTAGTGTGTATTTTTATTGGTGTTGGAGTTGGACAAGAACTACCTCTACAGTC
66 AAAATGCCCATCAATGTGAATTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
* * * *
24625104 AATTTTTTCTTTCTCTCAACCAAAAGAAGGCTTTTTGTTCTGATTACAACCCAAAAATTTTGCCC
1 AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTGATTACAACCCAAAAATTGTGCAC
* **
24625169 AAAATGCCCATCAATGTGAATTTTTTATTAGTGTTGGAGTTGGACAAGGACTACCTCTGGAATC
66 AAAATGCCCATCAATGTGAA-TTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
24625233 AATTTTT
1 AATTTTT
24625240 GTCTCCTCTC
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
128 75 0.62
129 45 0.38
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (128 bp):
AATTTTTTCTTTCTCTCAACCAAAAGAAGCCTTTTTATTCTGATTACAACCCAAAAATTGTGCAC
AAAATGCCCATCAATGTGAATTTTTATTAGTGTTGGAGTTGGACAAGAACTACCTCTACAATC
Found at i:24639522 original size:48 final size:46
Alignment explanation
Indices: 24639450--24639731 Score: 219
Period size: 48 Copynumber: 5.9 Consensus size: 46
24639440 GACATTTAGG
* *
24639450 TGATATGTGTGCCAGTGTAAGACCATGTCTTGGACATGGCATCGACCA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TTGGACATGGCATCG-CCA
* *
24639498 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAA
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGG-ACATGGCATC-GCCA
* * * **
24639546 TG-TAATAAGAGCCAATGTAAGACCATGTTTGGGACATGGCATAGGTA
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTTT-GGACATGGCATCGCCA
* * * *
24639593 TAAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGAG-ATCGGCA
1 TGATATGAGAGCCAGTGTAAGACCATGT-TTGGACATG-GCATCGCCA
* * * * * * *
24639640 TTGAGACGAGAGCTAGTGCAATACCATGTCTGGGACATGACATCGGCC-
1 -TGATATGAGAGCCAGTGTAAGACCATGT-TTGGACATGGCATC-GCCA
* * *
24639688 TAGACATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATGTTTG-GACATGGCATC
24639732 AGTAATTCAC
Statistics
Matches: 188, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
47 45 0.24
48 138 0.73
49 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
TGATATGAGAGCCAGTGTAAGACCATGTTTGGACATGGCATCGCCA
Found at i:24639652 original size:95 final size:96
Alignment explanation
Indices: 24639502--24639733 Score: 247
Period size: 95 Copynumber: 2.4 Consensus size: 96
24639492 CGACCACGAT
* * *
24639502 ATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAATGTAATAAGAGCCAATGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTTAGGAACATGGCATCAGCAATGTAACAAGAGCCAATGCAAG
* * * *
24639567 ACCATGTTTGGGACATGGCATAGGTATA-AG
66 ACCATGTCTGGGACATGACATAGGCATAGAC
* * * * *
24639597 ATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGAG-ATCGGCATTG-AGACGAGAGCTAGTGC
1 ATGAGAGCCAGTGTAAGACCATGT-TAGGAACATG-GCATCAGCAATGTA-ACAAGAGCCAATGC
* * *
24639659 AATACCATGTCTGGGACATGACATCGGCCTAGAC
63 AAGACCATGTCTGGGACATGACATAGGCATAGAC
* * *
24639693 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCAG
1 ATGAGAGCCAGTGTAAGACCATGTTAGGAACATGGCATCAG
24639734 TAATTCACCC
Statistics
Matches: 112, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
94 1 0.01
95 74 0.66
96 37 0.33
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (96 bp):
ATGAGAGCCAGTGTAAGACCATGTTAGGAACATGGCATCAGCAATGTAACAAGAGCCAATGCAAG
ACCATGTCTGGGACATGACATAGGCATAGAC
Found at i:24647209 original size:48 final size:48
Alignment explanation
Indices: 24647137--24647372 Score: 206
Period size: 48 Copynumber: 4.9 Consensus size: 48
24647127 ACATTTGGGT
* * * *
24647137 GATATGTGTGCCAGTGTAACACCATGTTTGGGATATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * *
24647185 GATATGAGAGCCAGTGTAAGACCATGGTTGGAACATGGCATCGACAAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * *
24647233 G-TAATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-C
* * ** * * * *
24647281 GAGACGAGAGTTAGTGTAAGACCATATTTGGGACATGACATCAGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
** * *
24647329 GACGTGTGAGCCAGTGTAAGACCATGTTTGGCACATGGCATCGG
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
24647373 TAATTCACCC
Statistics
Matches: 146, Mismatches: 38, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
47 2 0.01
48 143 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
Found at i:24649541 original size:93 final size:93
Alignment explanation
Indices: 24649429--24649600 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24649419 GCCCATAAGT
* *
24649429 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24649494 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
24649522 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24649587 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
24649601 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24649596 original size:46 final size:46
Alignment explanation
Indices: 24649421--24649596 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24649411 TGTAACCCGC
* * *
24649421 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
24649467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
24649517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
24649560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24649597 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:24652024 original size:30 final size:30
Alignment explanation
Indices: 24651980--24652068 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
24651970 CAAAGATAAC
24651980 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
24652009 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
24652039 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
24652069 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:24652028 original size:15 final size:15
Alignment explanation
Indices: 24651980--24652059 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
24651970 CAAAGATAAC
*
24651980 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
24651994 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
24652009 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
24652024 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
24652039 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
24652054 AAGAAA
1 AAGAAA
24652060 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:24652068 original size:15 final size:15
Alignment explanation
Indices: 24651991--24652068 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
24651981 AGAAAACCGA
24651991 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
24652006 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
24652020 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
24652035 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
24652051 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
24652066 ATA
1 ATA
24652069 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:24655092 original size:93 final size:93
Alignment explanation
Indices: 24654980--24655151 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24654970 GCCCATAAGT
* *
24654980 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24655045 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
24655073 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24655138 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
24655152 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24655147 original size:46 final size:46
Alignment explanation
Indices: 24654972--24655147 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24654962 TGTAACCCGC
* * *
24654972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
24655018 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
24655068 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
24655111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24655148 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:24658026 original size:13 final size:13
Alignment explanation
Indices: 24657990--24658028 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24657980 TCCAAGTCAG
24657990 ATAAAAAATTAAA
1 ATAAAAAATTAAA
*
24658003 AGGAAAAAATTAAA
1 A-TAAAAAATTAAA
*
24658017 ATAAATAATTAA
1 ATAAAAAATTAA
24658029 GATAGAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:24666458 original size:14 final size:14
Alignment explanation
Indices: 24666441--24666482 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24666431 TTATGTAATT
24666441 TATATAAAATTAAA
1 TATATAAAATTAAA
*
24666455 TATATAATATTATAA
1 TATATAAAATTA-AA
*
24666470 TATA-AACATTAAA
1 TATATAAAATTAAA
24666483 AGACACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATAAAATTAAA
Found at i:24684716 original size:27 final size:26
Alignment explanation
Indices: 24684685--24684739 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
24684675 TATATATCTT
*
24684685 ATAAAC-ATACTAAAATTAATTTAATAA
1 ATAAACTATAC-AAAATTAAATTAA-AA
*
24684712 ATAAACTATACAATATTAAATTAAAA
1 ATAAACTATACAAAATTAAATTAAAA
24684738 AT
1 AT
24684740 TATAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAACTATACAAAATTAAATTAAAA
Found at i:24687626 original size:25 final size:25
Alignment explanation
Indices: 24687596--24687646 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24687586 CAAAAACAAG
*
24687596 TTAACTCATATTCAAATGCTTGGGC
1 TTAACTCACATTCAAATGCTTGGGC
24687621 TTAACTCACATTCAAATGCTTGGGC
