Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 166 of 444
Found at i:45774931 original size:19 final size:20
Alignment explanation
Indices: 45774900--45774937 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
45774890 TAAATTGAGC
*
45774900 CCAAGAGCCCAAAATCAAGA
1 CCAAGAGCCCAAAAACAAGA
45774920 CCAAGA-CCCAAAAACAAG
1 CCAAGAGCCCAAAAACAAG
45774938 TTGATCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.53, C:0.32, G:0.13, T:0.03
Consensus pattern (20 bp):
CCAAGAGCCCAAAAACAAGA
Found at i:45776882 original size:50 final size:50
Alignment explanation
Indices: 45776760--45777053 Score: 231
Period size: 50 Copynumber: 5.8 Consensus size: 50
45776750 TATGAGAACA
* * *** * *
45776760 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCG
* * * *
45776812 CGTGTGTAGTAGC-AAATGCAGGCTATTACGTGTACCAGATAGTTAGGTTG
1 CATGTGTAGTA-CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
* * * * * *
45776862 CATGTCTAGTACTAAGTGCAGGCTACTATGCGTACCCGAGA-ACTTCA-ATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGATAGTT-AGGTCG
* * ** * * *
45776913 CGTGTGTAGTACTAAGTGCAGGTTACTACGTGTATTACATGGTTAGGTCAT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC-G
* *
45776964 C-TGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
*
45777012 CATGTGTAGTACTAAGTGCAGGCTACTATGCT-TACCAGATAG
1 CATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG
45777054 GTTCGGTTAC
Statistics
Matches: 189, Mismatches: 43, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
48 1 0.01
49 43 0.23
50 73 0.39
51 36 0.19
52 35 0.19
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCG
Found at i:45776946 original size:101 final size:100
Alignment explanation
Indices: 45776809--45776990 Score: 233
Period size: 101 Copynumber: 1.8 Consensus size: 100
45776799 TGGTTTTAGG
* *
45776809 TCACGTGTGTAGTAGCAAATGCAGGCTATTACGTGTACCAGATAGTTAGGTTGCA-TGTCTAGTA
1 TCACGTGTGTAGTAGCAAATGCAGGCTACTACGTGTACCACATAGTTAGG-T-CACTGTCTAGTA
45776873 CTAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
64 CTAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
* * ** * *
45776910 TCACGTGTGTAGTA-CTAAGTGCAGGTTACTACGTGTATTACATGGTTAGGTCATCTGTGTAGTA
1 TCACGTGTGTAGTAGC-AAATGCAGGCTACTACGTGTACCACATAGTTAGGTCA-CTGTCTAGTA
*
45776974 CTAAGTGCATGCTACTA
64 CTAAGTGCAGGCTACTA
45776991 CGTGTACCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
99 2 0.03
100 2 0.03
101 65 0.94
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTAGCAAATGCAGGCTACTACGTGTACCACATAGTTAGGTCACTGTCTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
Found at i:45777084 original size:150 final size:152
Alignment explanation
Indices: 45776763--45777050 Score: 361
Period size: 151 Copynumber: 1.9 Consensus size: 152
45776753 GAGAACACAT
* * *
45776763 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTAGCAAA
1 GTGTAGTAATATGTGCAGGCTACTACGTGTTTAACATGG-TTTAGGTCACGTGTGTAGTAGCAAA
* *
45776828 TGCAGGCTATTACGTGTACCAGATAGTTAGGTTGCATGTCTAGTACTAAGTGCAGGCTACTATGC
65 TGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTCTAGTACTAAGTGCAGGCTACTATGC
* * *
45776893 GTACCCGAGAACTTCAATCACGT
130 GTACCAGAGAACTTCAATCAAGG
* * *
45776916 GTGTAGTACTAAGTGCAGGTTACTACGTGTATT-ACATGG-TTAGGTCATC-TGTGTAGTA-CTA
1 GTGTAGTAATATGTGCAGGCTACTACGTGT-TTAACATGGTTTAGGTCA-CGTGTGTAGTAGC-A
* * * *
45776977 AGTGCATGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
63 AATGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTCTAGTACTAAGTGCAGGCTACTAT
*
45777041 GCTTACCAGA
128 GCGTACCAGA
45777051 TAGGTTCGGT
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
150 41 0.34
151 44 0.37
152 1 0.01
153 32 0.27
154 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (152 bp):
GTGTAGTAATATGTGCAGGCTACTACGTGTTTAACATGGTTTAGGTCACGTGTGTAGTAGCAAAT
GCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTCTAGTACTAAGTGCAGGCTACTATGCG
TACCAGAGAACTTCAATCAAGG
Found at i:45782291 original size:48 final size:48
Alignment explanation
Indices: 45782220--45782312 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
45782210 GGGTTATGTG
*
45782220 CGATCCTATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATCTA
1 CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATCTA
*
45782268 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
1 CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGAT
45782313 ATGTGATCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (48 bp):
CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATCTA
Found at i:45782321 original size:48 final size:48
Alignment explanation
Indices: 45782220--45782324 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
45782210 GGGTTATGTG
* *
45782220 CGATCCTATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATCTA
1 CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATATA
* *
45782268 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATATA
*
45782316 TGATCCCAT
1 CGATCCCAT
45782325 ATGGCATTGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (48 bp):
CGATCCCATGTAAGACCATGTCTGGGACACGGCATTGGCATCGATATA
Found at i:45785704 original size:40 final size:40
Alignment explanation
Indices: 45785659--45785825 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
45785649 CGGAATATAA
45785659 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45785699 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45785739 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45785779 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45785818 CCGGATAT
1 CCGGATAT
45785826 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45793682 original size:40 final size:40
Alignment explanation
Indices: 45793637--45793804 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
45793627 CGGAATATAA
45793637 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45793677 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45793717 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
45793757 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45793797 CCGGATAT
1 CCGGATAT
45793805 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45797447 original size:30 final size:30
Alignment explanation
Indices: 45797413--45797492 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
45797403 TGGTTGACAC
* **
45797413 ATCCCTTTTCGTAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAATTTGATAACCAAAACT
* * * *
45797443 ATCCCTTTTCATAGTTCGACAGCCAAAACT
1 ATCCCTTTTCATAATTTGATAACCAAAACT
45797473 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
45797493 GGTCGTCACC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCAAAACT
Found at i:45797512 original size:30 final size:30
Alignment explanation
Indices: 45797473--45797552 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
45797463 AGCCAAAACT
*
45797473 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
* *** *
45797503 ATCCATTTTCATTGCTCGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACC
45797533 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
45797553 AGCCAAAGGT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCATCACC
Found at i:45797582 original size:60 final size:60
Alignment explanation
Indices: 45797412--45797582 Score: 146
Period size: 60 Copynumber: 2.9 Consensus size: 60
45797402 ATGGTTGACA
* * * * *
45797412 CATCCCTTTTCGTAATTTGATAACCAAAGTTATCCCTTTTCATAGTTCGACAGCCAAAAC
1 CATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAGATCGATAGCCAAAAC
* * *** * * * * * * **
45797472 TATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCATTTTCATTGCTCGATGGTCATCAC
1 CATCCCTTTTCATAATTTGATAG-CCAAAGCTATCCCTTTTCATAGATCGATAGCCAAAAC
* *
45797532 CATCCCTTTTCATAATTTGATAGCCAAAGGTATCCCTTTACATAGATCGAT
1 CATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAGATCGAT
45797583 CCTTTTTCAT
Statistics
Matches: 81, Mismatches: 28, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
59 2 0.02
60 77 0.95
61 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (60 bp):
CATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAGATCGATAGCCAAAAC
Found at i:45797640 original size:29 final size:30
Alignment explanation
Indices: 45797581--45797644 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
45797571 ACATAGATCG
* *
45797581 ATCCTTTTTCATAGTTCGATGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
*
45797611 ATCCCTTTTCATTA-TT-GATGGTCGTTACC
1 ATCCCTTTTCA-TAGTTCGATGGTCGTCACC
45797640 ATCCC
1 ATCCC
45797645 ATTGCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 16 0.53
30 12 0.40
31 2 0.07
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:45797663 original size:29 final size:29
Alignment explanation
Indices: 45797608--45797663 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
45797598 GATGGTTGTC
* * * * *
45797608 ACCATCCCTTTTCATTATTGATGGTCGTT
1 ACCATCCCATTGCATAATCGATAGTCGTT
45797637 ACCATCCCATTGCATAATCGATAGTCG
1 ACCATCCCATTGCATAATCGATAGTCG
45797664 AAGCTATCCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (29 bp):
ACCATCCCATTGCATAATCGATAGTCGTT
Found at i:45797672 original size:29 final size:29
Alignment explanation
Indices: 45797640--45797702 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
45797630 GGTCGTTACC
45797640 ATCCCATTGCATAATCGATAG-TCGAAGCT
1 ATCCCATTGCATAATCGATAGCT-GAAGCT
* * * *
45797669 ATCCCTTTTCGTATTCGATAGCTGAAGCT
1 ATCCCATTGCATAATCGATAGCTGAAGCT
45797698 ATCCC
1 ATCCC
45797703 TTTTCATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
ATCCCATTGCATAATCGATAGCTGAAGCT
Found at i:45806821 original size:3 final size:3
Alignment explanation
Indices: 45806813--45806874 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
45806803 ACTCTATTGT
*
45806813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
45806861 TTA ATA TTA TTA TT
1 TTA TTA TTA TTA TT
45806875 TTTGTAACCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:45807596 original size:16 final size:16
Alignment explanation
Indices: 45807548--45807597 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
45807538 ATAAATCGGC
* *
45807548 AAAGCCAAAAAGTCGA
1 AAAGCCGAAGAGTCGA
*
45807564 AAAGCCGAAGAGCCGA
1 AAAGCCGAAGAGTCGA
* *
45807580 AGAGCCGAAGTGTCGA
1 AAAGCCGAAGAGTCGA
45807596 AA
1 AA
45807598 CTTCGGCATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.28, T:0.06
Consensus pattern (16 bp):
AAAGCCGAAGAGTCGA
Found at i:45814351 original size:23 final size:25
Alignment explanation
Indices: 45814325--45814373 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45814315 ATAAGATAAA
45814325 TAGA-AAA-AAAATATATTTTTGAC
1 TAGATAAATAAAATATATTTTTGAC
*
45814348 TAGATAAATAGAATATATTTTTGAC
1 TAGATAAATAAAATATATTTTTGAC
45814373 T
1 T
45814374 CCATTTAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 3 0.13
25 16 0.70
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (25 bp):
TAGATAAATAAAATATATTTTTGAC
Found at i:45817624 original size:124 final size:124
Alignment explanation
Indices: 45817402--45817626 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
45817392 GAATTATGTG
* * * ** * * *
45817402 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
45817467 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
45817526 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
45817591 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
45817627 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:45817748 original size:40 final size:40
Alignment explanation
Indices: 45817621--45817750 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
45817611 ATGCTGGAAA
* *
45817621 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
45817661 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
45817701 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
45817741 TTATATCCGG
1 TTATATCCGG
45817751 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:45817749 original size:80 final size:80
Alignment explanation
Indices: 45817583--45817750 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
45817573 CAATTGAATG
* * *
45817583 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
45817648 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
45817663 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
45817727 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
45817743 ATATCCGG
1 ATATCCGG
45817751 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:45825672 original size:124 final size:124
Alignment explanation
Indices: 45825451--45825674 Score: 315
Period size: 124 Copynumber: 1.8 Consensus size: 124
45825441 GAATTATGTG
* * * ** * * *
45825451 AATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGGG
* * **
45825516 CTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGAA
66 CTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGAA
*
45825575 AATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGGG
1 AATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGGG
45825640 CTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 CTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
45825675 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 85 0.99
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGAA
Found at i:45825796 original size:40 final size:40
Alignment explanation
Indices: 45825669--45825798 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
45825659 ATGCTGGAAA
* *
45825669 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
45825709 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
45825749 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
45825789 TTATATCCGG
1 TTATATCCGG
45825799 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:45825797 original size:80 final size:80
Alignment explanation
Indices: 45825631--45825798 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
45825621 CAATTGAATG
* * *
45825631 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
45825696 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
45825711 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
45825775 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
45825791 ATATCCGG
1 ATATCCGG
45825799 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:45833707 original size:122 final size:123
Alignment explanation
Indices: 45833487--45833709 Score: 315
Period size: 122 Copynumber: 1.8 Consensus size: 123
45833477 GAATTATGTG
* * * * * *
45833487 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGA-TTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
45833552 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
65 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
45833611 AAATGAAATATGAATGTCTAATGATTATTGA-TATGTGTGCATGAGCAATTGAATGATATCCGGG
1 AAATGAAATATGAATGTCTAATGATTATTGATTATGTGTGCATGAGCAATTGAATGATACCCGGG
45833675 CTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 CTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
45833710 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 58 0.67
124 28 0.32
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (123 bp):
AAATGAAATATGAATGTCTAATGATTATTGATTATGTGTGCATGAGCAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:45833792 original size:40 final size:40
Alignment explanation
Indices: 45833666--45833793 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
45833656 CAATTGAATG
* * * * * ***
45833666 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
45833706 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
45833746 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
45833786 ATATCCGG
1 ATATCCGG
45833794 TTGTATTCCG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 4 0.06
40 68 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:45836472 original size:3 final size:3
Alignment explanation
Indices: 45836466--45836512 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
45836456 TAATCGAGGC
45836466 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
45836513 TTGGAGTAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45841094 original size:25 final size:20
Alignment explanation
Indices: 45841037--45841080 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
45841027 CTGTGGACAC
45841037 GGGCGTGTCCCAAGCCACAT
1 GGGCGTGTCCCAAGCCACAT
45841057 GGGCGTGTCCCAAGCCACAT
1 GGGCGTGTCCCAAGCCACAT
45841077 GGGC
1 GGGC
45841081 ATGTGACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.34, G:0.34, T:0.14
Consensus pattern (20 bp):
GGGCGTGTCCCAAGCCACAT
Found at i:45841618 original size:26 final size:25
Alignment explanation
Indices: 45841576--45841636 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
45841566 ATACATAAAT
* * *
45841576 TATATTATATGCGTGGGTGTTACTA
1 TATAATATATGCATGGGTCTTACTA
* *
45841601 TGTACATATATGCATGGGTCTTATTA
1 TATA-ATATATGCATGGGTCTTACTA
45841627 TATAATATAT
1 TATAATATAT
45841637 ATAATTATGG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (25 bp):
TATAATATATGCATGGGTCTTACTA
Found at i:45843180 original size:18 final size:20
Alignment explanation
Indices: 45843149--45843185 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
45843139 ATTTTTAAAA
45843149 AATATATATATATGGTTATC
1 AATATATATATATGGTTATC
45843169 AATAT-TAT-TATGGTTAT
1 AATATATATATATGGTTAT
45843186 GGTTAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (20 bp):
AATATATATATATGGTTATC
Found at i:45844286 original size:20 final size:19
Alignment explanation