1 TTAACTCACATTCAAATGCTTGGGC
24687646 T
1 T
24687647 CTAAGCAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (25 bp):
TTAACTCACATTCAAATGCTTGGGC
Found at i:24697079 original size:23 final size:24
Alignment explanation
Indices: 24697048--24697094 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
24697038 AGTTAAAAAT
24697048 TATTGTATTAATATTTTACTTAGA
1 TATTGTATTAATATTTTACTTAGA
* *
24697072 TATT-TATTATTATTTTATTTAGA
1 TATTGTATTAATATTTTACTTAGA
24697095 AAATGGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTGTATTAATATTTTACTTAGA
Found at i:24699735 original size:16 final size:17
Alignment explanation
Indices: 24699716--24699748 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24699706 TTAAATTATC
*
24699716 ATCAATATAAAA-AAAA
1 ATCAAAATAAAAGAAAA
24699732 ATCAAAATAAAAGAAAA
1 ATCAAAATAAAAGAAAA
24699749 GATAAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (17 bp):
ATCAAAATAAAAGAAAA
Found at i:24700212 original size:13 final size:13
Alignment explanation
Indices: 24700133--24700211 Score: 68
Period size: 13 Copynumber: 6.1 Consensus size: 13
24700123 AGTTTAACAA
24700133 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
24700146 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
24700159 TGCTGTGGAATAG
1 TGCTTTTGAAAAG
* **
24700172 TGCTCTTGGGAAG
1 TGCTTTTGAAAAG
**
24700185 TGCTTTTGGGAAG
1 TGCTTTTGAAAAG
*
24700198 TTCTTTTGAAAAG
1 TGCTTTTGAAAAG
24700211 T
1 T
24700212 TTGGTTTAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24701304 original size:44 final size:44
Alignment explanation
Indices: 24701250--24701404 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
24701240 CCAATATGTG
*
24701250 ATTTCGTGTAAGACCACT-TCTGGGACATTGGCATCG-ATTTGAC
1 ATTTCGTGTAAGACCA-TGTCTGGGACATCGGCATCGTATTTGAC
24701293 ATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTG--
1 ATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGAC
* * * * * *
24701336 ATTTCATGTAAAACCTTGTCTGAGAGAGT-GACATCGATATTTG--
1 ATTTCGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGAC
* * *
24701379 ATTACATGTAAGACCACGTCTGGGAC
1 ATTTCGTGTAAGACCATGTCTGGGAC
24701405 GTTAGCATTG
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
42 24 0.26
43 36 0.38
44 29 0.31
45 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGAC
Found at i:24703619 original size:40 final size:40
Alignment explanation
Indices: 24703560--24703728 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
24703550 CGGGACTTTA
* * *
24703560 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
24703600 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
24703640 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
24703680 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
24703720 CCCGGATAT
1 CCCGGATAT
24703729 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:24711655 original size:40 final size:40
Alignment explanation
Indices: 24711596--24711764 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
24711586 CGGGACTTTA
* * *
24711596 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
24711636 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
24711676 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
24711716 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
24711756 CCCGGATAT
1 CCCGGATAT
24711765 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:24720964 original size:46 final size:44
Alignment explanation
Indices: 24720886--24720999 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 44
24720876 CTCTATCTAG
*
24720886 GACATGTATAGGACATGCATCGGTCTCGAGATGTAGGCCAGTGTAA
1 GACATGTCTAGGACATGCATCGGTCTCGAGATGT--GCCAGTGTAA
* **
24720932 GACATGTCTAGGACATGCATCGGT-TACTAGATGTTTCAGTGTAA
1 GACATGTCTAGGACATGCATCGGTCT-CGAGATGTGCCAGTGTAA
* *
24720976 GACCAAGTCTGGGACATGGCATCG
1 GA-CATGTCTAGGACAT-GCATCG
24721000 ACACGTATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
44 10 0.17
45 13 0.22
46 36 0.61
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
GACATGTCTAGGACATGCATCGGTCTCGAGATGTGCCAGTGTAA
Found at i:24727861 original size:22 final size:22
Alignment explanation
Indices: 24727833--24727878 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24727823 ATTTTGCAAA
24727833 ATGGTTGATAGTCTAGGGATTT
1 ATGGTTGATAGTCTAGGGATTT
*
24727855 ATGGTTGATATTCTAGGGATTT
1 ATGGTTGATAGTCTAGGGATTT
24727877 AT
1 AT
24727879 CATGGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.43
Consensus pattern (22 bp):
ATGGTTGATAGTCTAGGGATTT
Found at i:24728586 original size:23 final size:23
Alignment explanation
Indices: 24728559--24728604 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24728549 AGCTAGTGTA
24728559 AGACCTTTTCTGAGACATGGCAT
1 AGACCTTTTCTGAGACATGGCAT
*
24728582 AGACCTTTTCTGGGACATGGCAT
1 AGACCTTTTCTGAGACATGGCAT
24728605 CGACTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
AGACCTTTTCTGAGACATGGCAT
Found at i:24728674 original size:46 final size:45
Alignment explanation
Indices: 24728624--24728847 Score: 202
Period size: 46 Copynumber: 4.8 Consensus size: 45
24728614 GACGAGAGCT
*
24728624 AGTGTAAGACATGTCCGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGT--GCC
* * *
24728670 AGTGTAAGACATATCTGGGACAT-GCATCAG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATGTGCC
** * *
24728714 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-C-TCGAGATGTGCC
* * * *
24728762 AGTGTAAGACGATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCTCGAGATGT----GCC
*
24728812 AGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTC
24728848 AATTTTGATA
Statistics
Matches: 147, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.07
45 15 0.10
46 46 0.31
47 1 0.01
48 40 0.27
49 1 0.01
50 32 0.22
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTGCC
Found at i:24728767 original size:48 final size:47
Alignment explanation
Indices: 24728669--24728934 Score: 182
Period size: 48 Copynumber: 5.6 Consensus size: 47
24728659 AGATGTAAGC
* * *
24728669 CAGTGTAAGA-CATATCTGGGACAT-GCATCAGCTACG--AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATAGAGGTGT
24728713 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATAGAGGTGT
* * * *
24728761 CAGTGTAAGACGATGTCTGGGACATGGCATCGGCATGGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATA-GAG-GTGT
* * * * *** *
24728810 CTAGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCAATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATAGAGGT-GT
* * * * ** ** * * * *
24728860 TAGTGTAAGACCATCTCTAGGATATGGCATCAACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAGGTGT
24728907 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACCATGTCTGGGACATGGC
24728935 TTTGGTATTA
Statistics
Matches: 172, Mismatches: 38, Indels: 21
0.74 0.16 0.09
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 7 0.04
47 25 0.15
48 48 0.28
49 32 0.19
50 33 0.19
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAGGTGT
Found at i:24730144 original size:21 final size:20
Alignment explanation
Indices: 24730110--24730149 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24730100 GTTGTAATGA
* *
24730110 CCACACGGGTGTGTTGCCCTT
1 CCACACGAGCGTG-TGCCCTT
24730131 CCACACGAGCGTGTGCCCT
1 CCACACGAGCGTGTGCCCT
24730150 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGAGCGTGTGCCCTT
Found at i:24732797 original size:33 final size:33
Alignment explanation
Indices: 24732740--24732828 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
24732730 TTTATGTTAT
* *
24732740 TTTGATGCCTTGATGGTTGATGTGCTTTTGGCAC
1 TTTGATG-CTTAATGGTTGGTGTGCTTTTGGCAC
24732774 TTTGATGCTTAATGGTTGGTGTGCTTTTGGCAC
1 TTTGATGCTTAATGGTTGGTGTGCTTTTGGCAC
*
24732807 TTTAATGCTTAATGGTTGGTGT
1 TTTGATGCTTAATGGTTGGTGT
24732829 TATATGATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 45 0.87
34 7 0.13
ACGTcount: A:0.13, C:0.11, G:0.29, T:0.46
Consensus pattern (33 bp):
TTTGATGCTTAATGGTTGGTGTGCTTTTGGCAC
Found at i:24749817 original size:30 final size:30
Alignment explanation
Indices: 24749762--24749921 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
24749752 ATAGTGAATC
24749762 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
24749791 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
24749821 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
24749850 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
24749878 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
24749908 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24749922 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:24749854 original size:59 final size:57
Alignment explanation
Indices: 24749762--24749921 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
24749752 ATAGTGAATC
*
24749762 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
24749821 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
24749878 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
24749922 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:24757257 original size:12 final size:12
Alignment explanation
Indices: 24757240--24757264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24757230 ATGTAAGTGA