Indices: 45844263--45844303 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
45844253 ATTTTTTGTT
* *
45844263 TTAGGTTAGGGATTTTTAGG
1 TTAGGTTAAGG-TTATTAGG
45844283 TTAGGTTAAGGTTATTAGG
1 TTAGGTTAAGGTTATTAGG
45844302 TT
1 TT
45844304 TGGGTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (19 bp):
TTAGGTTAAGGTTATTAGG
Found at i:45846555 original size:20 final size:20
Alignment explanation
Indices: 45846522--45846559 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45846512 TGATTTGATA
45846522 AATTATAAATTATGTTAACT
1 AATTATAAATTATGTTAACT
45846542 AATT-TAAATCTATGTTAA
1 AATTATAAAT-TATGTTAA
45846560 TTACTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
AATTATAAATTATGTTAACT
Found at i:45853734 original size:30 final size:30
Alignment explanation
Indices: 45853698--45853792 Score: 163
Period size: 30 Copynumber: 3.2 Consensus size: 30
45853688 CAAATAGGTA
*
45853698 GACACACGGGCGTGTGTCTAGGCCGTGCGT
1 GACACACGGGTGTGTGTCTAGGCCGTGCGT
45853728 GACACACGGGTGTGTGTCTAGGCCGTGCGT
1 GACACACGGGTGTGTGTCTAGGCCGTGCGT
* *
45853758 AACACACGGGTGTGTGTCTAGGCCGTGTGT
1 GACACACGGGTGTGTGTCTAGGCCGTGCGT
45853788 GACAC
1 GACAC
45853793 GCGGTCTACC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (30 bp):
GACACACGGGTGTGTGTCTAGGCCGTGCGT
Found at i:45860359 original size:48 final size:48
Alignment explanation
Indices: 45860301--45860538 Score: 440
Period size: 48 Copynumber: 5.0 Consensus size: 48
45860291 TTGATGCATA
* *
45860301 AGATATGTATACGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
45860349 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
45860397 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
45860445 AGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
45860493 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
45860539 GGCGATGTGT
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:45860793 original size:37 final size:37
Alignment explanation
Indices: 45860685--45860793 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
45860675 GGAAATATAT
*
45860685 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
*
45860722 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
* * *
45860759 TCCGGGTAAGACTCAATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTT
45860794 CATTTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
Found at i:45863062 original size:43 final size:43
Alignment explanation
Indices: 45863014--45863168 Score: 274
Period size: 43 Copynumber: 3.6 Consensus size: 43
45863004 CTGGCATTAT
* *
45863014 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
*
45863057 GCCTGCTAGGCACGAAGGCCAGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
*
45863100 GCCTTCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
45863143 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
45863169 TAATACCAGC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
Found at i:45863209 original size:38 final size:38
Alignment explanation
Indices: 45863161--45863234 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
45863151 GGCACGAAGG
** *
45863161 CCCGAATATAATACCAGCATTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
*
45863199 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
45863235 GACCCGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
Found at i:45864302 original size:2 final size:2
Alignment explanation
Indices: 45864290--45864320 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
45864280 CACTTTCAAA
45864290 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45864321 TCGACTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45866351 original size:37 final size:37
Alignment explanation
Indices: 45866310--45866383 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
45866300 AACAATAATT
*
45866310 ACCTAGATTGAATA-TTTCTTTTTCAGATTTAATGGCA
1 ACCTAGATTGAA-AGTTTCTTTTTCAAATTTAATGGCA
45866347 ACCTAGATTGAAAGTTTCTTTTTCAAATTTAATGGCA
1 ACCTAGATTGAAAGTTTCTTTTTCAAATTTAATGGCA
45866384 GTCCAGGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 34 0.97
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ACCTAGATTGAAAGTTTCTTTTTCAAATTTAATGGCA
Found at i:45875782 original size:27 final size:26
Alignment explanation
Indices: 45875738--45875789 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
45875728 CTCGCTGCAA
*
45875738 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
45875765 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
45875790 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:45875843 original size:31 final size:32
Alignment explanation
Indices: 45875805--45875866 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
45875795 CTCGCTGCAA
* *
45875805 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
45875836 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
45875867 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:45878448 original size:18 final size:18
Alignment explanation
Indices: 45878410--45878450 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45878400 GGTTAAGGAT
* **
45878410 ACGGGCGTGTGTGACCTC
1 ACGGGCGCGTGTGACAAC
45878428 ACGGGCGCGTGTGACAAC
1 ACGGGCGCGTGTGACAAC
45878446 ACGGG
1 ACGGG
45878451 TGTGTCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.27, G:0.41, T:0.15
Consensus pattern (18 bp):
ACGGGCGCGTGTGACAAC
Found at i:45883358 original size:44 final size:45
Alignment explanation
Indices: 45883308--45883395 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
45883298 GTATTAAACG
*
45883308 TGGTCTTACTCGCACA-CATATATCAGAATCACATATCGATGCCA
1 TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCCA
* **
45883352 TGGTCTTACTCGCACATCACATGTTGGAATCACATATCGATGCC
1 TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCC
45883396 TCATATACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (45 bp):
TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCCA
Found at i:45883581 original size:25 final size:25
Alignment explanation
Indices: 45883546--45883603 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
45883536 ACTTTAGCAT
* *
45883546 TACAAACATAAACAT-ACATTGTATA
1 TACAAATATAAACATGAAATT-TATA
*
45883571 TACAAATATAAACTTGAAATTTATA
1 TACAAATATAAACATGAAATTTATA
45883596 TACAAATA
1 TACAAATA
45883604 ATCAACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.31
Consensus pattern (25 bp):
TACAAATATAAACATGAAATTTATA
Found at i:45889412 original size:76 final size:76
Alignment explanation
Indices: 45889315--45889455 Score: 255
Period size: 76 Copynumber: 1.9 Consensus size: 76
45889305 TTAAGTAAGT
* *
45889315 TGTTTTAACAATAGAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
1 TGTTTTAACAACAAAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
45889380 GTCCAGGTTTG
66 GTCCAGGTTTG
*
45889391 TGTTTTAACAACAAAATTAATTTATGATAATCTAAACTCACATAAATAAAACCTTATCACCTATT
1 TGTTTTAACAACAAAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
45889456 TTCTATGTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.35
Consensus pattern (76 bp):
TGTTTTAACAACAAAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
GTCCAGGTTTG
Found at i:45891004 original size:27 final size:27
Alignment explanation
Indices: 45890966--45891030 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
45890956 TATTCTTTTG
*
45890966 GTGAACCCTCAGTTCACCGATACATTA
1 GTGAATCCTCAGTTCACCGATACATTA
** *
45890993 GTGAATCCTCAGTTTGCCGATACATTG
1 GTGAATCCTCAGTTCACCGATACATTA
*
45891020 GCGAATCCTCA
1 GTGAATCCTCA
45891031 CTTGTGAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (27 bp):
GTGAATCCTCAGTTCACCGATACATTA
Found at i:45893191 original size:60 final size:61
Alignment explanation
Indices: 45893097--45893228 Score: 230
Period size: 60 Copynumber: 2.2 Consensus size: 61
45893087 AATAAAAGAT
*
45893097 ACAAATTCAAATTCTGAGAATTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
1 ACAAATTCAAATTCTGAGAATTAATGAAACCTAATTTCACTAAGATCAAACCTAAAGGAGA
**
45893158 ACAAATT-AAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAAAGGAGA
1 ACAAATTCAAATTCTGAGAATTAATGAAACCTAATTTCACTAAGATCAAACCTAAAGGAGA
45893218 ACAAATTCAAA
1 ACAAATTCAAA
45893229 AGCTTTAAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
60 57 0.85
61 10 0.15
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (61 bp):
ACAAATTCAAATTCTGAGAATTAATGAAACCTAATTTCACTAAGATCAAACCTAAAGGAGA
Found at i:45894954 original size:7 final size:7
Alignment explanation
Indices: 45894942--45894970 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45894932 TAGCAAGATG
45894942 AAAATAA
1 AAAATAA
45894949 AAAATAA
1 AAAATAA
45894956 AAAATAA
1 AAAATAA
45894963 AAAATAA
1 AAAATAA
45894970 A
1 A
45894971 CCTTGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:45895262 original size:42 final size:43