24757240 TCTTGATGATTT
1 TCTTGATGATTT
24757252 TCTTGATGATTT
1 TCTTGATGATTT
24757264 T
1 T
24757265 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:24758132 original size:46 final size:46
Alignment explanation
Indices: 24757979--24758146 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
24757969 TGATTTGTGC
* * * *
24757979 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAATGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGA
* * * *
24758025 GCCAATGTAAGACCATGTCTGGGACATGGCATCAG-CATCCA-AACGAGG
1 GCCAATGTAAGA-CATGTCTGGGACAT-GCTTCAGCCAT--ATTATGAGA
* * * *
24758073 GCTACTGTAAGACATGTTTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAATGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGA
*
24758119 GCCAAAGTAAGACATGTCTGGGACATGC
1 GCCAATGTAAGACATGTCTGGGACATGC
24758147 ATCGGCCTCG
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 45 0.46
47 31 0.32
48 19 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
GCCAATGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGA
Found at i:24758240 original size:44 final size:46
Alignment explanation
Indices: 24758125--24758240 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 46
24758115 GAGTGCCAAA
*
24758125 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATAGCAAGT
* * * * *
24758172 GTAAGACGTGTCTGGGATACGCATCGG-CT-A-AGAGTTGTGCAAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT-AGCAAGT
* *
24758216 GTAAGATATGTTTGGGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
24758241 AGCACGCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 5 0.09
44 26 0.46
46 2 0.04
47 24 0.42
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATAGCAAGT
Found at i:24759618 original size:46 final size:46
Alignment explanation
Indices: 24759565--24759740 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24759555 TATTTGGGCA
24759565 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
24759611 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
24759658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
24759704 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24759741 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:24759720 original size:93 final size:93
Alignment explanation
Indices: 24759561--24759732 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24759551 GGGATATTTG
* *
24759561 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24759626 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
24759654 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24759719 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
24759733 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:24762713 original size:15 final size:15
Alignment explanation
Indices: 24762693--24762761 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
24762683 GTATCTTGGG
24762693 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
24762708 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
24762723 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
24762738 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
24762753 TTTCTTTAT
1 TTTCTTTAT
24762762 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:24762762 original size:30 final size:30
Alignment explanation
Indices: 24762684--24762771 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
24762674 CATAGTATCG
* * * *
24762684 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
24762714 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
24762744 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
24762772 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:24775112 original size:17 final size:17
Alignment explanation
Indices: 24775090--24775131 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
24775080 ACACATAATC
24775090 ATTATTTATTCAATTTT
1 ATTATTTATTCAATTTT
24775107 ATTATTTATTCAATTTT
1 ATTATTTATTCAATTTT
*
24775124 ATCATTTA
1 ATTATTTA
24775132 ACATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTTATTCAATTTT
Found at i:24786069 original size:12 final size:12
Alignment explanation
Indices: 24786049--24786079 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24786039 CTTCCTCGAT
*
24786049 CACACGGCCTAC
1 CACATGGCCTAC
24786061 CACATGGCCTAC
1 CACATGGCCTAC
24786073 CACATGG
1 CACATGG
24786080 TCGTATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.42, G:0.19, T:0.13
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:24788684 original size:27 final size:28
Alignment explanation
Indices: 24788654--24788726 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
24788644 ATCCATAGAA
24788654 GTAAGTCCGCTAGGACAATAAACAC-GG
1 GTAAGTCCGCTAGGACAATAAACACGGG
* * * *
24788681 GTAAGTCCACCAGAACAGTAAACACGGG
1 GTAAGTCCGCTAGGACAATAAACACGGG
* *
24788709 GTAGGTCCGTTAGGACAA
1 GTAAGTCCGCTAGGACAA
24788727 GGGAAATGGG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (28 bp):
GTAAGTCCGCTAGGACAATAAACACGGG
Found at i:24799487 original size:95 final size:93
Alignment explanation
Indices: 24799326--24799518 Score: 359
Period size: 95 Copynumber: 2.1 Consensus size: 93
24799316 TGTGTGTGTA
24799326 ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
1 ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
24799391 ATGATTTATGATATTATCTAATCTTTCC
66 ATGATTTATGATATTATCTAATCTTTCC
24799419 ATTTAAATAGTGAGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGT
1 ATTTAAATAGT--GAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGT
*
24799484 TTATGATTTATGATATTATCTGATCTTTCC
64 TTATGATTTATGATATTATCTAATCTTTCC
24799514 ATTTA
1 ATTTA
24799519 TATTATCTAT
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
93 11 0.11
95 86 0.89
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.42
Consensus pattern (93 bp):
ATTTAAATAGTGAAGTGTTAAAATCAACATTAAAAATGGTTTAAAAAGTAATTTCAATATTGTTT
ATGATTTATGATATTATCTAATCTTTCC
Found at i:24801651 original size:13 final size:13
Alignment explanation
Indices: 24801633--24801661 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24801623 TTTTTATTTT
24801633 TCATAAATTGGTA
1 TCATAAATTGGTA
24801646 TCATAAATTGGTA
1 TCATAAATTGGTA
24801659 TCA
1 TCA
24801662 GAGCTTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (13 bp):
TCATAAATTGGTA
Found at i:24809154 original size:3 final size:3
Alignment explanation
Indices: 24809146--24809179 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24809136 CAGCTAGACT
24809146 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
24809180 ACATTCATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:24816363 original size:13 final size:13
Alignment explanation
Indices: 24816345--24816369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24816335 GAGTATAAAT
24816345 GTAAATAAAATAA
1 GTAAATAAAATAA
24816358 GTAAATAAAATA
1 GTAAATAAAATA
24816370 CTAAAGAAAT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
GTAAATAAAATAA
Found at i:24817643 original size:143 final size:143
Alignment explanation
Indices: 24817389--24818274 Score: 987
Period size: 143 Copynumber: 6.2 Consensus size: 143
24817379 TGACTTTGGC
* * * * * *
24817389 CTGCTCTACTGCTACTTCA-GAGAGATAAGA--T-CCGTAACTTGTAGCTTTAATCTGCTCCACT
1 CTGCTCCACTGCAACTTCAGGA-AGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACT
* * * * * * * * * * ***
24817450 ACAACTTTAGAGAAATGAGATTCACTATATTCAG-CTTGCTCCACTACAACTCCAAACAGATAAG
65 GCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTC-TGCTCCGCTGCAACTTCAGGGAGATAAG
24817514 GCTGGTGGCTTCAAT
129 GCTGGTGGCTTCAAT
* ** * *
24817529 CTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTCATAATTTGTAGCTTTAATCTATTCCACTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * *
24817594 CAACATCAGGGAAATAATATTCGTTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGT
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
24817659 TGGTGGCTTCAAT
131 TGGTGGCTTCAAT
* * * * * *
24817672 CTACTCCATTGTAACTTCAGGAAGATAAAATCTGCCATAATTTGTAGCTTCAATCTGTTCCATTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * *
24817737 CAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCGCAGCAACTCCAGGGAGATAAGGC
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
*
24817802 TGGTGGCATCAAT
131 TGGTGGCTTCAAT
*
24817815 CTGCTCCATTGCAACTTCAGGAAGATAAGAT-TCACCATAATTTGTAGCTTCAATCTGTTCCACT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCT-ACCATAATTTGTAGCTTCAATCTGTTCCACT
* * *
24817879 ACAACTTCAGGGAAATAAGATTCGCTGTCTTAAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGG
65 GCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGG
24817944 CTGGTGGCTTCAAT
130 CTGGTGGCTTCAAT
* * * * * *
24817958 CTGCTCCACTGCAACTTTAGAAAGATAAGATCTACCTTAATTTATAACTTCAATTTGTTCCACTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * *
24818023 CAACTTCAGAGAAATAAGATTCACTGTCTTCAGTCTTCTCGGCTGCAACTTTAGGGAGATAAGGC
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
* *
24818088 TAGCGGCTTCAAT
131 TGGTGGCTTCAAT
* * *
24818101 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGATTTAATCTGTTTCACTG
1 CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * * ** * *
24818166 TAACATCAGGGAAGTAAGATTCACTGTCTTC-GATCTGCTACATTGTAACTTCAAGGAGATAAGA