Alignment explanation
Indices: 45895208--45895291 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 43
45895198 TGGACATCAC
45895208 ATATATAATAAGAATAATTACATATTA-TTTTTACTATCATAT
1 ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATAT
*
45895250 ATATATAGTAAGAATAATTACATATTAGTTTTTACTATCATA
1 ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATA
45895292 AAAAGTTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 26 0.65
43 14 0.35
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (43 bp):
ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATAT
Found at i:45896869 original size:22 final size:21
Alignment explanation
Indices: 45896822--45896869 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
45896812 TTGATTTACC
** *
45896822 AATATTTTACATTAGTATTAA
1 AATATTTTACATTAAAATAAA
*
45896843 TATATTTTACAATTAAAATAAA
1 AATATTTTAC-ATTAAAATAAA
45896865 AATAT
1 AATAT
45896870 ATTATTACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATTTTACATTAAAATAAA
Found at i:45897383 original size:21 final size:20
Alignment explanation
Indices: 45897357--45897400 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
45897347 GAGAACAGAC
45897357 TAGAAGGCCCTTAAACCACCT
1 TAGAAGGCCC-TAAACCACCT
**
45897378 TAGAAGGGGCTAAACCACCT
1 TAGAAGGCCCTAAACCACCT
45897398 TAG
1 TAG
45897401 TGGATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
TAGAAGGCCCTAAACCACCT
Found at i:45898335 original size:143 final size:143
Alignment explanation
Indices: 45898077--45898356 Score: 488
Period size: 143 Copynumber: 2.0 Consensus size: 143
45898067 TTTGAGGGGG
*
45898077 CCTTTAATATAGCAATTGGTGACCTAGCTCGTAAAAATGAAGCCTTGGAGGCCTTGGTGGAGGCC
1 CCTTTAATATAGCAATTGGTGACCTAGCTCGTAAAAATGAAGCCTTGGAGGCCTTGGTGGAAGCC
* * *
45898142 ATACGTAATGAGATTATTGAGCTAAAGGTGAAGCTCGCGAGACTTAAATCCATGGAAGGTATGTG
66 ATACGCAATGAGATTATTGAGCTAAAGGCGAAGCTCGCGAGACTTAAATCCATAGAAGGTATGTG
45898207 TGGTATCTCGGGA
131 TGGTATCTCGGGA
*
45898220 CCTTTACTATAGCAATTGGTGACCTAGCTCGTAAAAATGAAGCCTTGGAGGCCTTGGTGGAAGCC
1 CCTTTAATATAGCAATTGGTGACCTAGCTCGTAAAAATGAAGCCTTGGAGGCCTTGGTGGAAGCC
* * *
45898285 ATACGCAATGAGATTGTTGAGCTGAAGGCGAAGCTTGCGAGACTTAAATCCATAGAAGGTATGTG
66 ATACGCAATGAGATTATTGAGCTAAAGGCGAAGCTCGCGAGACTTAAATCCATAGAAGGTATGTG
45898350 TGGTATC
131 TGGTATC
45898357 CCATACTTTC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 129 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (143 bp):
CCTTTAATATAGCAATTGGTGACCTAGCTCGTAAAAATGAAGCCTTGGAGGCCTTGGTGGAAGCC
ATACGCAATGAGATTATTGAGCTAAAGGCGAAGCTCGCGAGACTTAAATCCATAGAAGGTATGTG
TGGTATCTCGGGA
Found at i:45900223 original size:43 final size:42
Alignment explanation
Indices: 45900107--45900224 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
45900097 GACTTGAGAT
* * * *
45900107 TTACATGTAATACCATGTTTGGGACATTGGCATCGTATATGA
1 TTACATGTAAGACCACGTTTGGGACGTTGGCATCATATATGA
* * * * *
45900149 TTTCATGGAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGA
1 TTACATGTAAGACCAC-GTTTGGGA-CGTTGGCATC-ATATATGA
*
45900192 TTACATGTAAGACCACGTTTGGGGCGTTGGCAT
1 TTACATGTAAGACCACGTTTGGGACGTTGGCAT
45900225 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
42 26 0.46
43 30 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACGTTGGCATCATATATGA
Found at i:45906360 original size:44 final size:44
Alignment explanation
Indices: 45906306--45906393 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
45906296 TCCGATATGT
45906306 GATTTAGTGTAAGACCATATCTGGGACATTGGCATCG-ATTTGA
1 GATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
*
45906349 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 GATTTA-GTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
45906394 TGTAACACCC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 6 0.14
44 30 0.71
45 6 0.14
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (44 bp):
GATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
Found at i:45906666 original size:9 final size:9
Alignment explanation
Indices: 45906652--45906676 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45906642 GCAAATTCAA
45906652 ACCAAAATC
1 ACCAAAATC
45906661 ACCAAAATC
1 ACCAAAATC
45906670 ACCAAAA
1 ACCAAAA
45906677 CCAATGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (9 bp):
ACCAAAATC
Found at i:45908442 original size:14 final size:14
Alignment explanation
Indices: 45908418--45908450 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45908408 TCCCTGCTTC
45908418 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
45908433 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
45908446 GTTTC
1 GTTTC
45908451 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:45908783 original size:15 final size:14
Alignment explanation
Indices: 45908765--45908795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
45908755 TTAATTTATT
45908765 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
45908780 TAATAATAATCTAA
1 TAATAATAATCTAA
45908794 TA
1 TA
45908796 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:45908806 original size:21 final size:20
Alignment explanation
Indices: 45908782--45908850 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
45908772 AATGCTAATA
45908782 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
45908803 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
45908822 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
45908843 ATAATAAT
1 ATAATAAT
45908851 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:45922736 original size:43 final size:43
Alignment explanation
Indices: 45922687--45922827 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
45922677 ACGGCCTAAG
* * *
45922687 ACACGGGTGTGCCTACTAGCCATGTGAGGCACACGGTCTGTGC
1 ACACGGGTGTGTCTACTAGCCGTGTGAGGCACACGGTCTGTTC
*
45922730 ACACGGGTGTGTCTACTAGCCGTGTGAGGCACACAGTCTGTTC
1 ACACGGGTGTGTCTACTAGCCGTGTGAGGCACACGGTCTGTTC
**
45922773 ACACGGGCATGTCTACTAGCCGTGTGAGGCACACGGTCTGTTC
1 ACACGGGTGTGTCTACTAGCCGTGTGAGGCACACGGTCTGTTC
45922816 ACACGGGCTGTG
1 ACACGGG-TGTG
45922828 ACCTTTGTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 86 0.98
44 2 0.02
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (43 bp):
ACACGGGTGTGTCTACTAGCCGTGTGAGGCACACGGTCTGTTC
Found at i:45933235 original size:29 final size:29
Alignment explanation
Indices: 45933197--45933254 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
45933187 TTCCCAAGCC
45933197 TAGGGGCAAAAGTATAATTTGCAAAAGTT
1 TAGGGGCAAAAGTATAATTTGCAAAAGTT
* *
45933226 TAGGGGCAAAAGTGTAATTTTCAAAAGTT
1 TAGGGGCAAAAGTATAATTTGCAAAAGTT
45933255 CATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (29 bp):
TAGGGGCAAAAGTATAATTTGCAAAAGTT
Found at i:45933795 original size:47 final size:47
Alignment explanation
Indices: 45933674--45933845 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 47
45933664 GGATGGTTGA
* *
45933674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* * *
45933722 G--TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
45933767 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATG--AAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
45933813 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
45933846 TAGGGGCGGG
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 6 0.06
44 29 0.27
45 4 0.04
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:45951736 original size:48 final size:48
Alignment explanation
Indices: 45951576--45951744 Score: 170
Period size: 48 Copynumber: 3.6 Consensus size: 48
45951566 TGATATGTGT
*
45951576 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCAT--AGCAT-G--AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCGAG-ATAGTCA-A
* *
45951622 GCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGTTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGTCAA
* * * * *
45951670 GCCAATGTATGACATGTCTGAGACATGCATCGGCCTCGCGATA-TACAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGT-CAA
* *
45951718 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
45951745 GAATCAGCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 4 0.04
48 62 0.60
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGTCAA
Found at i:45953669 original size:40 final size:40
Alignment explanation
Indices: 45953624--45953701 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
45953614 TTACAGTTAT
45953624 GTTTGACGACAAATT-GGCTAAATATGGCACTTAGTGTGTG
1 GTTTGAC-ACAAATTCGGCTAAATATGGCACTTAGTGTGTG
* **
45953664 GTTTGACATAGCTTCGGCTAAATATGGCACTTAGTGTG
1 GTTTGACACAAATTCGGCTAAATATGGCACTTAGTGTG
45953702 CGATTTGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (40 bp):
GTTTGACACAAATTCGGCTAAATATGGCACTTAGTGTGTG