66 CAACTTCAGGGAAATAAGATTCGCTGTCTTCAG-TCTGCTCCGCTGCAACTTCAGGGAGATAAG-
* * **
24818230 TCT-ATAACTTCAAT
129 GCTGGTGGCTTCAAT
* * *
24818244 CTGCTCCACTGCTACTTCAGGGAGATGAGAT
1 CTGCTCCACTGCAACTTCAGGAAGATAAGAT
24818275 TTATGACTTC
Statistics
Matches: 634, Mismatches: 103, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
140 25 0.04
141 2 0.00
142 3 0.00
143 600 0.95
144 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (143 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
TGGTGGCTTCAAT
Found at i:24818315 original size:44 final size:44
Alignment explanation
Indices: 24818213--24818323 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
24818203 CTACATTGTA
* * * * *
24818213 ACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTGCT
1 ACTTCAAGGGGATGAGATTTATGACTTCAATCTACTCCACTGCT
*
24818257 ACTTC-AGGGAGATGAGATTTATGACTTCAATCTACTCCATTGCT
1 ACTTCAAGGG-GATGAGATTTATGACTTCAATCTACTCCACTGCT
*
24818301 ACTTCAAGGGGATGAGACTTATG
1 ACTTCAAGGGGATGAGATTTATG
24818324 GATTTATCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.05
44 51 0.88
45 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTTCAAGGGGATGAGATTTATGACTTCAATCTACTCCACTGCT
Found at i:24822661 original size:20 final size:20
Alignment explanation
Indices: 24822636--24822686 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
24822626 TCCTTTTGTG
*
24822636 AAATGCAATGCATATG-ATAA
1 AAATGCAATGCAGATGCAT-A
24822656 AAATGCAATGCAGATGCATA
1 AAATGCAATGCAGATGCATA
24822676 AAATG-AATGCA
1 AAATGCAATGCA
24822687 AAAAGAGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (20 bp):
AAATGCAATGCAGATGCATA
Found at i:24834476 original size:29 final size:29
Alignment explanation
Indices: 24834443--24834545 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
24834433 GTGACGAGAT
24834443 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
24834472 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
24834501 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
24834530 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24834546 AAATCGAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:24842323 original size:29 final size:29
Alignment explanation
Indices: 24842290--24842363 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
24842280 GTGACGAGAT
24842290 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
24842319 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
24842348 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24842364 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:24842379 original size:29 final size:29
Alignment explanation
Indices: 24842347--24842423 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
24842337 CTGGAAATAT
* *
24842347 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
24842376 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
24842405 ATGGCACTAAGTGNTGCGA
1 ATGGCACTAAGTG-TGCGA
24842424 AATCAGAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 33 0.89
30 4 0.11
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:24854733 original size:68 final size:67
Alignment explanation
Indices: 24854661--24854810 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
24854651 CATCATGTGT
* * * *
24854661 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
24854723 ATGTAG
62 ATGTAG
** * *
24854729 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
24854794 AG
66 AG
24854796 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
24854811 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:24854766 original size:64 final size:64
Alignment explanation
Indices: 24854685--24854868 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
24854675 AGACATTATG
* *
24854685 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
24854749 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24854814 AA
63 AA
* * * *
24854816 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
24854869 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24859181 original size:68 final size:67
Alignment explanation
Indices: 24859109--24859258 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
24859099 CATCATGTGT
* * * *
24859109 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
24859171 ATGTAG
62 ATGTAG
** * *
24859177 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
24859242 AG
66 AG
24859244 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
24859259 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:24859214 original size:64 final size:64
Alignment explanation
Indices: 24859133--24859316 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
24859123 AGACATTATG
* *
24859133 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
24859197 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24859262 AA
63 AA
* * * *
24859264 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
24859317 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24861328 original size:68 final size:67
Alignment explanation
Indices: 24861256--24861405 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
24861246 CATCATGTGT
* * * *
24861256 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
24861318 ATGTAG
62 ATGTAG
** * *
24861324 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
24861389 AG
66 AG
24861391 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
24861406 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:24861361 original size:64 final size:64
Alignment explanation
Indices: 24861280--24861463 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
24861270 AGACATTATG
* *
24861280 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
24861344 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24861409 AA
63 AA
* * * *
24861411 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
24861464 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24867031 original size:68 final size:67
Alignment explanation
Indices: 24866959--24867108 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
24866949 CATCATGTGT
* * * *
24866959 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
24867021 ATGTAG
62 ATGTAG
** * *
24867027 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
24867092 AG
66 AG
24867094 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
24867109 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:24867064 original size:64 final size:64
Alignment explanation
Indices: 24866983--24867166 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
24866973 AGACATTATG
* *
24866983 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
24867047 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
24867112 AA
63 AA
* * * *
24867114 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
24867167 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24875267 original size:38 final size:38
Alignment explanation
Indices: 24875216--24875288 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
24875206 GAGGCCATGA
* *
24875216 AGAGTGAATGTAATGATCATTAGTTGAGTCTATGATGG
1 AGAGTGAATGTAATGATCATTAATTGAGGCTATGATGG
24875254 AGAGTGAATGTAATGATCATTAATTGAGGCTATGA
1 AGAGTGAATGTAATGATCATTAATTGAGGCTATGA
24875289 AAGATGAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.33
Consensus pattern (38 bp):
AGAGTGAATGTAATGATCATTAATTGAGGCTATGATGG
Found at i:24877823 original size:46 final size:44
Alignment explanation
Indices: 24877686--24877840 Score: 141
Period size: 47 Copynumber: 3.3 Consensus size: 44
24877676 GTGCCTATGC
* * *
24877686 CATGTCCTAGACATGGTCTTACACTGGCTCATACTTCAAGTCGATG
1 CATGTCCTAGACATGGTCTTACACTGGCTTATTC-TC-AGCCGATG
* * ** *
24877732 CCATGTCCCAAACATGGTCTTACACTAACTATCATCTCTTAGCCGATG
1 -CATGTCCTAGACATGGTCTTACACTGGCT-T-AT-TCTCAGCCGATG
24877780 CATGTCCTAGACAT-GTCTTACACTGGCTTATGTCTCGAGGCCGATG
1 CATGTCCTAGACATGGTCTTACACTGGCTTAT-TCTC-A-GCCGATG
*
24877826 TATGTCCTAGACATG
1 CATGTCCTAGACATG
24877841 TAACACCCTT
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
44 5 0.06
45 2 0.02
46 32 0.37
47 37 0.43
48 7 0.08
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (44 bp):
CATGTCCTAGACATGGTCTTACACTGGCTTATTCTCAGCCGATG
Found at i:24878739 original size:38 final size:38
Alignment explanation
Indices: 24878694--24878845 Score: 234
Period size: 38 Copynumber: 4.0 Consensus size: 38
24878684 TTTAAGCTCA
* * * *
24878694 GATATAATACCAGCACTAGGCCTACGAGATTTAACCCT
1 GATATAATACCAGCACGAAGCCTGCGAGATTTAACCCG
24878732 GATATAATACCAGCACGAAGCCTGC-AGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGA-GATTTAACCCG
*
24878770 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGAGATTTAACCCG
*
24878808 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGAGATTTAACCCG
24878846 AATACACATC
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
37 1 0.01
38 106 0.99
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGAGATTTAACCCG
Found at i:24878801 original size:76 final size:76
Alignment explanation
Indices: 24878662--24878845 Score: 260
Period size: 76 Copynumber: 2.4 Consensus size: 76
24878652 GAATCCAGTC
* * * * * *
24878662 ACCAGCACAAAACCTGCAGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTACGAGATTTA
1 ACCAGCACGAAGCCTGCAGGA-TTTAA-CCCGGATATAATACCAGCACGAAGCCTACGAGATTTA
*
24878727 ACCCTGATATAAT
64 ACCCGGATATAAT
* *
24878740 ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
1 ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCTACGAGATTTAAC
24878805 CCGGATATAAT
66 CCGGATATAAT
*
24878816 ACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ACCAGCACGAAGCCTGCAGGATTTAACCCG
24878846 AATACACATC
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 72 0.75
77 5 0.05
78 19 0.20
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (76 bp):
ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCCTACGAGATTTAAC
CCGGATATAAT
Found at i:24880932 original size:54 final size:53
Alignment explanation
Indices: 24880841--24880950 Score: 139
Period size: 54 Copynumber: 2.1 Consensus size: 53
24880831 GGAAGCGTCT
* *
24880841 TGGTGGATATGCCATAATTATCTGATCGGGCGGCTCTGCCACATATATCTGTTC
1 TGGTGGATATGCCACAATTATCTGATCGGGCGACTCTGCCACAT-TATCTGTTC
* * * * * *
24880895 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGATATGCCACAATTATCTGATCGGGCGACTCTGCCACATTATCTGTTC
24880948 TGG
1 TGG
24880951 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.25
54 36 0.75
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (53 bp):
TGGTGGATATGCCACAATTATCTGATCGGGCGACTCTGCCACATTATCTGTTC
Found at i:24880947 original size:26 final size:26
Alignment explanation
Indices: 24880874--24880950 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 26
24880864 GATCGGGCGG
*
24880874 CTCTGCCACATATATCTGTTCTGGTGG
1 CTCTGCCACAT-TATCTGTTCTGGTGA
24880901 CTCTGCCACAATTATCTGTTCTGGTGA
1 CTCTGCCAC-ATTATCTGTTCTGGTGA
*
24880928 CTCTGTCACATTATCTGTTCTGG
1 CTCTGCCACATTATCTGTTCTGG
24880951 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 14 0.30
27 31 0.66
28 2 0.04
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (26 bp):
CTCTGCCACATTATCTGTTCTGGTGA
Found at i:24890865 original size:38 final size:38
Alignment explanation
Indices: 24890823--24890898 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
24890813 ATAACACCAA
24890823 GGTAGGCATAAGCATAACTTACTCATTACCATCCATAC
1 GGTAGGCATAAGCATAACTTACTCATTACCATCCATAC
24890861 GGTAGGCATAAGCATAACTTACTCATTACCATCCATAC
1 GGTAGGCATAAGCATAACTTACTCATTACCATCCATAC
24890899 AAGTCACATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (38 bp):
GGTAGGCATAAGCATAACTTACTCATTACCATCCATAC
Found at i:24891143 original size:47 final size:47
Alignment explanation
Indices: 24891074--24891337 Score: 202
Period size: 46 Copynumber: 5.6 Consensus size: 47
24891064 GTGCCTATGT
* * * *
24891074 CATGTCCTAGACACGATCTTACACTAGCTCAT-ATCTC-AAGTCAATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCATCATCTCGAAGCCGATG
* * *
24891120 CCATGTGCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCGATG
* * * * *
24891168 CATGTCCCAGACATGTCTTACACTAGTTTA-CGTCTCGAGGCCTATG
1 CATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCGATG
* * * *
24891214 CATGTCCCAGACATGTCTTACACTAAC-CCTCGTCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA-GCCGATG
* * * * **
24891260 CCATGTCCTAGACATGGTCTTACACTGGCTC-TCGTAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCGAAGCCGATG
*
24891308 CATGTCCCAGACATGTCATACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTAGCTCA
24891338 CACACGAATG
Statistics
Matches: 174, Mismatches: 31, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 75 0.43
47 68 0.39
48 28 0.16
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCGATG
Found at i:24891317 original size:94 final size:92
Alignment explanation
Indices: 24891121--24891332 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 92
24891111 AAGTCAATGC
* * *
24891121 CATGTGCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAACCATCATCTCATAGCCGATGCATGTCCCAGACATGTCT
* * *
24891186 TACACTAGTTTACGTCTCGAGGCCTATG
65 TACACTAGTCTACGTATCGAGGCCGATG
* * * *
24891214 CATGTCCCAGACATGTCTTACACTAACCCTCGTCTCA-ATGTCGATGCCATGTCCTAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAACCATCATCTCATA-GCCGATG-CATGTCCCAGACAT-GT
* *
24891278 CTTACACTGGCTCT-CGTAAT-GTGGCCGATG
63 CTTACACTAG-TCTACGT-ATCGAGGCCGATG
*
24891308 CATGTCCCAGACATGTCATACACTA
1 CATGTCCCAGACATGTCTTACACTA
24891333 GCTCACACAC
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 1 0.01
92 25 0.25
93 26 0.26
94 46 0.46
95 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAACCATCATCTCATAGCCGATGCATGTCCCAGACATGTCTT
ACACTAGTCTACGTATCGAGGCCGATG
Found at i:24891330 original size:140 final size:141
Alignment explanation
Indices: 24891066--24891333 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 141
24891056 AGGGTAAGGT
* *
24891066 GCCTATGTCATGTCCTAGACACGATCTTACACTAGCTCATATCTCAAGTCAATGCCATGTGCCAG
1 GCCTATGTCATGTCCCAGACACGATCTTACACTAACTCATATCTCAAGTCAATGCCATGTGCCAG
* *
24891131 ACATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGTT
66 ACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCATACACTAGTT
24891196 TACGTCTCGAG
131 TACGTCTCGAG
* * * *
24891207 GCCTATG-CATGTCCCAGACATG-TCTTACACTAAC-CCTCGTCTCAATGTCGATGCCATGT-CC
1 GCCTATGTCATGTCCCAGACACGATCTTACACTAACTCAT-ATCTCAA-GTCAATGCCATGTGCC
** * * *
24891268 TAGACATGGTCTTACACTGGCTCTCGTAAT-GTGGCCGATGCATGTCCCAGACATGTCATACACT
64 -AGACATGGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCATACACT
24891332 AG
127 AG
24891334 CTCACACACG
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.17
140 81 0.74
141 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (141 bp):
GCCTATGTCATGTCCCAGACACGATCTTACACTAACTCATATCTCAAGTCAATGCCATGTGCCAG
ACATGGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCATACACTAGTT
TACGTCTCGAG
Found at i:24893054 original size:27 final size:27
Alignment explanation
Indices: 24893004--24893055 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24892994 TTTTATATTA
*
24893004 ATTAATAAAGGTTATATATGTAAAATG
1 ATTAATAAAGGTTATATATATAAAATG
*
24893031 ATTAAT-AATGTTATATAATATAAAA
1 ATTAATAAAGGTTATAT-ATATAAAA
24893056 CATAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
ATTAATAAAGGTTATATATATAAAATG
Found at i:24894000 original size:43 final size:43
Alignment explanation
Indices: 24893948--24894103 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
24893938 TATGTGTTCT
* *
24893948 CGTGGAAGACCACATCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *
24893991 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TAT-TAGA-TC
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGT-GATTA
* *
24894032 CGTGTAAAACC-C-TGCTGGGACAG-TGGCATCGATATGTGATTG
1 CGTGTAAGACCACGT-CTGGGAC-GTTGGCATCGATATGTGATTA
* **
24894074 CATGTAAGACCACGTCTAAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
24894104 TGTACGATAT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
39 1 0.01
40 15 0.16
41 17 0.19
42 17 0.19
43 40 0.44
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:24895552 original size:24 final size:24
Alignment explanation
Indices: 24895525--24895570 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24895515 GCCTTAGCCG
24895525 TGATCATAGTCTAATTTAGTGTCA
1 TGATCATAGTCTAATTTAGTGTCA
* *
24895549 TGATCGTAGTCTAGTTTAGTGT
1 TGATCATAGTCTAATTTAGTGT
24895571 TCCATAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (24 bp):
TGATCATAGTCTAATTTAGTGTCA
Found at i:24903179 original size:40 final size:40
Alignment explanation
Indices: 24903120--24903261 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
24903110 AAATTGAATG
* * *
24903120 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
24903160 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
24903200 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
24903240 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
24903262 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:24903262 original size:40 final size:39
Alignment explanation
Indices: 24903159--24903287 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
24903149 TGCTGGAAAT
* * *
24903159 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
24903199 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
24903239 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
24903279 TATATCCGG
1 TATATCCGG
24903288 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:24910526 original size:5 final size:6
Alignment explanation
Indices: 24910462--24910523 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
24910452 TTAAGGCCAA
* * * *
24910462 TTATTT TT-TTGT TTATGT TTATCT TTATTT TTGTCTT TTATTT TTACTT
1 TTATTT TTATT-T TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
24910511 TTATTT TTATTT T
1 TTATTT TTATTT T
24910524 ATTCTTCTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:24910537 original size:23 final size:23
Alignment explanation
Indices: 24910497--24910546 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
24910487 TATTTTTGTC
* * *
24910497 TTTTATTTTTACTTTTATTTTTA
1 TTTTATTCTTACTTTTATGTCTA
24910520 TTTTATTCTT-CTTGTTATGTCTA
1 TTTTATTCTTACTT-TTATGTCTA
24910543 TTTT
1 TTTT
24910547 GTTTTCCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTATTCTTACTTTTATGTCTA
Found at i:24912146 original size:56 final size:56
Alignment explanation
Indices: 24912073--24912185 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
24912063 GAAGTTTAAT
*
24912073 TTTAATTGTGAGTTGAGGATTTTGCTTGAAGACAAGCAAATGCTTAAGTGTGGGGA
1 TTTAATTGTGAGTTGAGGATTTTGCTTGAAGACAAGAAAATGCTTAAGTGTGGGGA
* *
24912129 TTTAATTGTGAGTTGAGGATTTTGCTTGAAGATAAGAAAATGCTTAATTGTGGGGA
1 TTTAATTGTGAGTTGAGGATTTTGCTTGAAGACAAGAAAATGCTTAAGTGTGGGGA
24912185 T
1 T
24912186 ATTTGATGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.36
Consensus pattern (56 bp):
TTTAATTGTGAGTTGAGGATTTTGCTTGAAGACAAGAAAATGCTTAAGTGTGGGGA
Found at i:24915686 original size:28 final size:26
Alignment explanation
Indices: 24915636--24915747 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
24915626 AGCATGGCTG
* * *
24915636 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAAATAATGTGGCAGAGCCA
24915662 CCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGA-ACAAATAAT-GTGGCAGAGCCA
24915690 CCAGAACAGAA-ATATGTGGCAGAGCCA
1 CCAGAACA-AATA-ATGTGGCAGAGCCA
* * * *
24915717 TCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAAATAA-TGTGGCAGAGCCA
24915744 CCAG
1 CCAG
24915748 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.10
27 46 0.64
28 19 0.26
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAAATAATGTGGCAGAGCCA
Found at i:24915730 original size:54 final size:54
Alignment explanation
Indices: 24915636--24915747 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
24915626 AGCATGGCTG
* *
24915636 CCAGAACAGATAATGTGACAGAGTCACCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
* * * * *
24915690 CCAGAACAGAAATATGTGGCAGAGCCATCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
24915744 CCAG
1 CCAG
24915748 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
Found at i:24917184 original size:24 final size:24
Alignment explanation
Indices: 24917157--24917227 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
24917147 CTAGATTTCC
*
24917157 TCCCTTATCTACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
24917181 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
24917205 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
24917228 CTCCTGACAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:24919535 original size:12 final size:12
Alignment explanation
Indices: 24919518--24919542 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24919508 TGCAAATGGA
24919518 TCATTTCCATTT
1 TCATTTCCATTT
24919530 TCATTTCCATTT
1 TCATTTCCATTT
24919542 T
1 T
24919543 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:24922816 original size:5 final size:5
Alignment explanation
Indices: 24922808--24922862 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
24922798 TAAAAATTTC
24922808 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
24922857 TTTTA T
1 TTTTA T
24922863 GGTTGGAATC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 45 0.92
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:24926158 original size:48 final size:48
Alignment explanation
Indices: 24926087--24926561 Score: 802
Period size: 48 Copynumber: 10.0 Consensus size: 48
24926077 CAAGACAAAT
* * *
24926087 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926135 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926183 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926231 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24926279 ATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926325 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926373 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATA--TATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24926419 ATATGTATATGTGGTAAAGCCGAATGGCT-A-GTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24926465 ATATGT-TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
24926512 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24926560 AT
1 AT
24926562 GTGTGTATAT
Statistics
Matches: 408, Mismatches: 12, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
44 8 0.02
45 23 0.06
46 92 0.23
47 22 0.05
48 263 0.64
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:24926345 original size:142 final size:143
Alignment explanation
Indices: 24926087--24926561 Score: 818
Period size: 142 Copynumber: 3.3 Consensus size: 143
24926077 CAAGACAAAT
* *
24926087 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTATATGTGGTAA
*
24926152 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
65 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
24926217 GAAATATGTATGAG
130 GAAATATGTATGAG
24926231 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-TATATGTGGTAAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTATATGTGGTAAA
* *
24926295 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
66 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
24926360 AAATATGTATGAG
131 AAATATGTATGAG
24926373 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATA--TATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTATATGTGGTAA
24926436 AGCCGAATGGCT-A-GTGAAATATGTATGAGATATGT-TATGTGGTAAAGCCGAATGGCTAGTGT
65 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
24926498 GAAATATGTATGAG
130 GAAATATGTATGAG
* * *
24926512 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
24926562 GTGTGTATAT
Statistics
Matches: 317, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
139 77 0.24
140 31 0.10
141 8 0.03
142 152 0.48
144 49 0.15
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (143 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
AAATATGTATGAG
Found at i:24928098 original size:40 final size:40
Alignment explanation
Indices: 24928043--24928327 Score: 448
Period size: 40 Copynumber: 7.2 Consensus size: 40
24928033 GAGAATTGAG
24928043 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24928083 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGT-CT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24928122 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24928162 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
24928202 AGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
24928242 AGAGTTATA-CCAGGGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
24928282 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
24928322 GGTGAT
1 AGTGAT
24928328 GTGTATTCGG
Statistics
Matches: 229, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
39 41 0.18
40 186 0.81
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:24928539 original size:25 final size:25
Alignment explanation
Indices: 24928489--24928539 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
24928479 TGTGTAACAA
* *
24928489 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
24928514 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
24928539 C
1 C
24928540 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:24932370 original size:48 final size:48
Alignment explanation
Indices: 24932299--24932674 Score: 610
Period size: 48 Copynumber: 8.0 Consensus size: 48
24932289 CAAGACAAAT
* *
24932299 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
24932347 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
24932395 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
24932443 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
24932491 ATATGTATATGTGGTAAAGCCGAATGGC-----T---A-AT-TATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
24932529 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
24932577 ATATGTTTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
24932625 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
24932673 AT
1 AT
24932675 GTGTGTATAT
Statistics
Matches: 308, Mismatches: 10, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
38 34 0.11
39 2 0.01
40 1 0.00
43 2 0.01
46 1 0.00
47 2 0.01
48 266 0.86
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:24932528 original size:38 final size:38
Alignment explanation
Indices: 24932485--24932558 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
24932475 GTGAAATATG
24932485 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
24932523 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
24932559 GTGTGAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (38 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
Found at i:24932629 original size:134 final size:134
Alignment explanation
Indices: 24932389--24932656 Score: 500
Period size: 134 Copynumber: 2.0 Consensus size: 134
24932379 GTGAAATATG
24932389 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATG
24932454 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
24932519 TAAT
131 TAAT
* *
24932523 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTTTATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATG
* *
24932588 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
24932653 TAAT
131 TAAT
24932657 GTGAAATATG
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (134 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
TAAT
Found at i:24932648 original size:182 final size:182
Alignment explanation