Found at i:45953709 original size:40 final size:40
Alignment explanation
Indices: 45953639--45953714 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
45953629 ACGACAAATT
* *
45953639 GGCTAAATATGGCACTTAGTGTGTGGTTTGACATAGCTTC
1 GGCTAAATATGGCACTTAGTGTGCGATTTGACATAGCTTC
*
45953679 GGCTAAATATGGCACTTAGTGTGCGATTTGAGATAG
1 GGCTAAATATGGCACTTAGTGTGCGATTTGACATAG
45953715 TTTTGACTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (40 bp):
GGCTAAATATGGCACTTAGTGTGCGATTTGACATAGCTTC
Found at i:45953769 original size:28 final size:28
Alignment explanation
Indices: 45953729--45953824 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
45953719 GACTATGTAC
* *
45953729 GACACTTATTGTGCAAGACATCGAGTAT
1 GACACTTAGTGTGCAAGACATTGAGTAT
*
45953757 GACACTTAGTGTGCGAA-ACATTGAGAAT
1 GACACTTAGTGTGC-AAGACATTGAGTAT
** ** *
45953785 GGTACTTAGTGTGTGAGATATTGAGTAT
1 GACACTTAGTGTGCAAGACATTGAGTAT
*
45953813 GACATTTAGTGT
1 GACACTTAGTGT
45953825 ATGAGATATC
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 51 0.94
29 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCAAGACATTGAGTAT
Found at i:45956190 original size:37 final size:37
Alignment explanation
Indices: 45956133--45956229 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 37
45956123 TGAGTACGTA
* *
45956133 TAAGACTATACCTGGGCTATGGCATCATAATAACATG
1 TAAGACCATACCTGGACTATGGCATCATAATAACATG
* ** * **
45956170 TAAGACCATAGCTGGACTATGGCATTGTGATCCCATG
1 TAAGACCATACCTGGACTATGGCATCATAATAACATG
*
45956207 TAAGACCATATCTGGGA-TATGGC
1 TAAGACCATACCT-GGACTATGGC
45956230 GTTGGCATCG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 47 0.94
38 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (37 bp):
TAAGACCATACCTGGACTATGGCATCATAATAACATG
Found at i:45956255 original size:48 final size:48
Alignment explanation
Indices: 45956195--45956327 Score: 194
Period size: 48 Copynumber: 2.8 Consensus size: 48
45956185 ACTATGGCAT
*
45956195 TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
*
45956243 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
** * * * *
45956291 TGTGATTTCGTGTAAGACCATGTTTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
45956328 CAAGAAGAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
Found at i:45957746 original size:68 final size:70
Alignment explanation
Indices: 45957674--45957871 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
45957664 ACACCCTGTA
* * * *
45957674 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
45957736 ATAAAT
65 ATAAAT
*
45957742 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
45957807 ATAAAT
65 ATAAAT
*
45957813 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
45957872 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:45957785 original size:41 final size:41
Alignment explanation
Indices: 45957740--45957857 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
45957730 TGAAAGATAA
45957740 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
45957781 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45957811 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45957852 ATGTAG
1 ATGTAG
45957858 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:45957797 original size:71 final size:71
Alignment explanation
Indices: 45957708--45957871 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
45957698 GAGATGTATC
45957708 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45957773 AGGACA
66 AGGACA
45957779 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45957844 AGGACA
66 AGGACA
45957850 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
45957872 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:45965313 original size:68 final size:70
Alignment explanation
Indices: 45965241--45965438 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
45965231 ACACCCTGTA
* * * *
45965241 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
45965303 ATAAAT
65 ATAAAT
*
45965309 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
45965374 ATAAAT
65 ATAAAT
*
45965380 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
45965439 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:45965352 original size:41 final size:41
Alignment explanation
Indices: 45965307--45965424 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
45965297 TGAAAGATAA
45965307 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
45965348 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45965378 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45965419 ATGTAG
1 ATGTAG
45965425 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:45965364 original size:71 final size:71
Alignment explanation
Indices: 45965275--45965438 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
45965265 GAGATGTATC
45965275 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45965340 AGGACA
66 AGGACA
45965346 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45965411 AGGACA
66 AGGACA
45965417 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
45965439 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:45971114 original size:40 final size:40
Alignment explanation
Indices: 45971059--45971164 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
45971049 ACGATAAATT
* *
45971059 GGCTAAATATGGCACTTAGTGTGCGGTTCGACATAGCTTC
1 GGCTAGATATGGCACTTAGTGTGCGATTCGACATAGCTTC
* * * *
45971099 GGCTAGATATGGCACTTAGTGTTCGATTTGAGATAGTTTC
1 GGCTAGATATGGCACTTAGTGTGCGATTCGACATAGCTTC
* *
45971139 GGCTATG-TACGACACTTAGTGTGCGA
1 GGCTA-GATATGGCACTTAGTGTGCGA
45971165 GACATCGAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (40 bp):
GGCTAGATATGGCACTTAGTGTGCGATTCGACATAGCTTC
Found at i:45971191 original size:28 final size:28
Alignment explanation
Indices: 45971149--45971260 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 28
45971139 GGCTATGTAC
*
45971149 GACACTTAGTGTGCGAGACATCGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* * * *
45971177 GTCACTTTGTGTGCGAAACATTGAGAAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
* *
45971205 GACACTTAGTGTGCGAGATATTGAGTAC
1 GACACTTAGTGTGCGAGACATTGAGTAT
* * * * *
45971233 AACACTTTGTGTGGGAAATATTGAGTAT
1 GACACTTAGTGTGCGAGACATTGAGTAT
45971261 TCAATTGGCA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGACATTGAGTAT
Found at i:45971239 original size:56 final size:56
Alignment explanation
Indices: 45971149--45971257 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
45971139 GGCTATGTAC
***
45971149 GACACTTAGTGTGCGAGACATCGAGTATGTCACTTTGTGTGCGAAACATTGAGAAT
1 GACACTTAGTGTGCGAGACATCGAGTACAACACTTTGTGTGCGAAACATTGAGAAT
* * * *
45971205 GACACTTAGTGTGCGAGATATTGAGTACAACACTTTGTGTGGGAAATATTGAG
1 GACACTTAGTGTGCGAGACATCGAGTACAACACTTTGTGTGCGAAACATTGAG
45971258 TATTCAATTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (56 bp):
GACACTTAGTGTGCGAGACATCGAGTACAACACTTTGTGTGCGAAACATTGAGAAT
Found at i:45973963 original size:40 final size:40
Alignment explanation
Indices: 45973910--45974093 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
45973900 CATTCGAATG
* * * *
45973910 ATATTCGGGCTAAGTCCCAAAGGCTTTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * *
45973950 ATATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * *
45973990 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* *
45974030 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
45974070 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45974094 CTTGTGCGAT
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:45983132 original size:13 final size:13
Alignment explanation
Indices: 45983114--45983138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45983104 TGTTGGTGCC
45983114 CACGACCGTGTCG
1 CACGACCGTGTCG
45983127 CACGACCGTGTC
1 CACGACCGTGTC
45983139 CTACGTTGTT
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:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:45996669 original size:50 final size:50
Alignment explanation
Indices: 45996564--45996938 Score: 283
Period size: 50 Copynumber: 7.7 Consensus size: 50
45996554 CAAGATAGTC
* * * * *
45996564 AGTGTAAGAACATGCCTAGGACATGGCATCGGCATTGAT-G-TGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCT
* * *
45996612 AGTGTAAGACCATGTCCGGGATATGGCATCGGCACTGATAGATTAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCT
* * * * *
45996662 AGTGTAAGACCGTGTTTGGGACATGGCATCAG--CT-ATGAGATGTG-TC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAT-AGATGAGAGCT
* ** * * *
45996708 AGTGTAAGACCATGTCTTGGACATGGCATTAGCACAGATGGACGAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCT
* * * * *
45996757 CAGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCGACATACGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATAGATGAGAGCT
* ** * * * *
45996808 AGTTTAAGACCATGTCTGGGACATGGTGTCTGGCTC-AATACATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACTGATAGATGAGAGCT
* **
45996857 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATACG-T--GAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATA-GATGAGAGCT
*
45996906 AGTGTAAGACCATGTCTGGGACACGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
45996939 TTCCTACCCT
Statistics
Matches: 259, Mismatches: 51, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
46 28 0.11
47 3 0.01
48 78 0.30
49 9 0.03
50 137 0.53
51 3 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAGATGAGAGCT
Found at i:45996762 original size:96 final size:96
Alignment explanation
Indices: 45996564--45996790 Score: 244
Period size: 96 Copynumber: 2.3 Consensus size: 96
45996554 CAAGATAGTC
* * * *
45996564 AGTGTAAGAACATGCCTAGGACATGGCATCGGC-AT-TGATGTGATAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCTATGAGATGTG-T--C-AGTGTAAGACCATGT
* * * **
45996627 CCGGGATATGGCATCGGCACTGATAGATTAGAGCT
62 CCGGGACATGGCATCAGCACAGATAGACGAGAGCT
* * * **
45996662 AGTGTAAGACCGTGTTTGGGACATGGCATCAGCTATGAGATGTGTCAGTGTAAGACCATGTCTTG
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCTATGAGATGTGTCAGTGTAAGACCATGTCCGG
* *
45996727 GACATGGCATTAGCACAGATGGACGAGAG-T
66 GACATGGCATCAGCACAGATAGACGAGAGCT
45996757 CAGTGTAAGACCATGTCTAGGACATGGCATCAGC
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAGC
45996791 CTCGACATAC
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
95 1 0.01
96 69 0.64
97 1 0.01
98 27 0.25
99 3 0.03
100 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCTATGAGATGTGTCAGTGTAAGACCATGTCCGG
GACATGGCATCAGCACAGATAGACGAGAGCT
Found at i:45996786 original size:146 final size:149
Alignment explanation
Indices: 45996513--45996886 Score: 346
Period size: 146 Copynumber: 2.6 Consensus size: 149
45996503 TAGGGTTATT
* * *
45996513 CGAGAGCTAGTGTAAGACCATGTCTGGCGTCA--GC--CT---TGATACAAGATAGTCAGTGTAA
1 CGAGAGCTAGTGTAAGACCATGTCTGG-GACATGGCATCTAGCTAATACATGATAGTCAGTGTAA
* * * ** ** * * *
45996571 GAACATGCCTAGGACATGGCATCGGCATTGAT-G-TGATAG-CTAGTGTAAGACCATGTCCGGGA
65 GACCATGTCTGGGACATGGCATTAGCACAGATGGACGAGAGTC-AGTGTAAGACCATGTCCAGGA
* * *
45996633 TATGGCATCGGCACT-GATAGA
129 CATGGCATCAGC-CTCGACAGA
** * * *
45996654 TTAGAGCTAGTGTAAGACCGTGTTTGGGACATGGCATC-AGCT-ATGAGATG-T-GTCAGTGTAA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCTAGCTAAT-ACATGATAGTCAGTGTAA
* *
45996715 GACCATGTCTTGGACATGGCATTAGCACAGATGGACGAGAGTCAGTGTAAGACCATGTCTAGGAC
65 GACCATGTCTGGGACATGGCATTAGCACAGATGGACGAGAGTCAGTGTAAGACCATGTCCAGGAC
*
45996780 ATGGCATCAGCCTCGACATA
130 ATGGCATCAGCCTCGACAGA
* ** *
45996800 CGAGAGCTAGTTTAAGACCATGTCTGGGACATGGTGTCTGGCTCAATACATGATAGTCAGTGTAA
1 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCTAGCT-AATACATGATAGTCAGTGTAA
45996865 GACCATGTCTGGGACATGGCAT
65 GACCATGTCTGGGACATGGCAT
45996887 CGACTTTGAT
Statistics
Matches: 184, Mismatches: 32, Indels: 25
0.76 0.13 0.10
Matches are distributed among these distances:
140 3 0.02
141 23 0.12
142 2 0.01
144 36 0.20
145 6 0.03
146 72 0.39
147 4 0.02
148 4 0.02
149 3 0.02
150 31 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (149 bp):
CGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCTAGCTAATACATGATAGTCAGTGTAAG
ACCATGTCTGGGACATGGCATTAGCACAGATGGACGAGAGTCAGTGTAAGACCATGTCCAGGACA
TGGCATCAGCCTCGACAGA
Found at i:46001744 original size:28 final size:28
Alignment explanation
Indices: 46001675--46001775 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46001665 GACAAGATTG
* * * *
46001675 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46001705 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46001733 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46001762 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46001776 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46009694 original size:28 final size:28
Alignment explanation
Indices: 46009625--46009725 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
46009615 GACAAGATTG
* * * *
46009625 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
46009655 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46009683 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
46009712 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
46009726 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46013854 original size:30 final size:30
Alignment explanation
Indices: 46013818--46013879 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
46013808 TAATGTTAGC
*
46013818 AGCTAAAAAATTCGCGATGTCTGCAAACCA
1 AGCTAAAAAATTCACGATGTCTGCAAACCA
46013848 AGCTAAAAAATTCACGATGTCTGCAAACCA
1 AGCTAAAAAATTCACGATGTCTGCAAACCA
46013878 AG
1 AG
46013880 GTACCTTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (30 bp):
AGCTAAAAAATTCACGATGTCTGCAAACCA
Found at i:46021632 original size:91 final size:91
Alignment explanation
Indices: 46021506--46021689 Score: 298
Period size: 91 Copynumber: 2.0 Consensus size: 91
46021496 AGAATACATC
* *
46021506 ATTCAAACCCACTGAGCATAGATAAGAAAATGACAATATACTTCCCATATATATATATATATCAG
1 ATTCAAACCCACTGAGAATAGATAAGAAAAGGACAATATACTTCCCATATATATATATATATCAG
46021571 ACAGAGCAATAATTAGAAGAAACAGA
66 ACAGAGCAATAATTAGAAGAAACAGA
* * *
46021597 ATTCAAACCCACTGGGAATAGATACA-ACAAGGACAATATACTTCCCATATATGTATATATATCA
1 ATTCAAACCCACTGAGAATAGATA-AGAAAAGGACAATATACTTCCCATATATATATATATATCA
*
46021661 GACAGAGCAATAATTAGAAGAAATAGA
65 GACAGAGCAATAATTAGAAGAAACAGA
46021688 AT
1 AT
46021690 CATAACGTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
91 85 0.99
92 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.23
Consensus pattern (91 bp):
ATTCAAACCCACTGAGAATAGATAAGAAAAGGACAATATACTTCCCATATATATATATATATCAG
ACAGAGCAATAATTAGAAGAAACAGA
Found at i:46023487 original size:19 final size:20
Alignment explanation
Indices: 46023452--46023489 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46023442 ATTGCATTTT
*
46023452 AATTTTGTTTTTATTTACTG
1 AATTTTATTTTTATTTACTG
46023472 AATTTTATTTTT-TTTACT
1 AATTTTATTTTTATTTACT
46023490 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
AATTTTATTTTTATTTACTG
Found at i:46024437 original size:21 final size:21
Alignment explanation
Indices: 46024411--46024455 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
46024401 CCATGTTATC
46024411 TAACCAGGCAGAACTTTTAAA
1 TAACCAGGCAGAACTTTTAAA
*
46024432 TAACCAGGTAGAACTTTTAAA
1 TAACCAGGCAGAACTTTTAAA
46024453 TAA
1 TAA
46024456 AAAGATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (21 bp):
TAACCAGGCAGAACTTTTAAA
Found at i:46038331 original size:29 final size:29
Alignment explanation
Indices: 46038288--46038400 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
46038278 AGCATTTATT
* * *
46038288 GTGATCTCTACTATAAGAAATCCTTTGTC
1 GTGATCTGTATTATAAGAAAGCCTTTGTC
* * * * *
46038317 GTGATCTTTGTTATAAGAAAGCCATTATG
1 GTGATCTGTATTATAAGAAAGCCTTTGTC
* *
46038346 GTGATCTGTATTATAAAAAAGCCTTTGTG
1 GTGATCTGTATTATAAGAAAGCCTTTGTC
** * * *
46038375 GAAAACTCTATTATAAAAAAGCCTTT
1 GTGATCTGTATTATAAGAAAGCCTTT
46038401 ATGGCGAAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (29 bp):
GTGATCTGTATTATAAGAAAGCCTTTGTC
Found at i:46038417 original size:29 final size:28
Alignment explanation
Indices: 46038327--46038419 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
46038317 GTGATCTTTG
* * ** *
46038327 TTATAAGAAAGCCATTATGGTGATCTGTA
1 TTATAAAAAAGCCTTTATGG-GAAATTTA
* * *
46038356 TTATAAAAAAGCCTTTGTGGAAAACTCTA
1 TTATAAAAAAGCCTTTATGGGAAA-TTTA
*
46038385 TTATAAAAAAGCCTTTATGGCGAAATTTG
1 TTATAAAAAAGCCTTTATGG-GAAATTTA
46038414 TTATAA
1 TTATAA
46038420 GGAATCCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.02
29 47 0.92
30 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (28 bp):
TTATAAAAAAGCCTTTATGGGAAATTTA
Found at i:46038442 original size:29 final size:29
Alignment explanation
Indices: 46038410--46038631 Score: 221
Period size: 29 Copynumber: 7.7 Consensus size: 29
46038400 TATGGCGAAA
* * *
46038410 TTTGTTATAAGGAAT-CCTTTTTGGCTATG
1 TTTGTTA-AAAGAATGCCTTTGTGGCTATC
*
46038439 TTTGTTAAAAGAATGACTTTGTGGCTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
46038468 TTTGTTAAAAGAATGCCTTTGTGGCTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
*
46038497 TTTGTTAAAAGAATGCCTTTGAGGCTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
* * * * *
46038526 TCTATTCAAAGGATGCCTTTATGGCTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
* * * *
46038555 TCTATTAAAAGAATTCCTATGTGGCTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
* * * * **
46038584 TCTATTAAAAGGATGCCTTTTTGATTATC
1 TTTGTTAAAAGAATGCCTTTGTGGCTATC
* * *
46038613 TCTATTAAAGGAATGCCTT
1 TTTGTTAAAAGAATGCCTT
46038632 ATGGAAAACT
Statistics
Matches: 167, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
28 6 0.04
29 161 0.96
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (29 bp):
TTTGTTAAAAGAATGCCTTTGTGGCTATC
Found at i:46038486 original size:87 final size:87
Alignment explanation
Indices: 46038380--46038568 Score: 193
Period size: 87 Copynumber: 2.2 Consensus size: 87
46038370 TTGTGGAAAA
* * ** * * *
46038380 CTCTATTATAAA-AAAGCCTTTATGGCGAAATTTGTTATAAGGAAT-CCTTTTTGGCTATGTTTG
1 CTCTATTA-AAAGAATGCCTTTATGGCGAAATTTGTTA-AAAGAATGCCTTTGAGGCTATCTCTA
*
46038443 TTAAAAGAATGACTTTGTGGCTAT
64 TTAAAAGAATGACTTTATGGCTAT
* * * * **
46038467 CTTTGTTAAAAGAATGCCTTTGTGGCTATCTTTGTTAAAAGAATGCCTTTGAGGCTATCTCTATT
1 CTCTATTAAAAGAATGCCTTTATGGCGAAATTTGTTAAAAGAATGCCTTTGAGGCTATCTCTATT
* * *
46038532 CAAAGGATGCCTTTATGGCTAT
66 AAAAGAATGACTTTATGGCTAT
46038554 CTCTATTAAAAGAAT
1 CTCTATTAAAAGAAT
46038569 TCCTATGTGG
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
86 9 0.11
87 72 0.89
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (87 bp):
CTCTATTAAAAGAATGCCTTTATGGCGAAATTTGTTAAAAGAATGCCTTTGAGGCTATCTCTATT
AAAAGAATGACTTTATGGCTAT
Found at i:46044369 original size:26 final size:26
Alignment explanation
Indices: 46044285--46044387 Score: 116
Period size: 26 Copynumber: 4.0 Consensus size: 26
46044275 CCAAACACAC
*
46044285 CAATATCACTGCAAAGCTGCCAGTAA
1 CAATATCACAGCAAAGCTGCCAGTAA
* * *
46044311 TAATATCACAACAAAGCTGCCAATAA
1 CAATATCACAGCAAAGCTGCCAGTAA
* *
46044337 TAATATCATAGCAAAGCTGCCAGTAA
1 CAATATCACAGCAAAGCTGCCAGTAA
* * * *
46044363 CAGTATCGCAGTAAAGCTGTCAGTA
1 CAATATCACAGCAAAGCTGCCAGTA
46044388 TCAGTATATG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (26 bp):
CAATATCACAGCAAAGCTGCCAGTAA
Found at i:46044413 original size:27 final size:27
Alignment explanation
Indices: 46044383--46044447 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
46044373 GTAAAGCTGT
* *
46044383 CAGTATCAGTATATGTGGGAAAGCCAC
1 CAGTAACAGTATATGTGGCAAAGCCAC
*
46044410 CAGTAACATTATATGTGGCAAAGCCAC
1 CAGTAACAGTATATGTGGCAAAGCCAC
*
46044437 GAGTAACAGTA
1 CAGTAACAGTA
46044448 CACTTTCGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
CAGTAACAGTATATGTGGCAAAGCCAC
Found at i:46046044 original size:28 final size:28
Alignment explanation
Indices: 46046011--46046069 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
46046001 AATCAATGAG
46046011 TTAGTCACATAACAAAGCATCATGTAAT
1 TTAGTCACATAACAAAGCATCATGTAAT
46046039 TTAGTCACATAACAAAGCATCATGTAAT
1 TTAGTCACATAACAAAGCATCATGTAAT
46046067 TTA
1 TTA
46046070 TGTAGGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (28 bp):
TTAGTCACATAACAAAGCATCATGTAAT
Found at i:46047876 original size:16 final size:16
Alignment explanation
Indices: 46047854--46047899 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
46047844 TATTCGTTCG
*
46047854 GCTTTTTAACTTTT-T
1 GCTTTTTAGCTTTTCT
*
46047869 GACTTTTTAGTTTTTCT
1 G-CTTTTTAGCTTTTCT
46047886 GCTTTTTAGCTTTT
1 GCTTTTTAGCTTTT
46047900 GCCATACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 1 0.04
16 23 0.88
17 2 0.08
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.65
Consensus pattern (16 bp):
GCTTTTTAGCTTTTCT
Found at i:46050949 original size:26 final size:26
Alignment explanation
Indices: 46050919--46050995 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
46050909 GCCAACACAC
* *
46050919 CAATATCGCAGCAAAACTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCTAGTAA
*
46050945 TAATATCGCAGCAAAGCTGCTAGTAA
1 CAATATCGCAGCAAAGCTGCTAGTAA
* *
46050971 CAGTAACGCAGCAAAGCTGCTAGTA
1 CAATATCGCAGCAAAGCTGCTAGTA
46050996 TCAGTATTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCTAGTAA
Found at i:46054363 original size:27 final size:27
Alignment explanation
Indices: 46054333--46054530 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
46054323 TACTGAAATG
*
46054333 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
46054360 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
46054387 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
46054414 CCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
46054441 CCCTCGATTTACAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
46054468 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
46054495 CCCTC-AGTTTACAAAATTGCCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
46054522 CCCTCGATT
1 CCCTCGATT
46054531 GTGAAATTAC
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:46054592 original size:27 final size:27
Alignment explanation
Indices: 46054562--46054685 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
46054552 TGTAGGATAG
46054562 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
46054589 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
46054616 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
46054643 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
46054670 AATTACCAAAATACCC
1 AATTACCAAAATACCC
46054686 TTGATTTACA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.03
27 81 0.94
28 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:46054601 original size:54 final size:54
Alignment explanation
Indices: 46054529--46054684 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
46054519 TTACCCTCGA
* * *
46054529 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
46054583 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
46054637 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
46054685 CTTGATTTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 80 0.92
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:46054692 original size:27 final size:27
Alignment explanation
Indices: 46054562--46054798 Score: 160
Period size: 27 Copynumber: 8.7 Consensus size: 27
46054552 TGTAGGATAG
*
46054562 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
46054589 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
46054616 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* **
46054643 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
46054670 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
46054697 AATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * **
46054726 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * * *
46054753 AATTACTGAAATTCCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
46054780 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
46054799 TAGGATGAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 143 0.83
28 8 0.05
29 20 0.12
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:46054699 original size:81 final size:81
Alignment explanation
Indices: 46054562--46054711 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
46054552 TGTAGGATAG
* ** *
46054562 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
46054627 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* * *
46054643 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTATAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
46054706 AATACC
64 AATACC
46054712 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 9 0.15
81 51 0.85
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:46055740 original size:25 final size:25
Alignment explanation
Indices: 46055702--46055771 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
46055692 AGGAAGTGCT
* *
46055702 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
46055727 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
46055752 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46055772 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:46055784 original size:24 final size:24
Alignment explanation
Indices: 46055701--46055796 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
46055691 GAGGAAGTGC
*
46055701 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
46055726 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
46055750 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
46055774 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
46055797 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:46055795 original size:50 final size:50
Alignment explanation
Indices: 46055702--46055796 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
46055692 AGGAAGTGCT
**
46055702 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
46055752 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
46055797 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:46057202 original size:71 final size:71
Alignment explanation
Indices: 46057118--46057281 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
46057108 CGATTTGTCT