Indices: 24932341--24932674 Score: 632
Period size: 182 Copynumber: 1.8 Consensus size: 182
24932331 GTGAAATATG
24932341 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
24932406 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGC
*
24932471 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
131 TAATGTGAAATATGTAGGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
24932523 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTTTATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
* *
24932588 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGC
66 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGC
24932653 TAATGTGAAATATGTAGGAGAT
131 TAATGTGAAATATGTAGGAGAT
24932675 GTGTGTATAT
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 148 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (182 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGC
TAATGTGAAATATGTAGGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
Found at i:24935316 original size:19 final size:19
Alignment explanation
Indices: 24935279--24935316 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24935269 TTTATTCTAC
* *
24935279 TTTTCTATTCTAATTAAAA
1 TTTTCGATTCTAATAAAAA
24935298 TTTTCGATTCTAATAAAAA
1 TTTTCGATTCTAATAAAAA
24935317 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTCGATTCTAATAAAAA
Found at i:24938713 original size:54 final size:54
Alignment explanation
Indices: 24938631--24938738 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
24938621 GCCACCGAAG
* *
24938631 AATGTTTCAAAAATTAGAAGTTTTCTGGGACTAGCGGGATATTATCGGAGATTT
1 AATGTTTCAAAAATTAGAAGTTTTCTGGGACTAGCGAGATATTATCAGAGATTT
24938685 AATGTTTCAAAAATTAGAAGTTTTCTGGGACTAGCGAGATATTATCAGAGATTT
1 AATGTTTCAAAAATTAGAAGTTTTCTGGGACTAGCGAGATATTATCAGAGATTT
24938739 GTCAAAGGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (54 bp):
AATGTTTCAAAAATTAGAAGTTTTCTGGGACTAGCGAGATATTATCAGAGATTT
Found at i:24940862 original size:5 final size:6
Alignment explanation
Indices: 24940846--24940870 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24940836 AAATTCGAGC
24940846 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
24940871 TTATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:24944747 original size:13 final size:13
Alignment explanation
Indices: 24944719--24944778 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
24944709 AGAAAATTAT
*
24944719 TTAATTGAGA-AA
1 TTAATTTAGATAA
24944731 TTAATTTAGATAA
1 TTAATTTAGATAA
24944744 TTAATTTA-ATTAAA
1 TTAATTTAGA-T-AA
*
24944758 TTAATTGAGATAA
1 TTAATTTAGATAA
24944771 TTAATTTA
1 TTAATTTA
24944779 ATTTAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.24
13 20 0.49
14 10 0.24
15 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (13 bp):
TTAATTTAGATAA
Found at i:24944762 original size:27 final size:27
Alignment explanation
Indices: 24944728--24944792 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
24944718 TTTAATTGAG
*
24944728 AAATTAATTTAGATAATTAATTTAATT
1 AAATTAATTGAGATAATTAATTTAATT
24944755 AAATTAATTGAGATAATTAATTTAATT
1 AAATTAATTGAGATAATTAATTTAATT
*
24944782 TAATTAATTGA
1 AAATTAATTGA
24944793 TTAAATCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (27 bp):
AAATTAATTGAGATAATTAATTTAATT
Found at i:24944789 original size:18 final size:18
Alignment explanation
Indices: 24944729--24944790 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
24944719 TTAATTGAGA
24944729 AATTAATTTAGATAATTAATTT
1 AATTAATTTA-AT--TTAA-TT
* *
24944751 AATTAAATTAATTGAGA-T
1 AATTAATTTAATTTA-ATT
24944769 AATTAATTTAATTTAATT
1 AATTAATTTAATTTAATT
24944787 AATT
1 AATT
24944791 GATTAAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.03
18 19 0.56
19 2 0.06
20 1 0.03
21 2 0.06
22 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
AATTAATTTAATTTAATT
Found at i:24966727 original size:93 final size:93
Alignment explanation
Indices: 24966620--24966790 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
24966610 GCCCCTAAGT
* *
24966620 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24966685 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
24966713 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24966778 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24966791 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24966787 original size:46 final size:46
Alignment explanation
Indices: 24966615--24966787 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
24966605 AACCCGCCCC
* * *
24966615 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24966661 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24966709 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24966754 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24966788 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24967242 original size:30 final size:30
Alignment explanation
Indices: 24967208--24967267 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24967198 ATTTAATACG
24967208 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
24967238 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
24967268 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:24974351 original size:93 final size:92
Alignment explanation
Indices: 24974193--24974362 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
24974183 GCCCCTAAGT
24974193 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
24974258 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* * * **
24974285 GAACTCGGACTCAACTCGACGAGTTCGGACATTCGCATCCATAAGTGGACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
24974350 CGAGTTCGGATGC
65 CGAGTTCGGATGC
24974363 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 26 0.36
93 46 0.64
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24981344 original size:46 final size:46
Alignment explanation
Indices: 24981294--24981694 Score: 597
Period size: 46 Copynumber: 8.7 Consensus size: 46
24981284 GATAGAAAAT
*
24981294 GTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
24981340 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
*
24981386 GTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
24981432 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
24981478 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *
24981524 GTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGACATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *** *
24981570 GTGTAAGACCATGGTTGAAAGATACCATAGCAACGTGACGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAAC
** * * * *
24981617 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAC
* * * *
24981663 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
24981695 TCATGTCGAA
Statistics
Matches: 330, Mismatches: 23, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 292 0.88
47 37 0.11
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:24982007 original size:17 final size:17
Alignment explanation
Indices: 24981985--24982018 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24981975 ATGATGGTGC
*
24981985 ATGAAATGATTGATATA
1 ATGAAATGAATGATATA
24982002 ATGAAATGAATGATATA
1 ATGAAATGAATGATATA
24982019 TGTTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
ATGAAATGAATGATATA
Found at i:24985702 original size:18 final size:19
Alignment explanation
Indices: 24985679--24985715 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24985669 CTAATATTAC
*
24985679 AATTTTAA-TTTAATAATA
1 AATTTTAACATTAATAATA
24985697 AATTTTAACATTAATAATA
1 AATTTTAACATTAATAATA
24985716 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTTTAACATTAATAATA
Found at i:24985710 original size:19 final size:18
Alignment explanation
Indices: 24985679--24985725 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
24985669 CTAATATTAC
*
24985679 AATTTTAATTTAATAATA
1 AATTTTAAATTAATAATA
24985697 AATTTTAACATTAATAAT-
1 AATTTTAA-ATTAATAATA
*
24985715 ATTTTTAAATT
1 AATTTTAAATT
24985726 TTAAGTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 3 0.12
18 15 0.58
19 8 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTTAAATTAATAATA
Found at i:24990252 original size:162 final size:162
Alignment explanation
Indices: 24989980--24990303 Score: 540
Period size: 162 Copynumber: 2.0 Consensus size: 162
24989970 AATTTTTTTG
* * *
24989980 AGTGGCTAACTTTTGATTTTTTGCTTCAAAGTTCAACTTGTTTAGCTTTGCCTTTATACATTATG
1 AGTGACTAACTTTTGATTTATTGCTTCAAAGCTCAACTTGTTTAGCTTTGCCTTTATACATTATG
*
24990045 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGGTGTCATGTTGAGTCGATAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGGTGTCATGTTGAGTCGACAGATGAGTG
* *
24990110 ATGTTAGATTGGTCTTGTTGATTTTCGGGATT
131 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
* *
24990142 AGTGACTAACTTTTGATTTATTGCTTCAAAGCTCAGCTTGTTTAGCTTTGCCTTTATACATTCTG
1 AGTGACTAACTTTTGATTTATTGCTTCAAAGCTCAACTTGTTTAGCTTTGCCTTTATACATTATG
* * * *
24990207 TAGTGGAATGTATCACTCATCCTTTATTATGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGGTGTCATGTTGAGTCGACAGATGAGTG
24990272 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
131 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
24990304 CTAAATGCCT