46057118 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
46057183 CTTTCA
66 CTTTCA
* *
46057189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
46057254 CTTTCA
66 CTTTCA
46057260 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46057282 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:46057319 original size:71 final size:70
Alignment explanation
Indices: 46057118--46057315 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
46057108 CGATTTGTCT
* * * * *
46057118 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46057183 CTTTCA
65 CTTTCA
* * * *
46057189 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46057254 CTTTCA
65 CTTTCA
* *
46057260 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46057316 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46064737 original size:70 final size:71
Alignment explanation
Indices: 46064650--46064812 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
46064640 CGATTTGTCT
46064650 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46064714 CTTTCA
66 CTTTCA
46064720 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46064785 CTTTCA
66 CTTTCA
46064791 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46064813 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 27 0.29
71 65 0.71
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46064850 original size:71 final size:70
Alignment explanation
Indices: 46064650--46064846 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46064640 CGATTTGTCT
* * *
46064650 CGTAGCTCTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46064714 CTTTCA
65 CTTTCA
* * * *
46064720 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46064785 CTTTCA
65 CTTTCA
* *
46064791 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46064847 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 26 0.22
71 69 0.58
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46066300 original size:31 final size:31
Alignment explanation
Indices: 46066265--46066331 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
46066255 AAGGCTTCAG
46066265 CCAGTGATATGATTTATGAAAAAGCTTCGGC
1 CCAGTGATATGATTTATGAAAAAGCTTCGGC
*
46066296 CCAGTGATATGATTTATGAAAAGGCTTCGGC
1 CCAGTGATATGATTTATGAAAAAGCTTCGGC
46066327 CCAGT
1 CCAGT
46066332 ACATGTCGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
CCAGTGATATGATTTATGAAAAAGCTTCGGC
Found at i:46077170 original size:25 final size:25
Alignment explanation
Indices: 46077141--46077188 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46077131 TTATAATATG
* * *
46077141 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
46077166 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
46077189 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46077257 original size:20 final size:20
Alignment explanation
Indices: 46077232--46077290 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
46077222 TAAATATGGT
46077232 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
46077252 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
46077272 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
46077291 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:46077272 original size:11 final size:11
Alignment explanation
Indices: 46077236--46077290 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
46077226 TATGGTATGT
46077236 ATGATATGCAC
1 ATGATATGCAC
* *
46077247 ATGAAATG--T
1 ATGATATGCAC
46077256 ATGATATGCAC
1 ATGATATGCAC
*
46077267 ATGATATG--T
1 ATGATATGCAC
46077276 ATGATATGCAC
1 ATGATATGCAC
46077287 ATGA
1 ATGA
46077291 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46077368 original size:24 final size:24
Alignment explanation
Indices: 46077341--46077459 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
46077331 GAGGAAGTGA
*
46077341 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
46077365 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
46077388 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
46077412 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
46077436 AAAAGAGGCTT-GGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46077460 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.25
24 52 0.60
25 13 0.15
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:46077410 original size:47 final size:48
Alignment explanation
Indices: 46077341--46077459 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
46077331 GAGGAAGTGA
46077341 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
46077388 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
46077436 AAAAGAGGCTT-GGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46077460 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 9 0.14
49 13 0.20
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:46086874 original size:46 final size:46
Alignment explanation
Indices: 46086821--46086996 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
46086811 TATTTGGGCA
46086821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46086867 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
46086912 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46086960 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46086997 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46086976 original size:93 final size:93
Alignment explanation
Indices: 46086817--46086988 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46086807 GGGATATTTG
* *
46086817 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
46086882 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
46086910 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
46086975 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
46086989 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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:46089674 original size:45 final size:45
Alignment explanation
Indices: 46089512--46089685 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
46089502 ATTTGGGCAT
**
46089512 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CC
* * *
46089558 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC----C
46089603 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACC
*
46089650 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46089686 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.34
46 28 0.26
47 29 0.27
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACC
Found at i:46092894 original size:38 final size:38
Alignment explanation
Indices: 46092835--46092997 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
46092825 TCAATCATGC
*
46092835 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
46092874 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
46092912 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
46092943 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
46092981 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
46092998 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 1 0.01
36 3 0.03
38 68 0.60
39 11 0.10
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:46092900 original size:31 final size:31
Alignment explanation
Indices: 46092858--46092971 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
46092848 CCTTTTCATA
46092858 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
46092895 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
46092927 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
46092958 TTTCATGTTTCATA
1 TTTCATATTTCATA
46092972 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:46092969 original size:69 final size:69
Alignment explanation
Indices: 46092858--46092997 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
46092848 CCTTTTCATA
46092858 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
46092923 GCCT
66 GCCT
*
46092927 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
46092992 GCCT
66 GCCT
46092996 TT
1 TT
46092998 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:46093235 original size:24 final size:25
Alignment explanation
Indices: 46093189--46093283 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
46093179 GCTTTATCAT
46093189 ATAACTGGAGGCC-T-AGCCTCTTTTA
1 ATAACTGG-GGCCATAAGCC-CTTTTA
*
46093214 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGGCCATAAGCCCTTTTA
*
46093238 ATAACT-GGGACATAAGCCCTTTT-
1 ATAACTGGGGCCATAAGCCCTTTTA
46093261 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCATAAGCCCTTTT
46093284 TCACTTCCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
23 24 0.38
24 27 0.43
25 12 0.19
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
ATAACTGGGGCCATAAGCCCTTTTA
Done.