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 150 1.00
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.43
Consensus pattern (162 bp):
AGTGACTAACTTTTGATTTATTGCTTCAAAGCTCAACTTGTTTAGCTTTGCCTTTATACATTATG
TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGGTGTCATGTTGAGTCGACAGATGAGTG
ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
Found at i:24994221 original size:18 final size:19
Alignment explanation
Indices: 24994198--24994233 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24994188 CAAGTGGTTA
*
24994198 ATAAAAATAAA-ATAAAAC
1 ATAAAAACAAATATAAAAC
24994216 ATAAAAACAAATATAAAA
1 ATAAAAACAAATATAAAA
24994234 AAAAGGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (19 bp):
ATAAAAACAAATATAAAAC
Found at i:25008655 original size:69 final size:69
Alignment explanation
Indices: 25008543--25008872 Score: 419
Period size: 69 Copynumber: 4.8 Consensus size: 69
25008533 GAGTTTTCAA
* * * * * *
25008543 CTCTCGCTAACTATGTTGGAGGCTAC-AGTCTTTATCCTACGAGCCTTAGTGTGACAATTGGGAG
1 CTCTCGCTAACTATGTTAGAGGCTACGA-TTTTTATCCTGCGAGCCTTAATATGACAGTTGGGAG
*
25008607 CTTTA
65 CTTTG
* *
25008612 CTCTCGCTAACTATGTTAGAGGCTACTAATTTTATCCTGCGAGCCTTAATATGACAGTTGGGAGC
1 CTCTCGCTAACTATGTTAGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGACAGTTGGGAGC
25008677 TTTG
66 TTTG
* * * *
25008681 CTCTCGCTAACTATGTTAAAGGCTGCGATTTTTATCCTGCGAGCCTTAATATGACAGCTAGGAGC
1 CTCTCGCTAACTATGTTAGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGACAGTTGGGAGC
25008746 TTTG
66 TTTG
* * *
25008750 CTCTCGCTAACTGTGTTGGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGATAGTTGGGAGC
1 CTCTCGCTAACTATGTTAGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGACAGTTGGGAGC
25008815 TTTG
66 TTTG
* * * * * ** **
25008819 CTCTCACTAATTGTGTTAAAGACTGTGATTTTTATCCTATGAGCCTTAATATGA
1 CTCTCGCTAACTATGTTAGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGA
25008873 TACAAATGTT
Statistics
Matches: 230, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
69 229 1.00
70 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (69 bp):
CTCTCGCTAACTATGTTAGAGGCTACGATTTTTATCCTGCGAGCCTTAATATGACAGTTGGGAGC
TTTG
Found at i:25010729 original size:43 final size:43
Alignment explanation
Indices: 25010631--25010743 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
25010621 TATTAAGATG
* * *
25010631 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
**** * * *
25010674 TGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTGATATG
1 TGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
* *
25010717 TGGTAACATGTAAGACCATGTTTGGGA
1 TGATAACATGTAAGACCATGTCTGGGA
25010744 TATGACATTG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TGATAACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
Found at i:25014894 original size:37 final size:39
Alignment explanation
Indices: 25014782--25014923 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
25014772 CCGCACAAAG
*
25014782 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
25014822 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
25014861 GCCTT-GGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
25014898 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
25014924 TCGAACATTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
37 21 0.23
38 26 0.28
39 37 0.40
40 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:25014898 original size:76 final size:79
Alignment explanation
Indices: 25014742--25014922 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 79
25014732 TCGTTCAAAC
* * **
25014742 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
25014807 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
25014822 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTT-GGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
25014884 CAATTTGCACAATT
66 CAATTTGCACAATT
25014898 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
25014923 CTCGAACATT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 44 0.47
77 9 0.10
78 3 0.03
79 28 0.30
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:25016640 original size:40 final size:39
Alignment explanation
Indices: 25016569--25016693 Score: 180
Period size: 40 Copynumber: 3.2 Consensus size: 39
25016559 AAACCAAGTA
* *
25016569 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
25016608 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
* *
25016648 CCTTTGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
25016688 CCTTCG
1 CCTTCG
25016694 TTATCATCCG
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
39 15 0.19
40 62 0.79
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:25024866 original size:41 final size:40
Alignment explanation
Indices: 25024777--25024942 Score: 264
Period size: 40 Copynumber: 4.2 Consensus size: 40
25024767 AAACCAAGTA
* * *
25024777 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
25024816 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AAATG
25024857 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25024897 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25024937 CCTTCG
1 CCTTCG
25024943 TTATCATCCG
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 13 0.11
40 67 0.56
41 39 0.33
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25024929 original size:81 final size:79
Alignment explanation
Indices: 25024777--25024942 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 79
25024767 AAACCAAGTA
* *
25024777 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
25024842 AGCTCGCACAAAATG
66 AACTCGCAC-AAATG
*
25024857 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTA-ACCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
25024921 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
25024937 CCTTCG
1 CCTTCG
25024943 TTATCATCCG
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
80 24 0.30
81 56 0.70
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:25030096 original size:49 final size:48
Alignment explanation
Indices: 25029928--25030100 Score: 154
Period size: 49 Copynumber: 3.6 Consensus size: 48
25029918 GATAAGATGC
* **
25029928 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATC-GGGT
* * * * *
25029976 TGATGCCATGTCCCAGACAGGTCTTACA-TCGACTTTCATATGTCGAGGT
1 CGATGCCATGTCCCAGACAGGTCTTACACT-GGCTATCATCTATCG-GGT
** * * * *
25030025 CGATGCTGTGTACAAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGG-GT
25030074 CGATGCCATGTCCCAGACAGGTCTTAC
1 CGATGCCATGTCCCAGACAGGTCTTAC
25030101 TTCGACACAT
Statistics
Matches: 96, Mismatches: 23, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
46 1 0.01
47 14 0.15
48 19 0.20
49 61 0.64
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGGGT
Found at i:25031646 original size:29 final size:29
Alignment explanation
Indices: 25031612--25031743 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 29
25031602 TACTCGATTT
* * *
25031612 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
25031641 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
25031670 CGCACACTTAGTGCCATA-TATTCCCAGCA
1 CGCACACTTAGTGCCATACCATT-CAAGCC
* * * *
25031699 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
25031728 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25031744 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 83 0.95
30 2 0.02
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:25035361 original size:29 final size:29
Alignment explanation
Indices: 25035328--25035401 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
25035318 GTGACGAGAT
25035328 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
25035357 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
25035386 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25035402 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:25043211 original size:29 final size:29
Alignment explanation
Indices: 25043178--25043251 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
25043168 GTGACGAGAT
25043178 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
25043207 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
25043236 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
25043252 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:25043267 original size:29 final size:29
Alignment explanation
Indices: 25043235--25043310 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
25043225 CTGGAAATAT
* *
25043235 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
25043264 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
25043293 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
25043311 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:25043278 original size:58 final size:58
Alignment explanation
Indices: 25043178--25043310 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
25043168 GTGACGAGAT
* * * * * *
25043178 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
25043236 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
25043294 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
25043311 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Done.