Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 164 of 373
Found at i:54802638 original size:40 final size:40
Alignment explanation
Indices: 54802545--54802838 Score: 377
Period size: 40 Copynumber: 7.5 Consensus size: 40
54802535 AAGCCAAGTA
* * *
54802545 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54802583 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54802623 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54802663 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54802702 CCTTC-GGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
54802741 CCTTCGGGACTTAGCCC-GATGTAATAACTCACACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
54802780 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
54802820 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54802839 TTATCATCCG
Statistics
Matches: 229, Mismatches: 20, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
38 30 0.13
39 89 0.39
40 110 0.48
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54821993 original size:40 final size:39
Alignment explanation
Indices: 54821949--54822131 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 39
54821939 GCTCCTCGTT
* * *
54821949 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
*
54821989 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
54822028 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
54822067 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
54822108 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
54822132 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.02
39 86 0.68
40 29 0.23
41 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:54830142 original size:11 final size:11
Alignment explanation
Indices: 54830126--54830150 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54830116 TTGATGAGTG
54830126 ATTATAATTGA
1 ATTATAATTGA
54830137 ATTATAATTGA
1 ATTATAATTGA
54830148 ATT
1 ATT
54830151 TGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATAATTGA
Found at i:54833882 original size:27 final size:25
Alignment explanation
Indices: 54833835--54833904 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
54833825 ATTTAAATTT
* *
54833835 AAACATAA-AAATATT-ATTAAATTA
1 AAAC-TAATAAATATTGAATAAATGA
54833859 AAACTAAATAAATATTTGAATAAATGA
1 AAACT-AATAAATA-TTGAATAAATGA
**
54833886 AGTCTAATAAATATTGAAT
1 AAACTAATAAATATTGAAT
54833905 TCCACTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 6 0.16
25 11 0.29
26 10 0.26
27 10 0.26
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AAACTAATAAATATTGAATAAATGA
Found at i:54835869 original size:37 final size:37
Alignment explanation
Indices: 54835828--54835901 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
54835818 TATAAGTAGC
*
54835828 ATGGATGTTCACCCTTATATACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
54835865 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
54835902 GTTTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (37 bp):
ATGGATGTTCACCCTTATACACATACAATTGATTTAT
Found at i:54839582 original size:27 final size:27
Alignment explanation
Indices: 54839552--54839729 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
54839542 ATATTGAAAC
* *
54839552 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
54839579 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
54839606 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
54839634 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
54839661 CACACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
54839688 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
54839715 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54839730 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:54850221 original size:43 final size:43
Alignment explanation
Indices: 54850172--54850312 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
54850162 GATTACTGAG
* * *
54850172 ATGTGATTACATGTAAGACCGTATCTGGGACATTGGCATTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
* *
54850214 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGACATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
* * * * *
54850258 ATATGATTTCATGTAAGACCATGTCTGGGACATCGGCAACGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
*
54850301 ATGTGATAACAT
1 ATGTGATTACAT
54850313 CTGGGATATG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 79 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:54853604 original size:17 final size:19
Alignment explanation
Indices: 54853569--54853605 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54853559 TTTAATTAGC
54853569 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
54853588 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
54853605 A
1 A
54853606 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:54853691 original size:11 final size:12
Alignment explanation
Indices: 54853671--54853703 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54853661 TTGATATTTG
*
54853671 AAATTTTTAT-A
1 AAATTATTATAA
54853682 AAATTATTATAA
1 AAATTATTATAA
54853694 AAATTATTAT
1 AAATTATTAT
54853704 TATATGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTATTATAA
Found at i:54855546 original size:20 final size:20
Alignment explanation
Indices: 54855523--54855561 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
54855513 TGAACATGGT
54855523 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
54855543 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
54855562 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:54855668 original size:24 final size:23
Alignment explanation
Indices: 54855612--54855758 Score: 186
Period size: 24 Copynumber: 6.2 Consensus size: 23
54855602 GAGGAAGTGA
*
54855612 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54855635 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
54855658 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54855682 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
54855706 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
54855729 AAAAAAGGCTTTTGTCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
54855754 AAAAG
1 AAAAG
54855759 AGGCAAGGCC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 41 0.38
24 66 0.61
25 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:54855681 original size:47 final size:47
Alignment explanation
Indices: 54855612--54855758 Score: 197
Period size: 47 Copynumber: 3.1 Consensus size: 47
54855602 GAGGAAGTGA
*
54855612 AAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
54855658 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * * *
54855706 TAAAGGGCTTATGCCCTAGTTATAAAAAAGGCTTTTGTCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
54855754 AAAAG
1 AAAAG
54855759 AGGCAAGGCC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
47 61 0.70
48 26 0.30
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCTAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:54855728 original size:71 final size:71
Alignment explanation
Indices: 54855612--54855758 Score: 222
Period size: 71 Copynumber: 2.1 Consensus size: 71
54855602 GAGGAAGTGA
* * * *
54855612 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
54855677 GTTATC
66 GTTATC
* * *
54855683 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATAAAAAAGGCTTTTGTCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
*
54855748 GTTATT
66 GTTATC
54855754 AAAAG
1 AAAAG
54855759 AGGCAAGGCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
GTTATC
Found at i:54856006 original size:31 final size:31
Alignment explanation
Indices: 54855971--54856034 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54855961 CGTTTACAGT
*
54855971 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
54856002 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54856033 AA
1 AA
54856035 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54858303 original size:23 final size:23
Alignment explanation
Indices: 54858273--54858318 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
54858263 CATCGCCGAT
*
54858273 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATAGTCTTA
*
54858296 GCCATGTCCTAGACATAGTCTTA
1 GCCATGTCCCAGACATAGTCTTA
54858319 CACAGGCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (23 bp):
GCCATGTCCCAGACATAGTCTTA
Found at i:54858346 original size:71 final size:71
Alignment explanation
Indices: 54858225--54858366 Score: 196
Period size: 71 Copynumber: 2.0 Consensus size: 71
54858215 CATCGTCAAT
* * * *
54858225 GCCATGTCCCAGACATGGTCTTTCACTAGCACACATATCATCGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATCACCAATGCCATGTCCCAGACATG
54858290 GTCTTA
66 GTCTTA
* ** *
54858296 GCCATGTCCTAGACATAGTCTTACAC-AGGCACGTATATCATCACCAATGCCATGTCTCAGACAT
1 GCCATGTCCCAGACATAGTCTTACACTA-GCACACATATCATCACCAATGCCATGTCCCAGACAT
54858360 GGTCTTA
65 GGTCTTA
54858367 CATAGGCACA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 1 0.02
71 61 0.98
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (71 bp):
GCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATCACCAATGCCATGTCCCAGACATG
GTCTTA
Found at i:54858358 original size:48 final size:47
Alignment explanation
Indices: 54858296--54858465 Score: 191
Period size: 48 Copynumber: 3.5 Consensus size: 47
54858286 CATGGTCTTA
* *
54858296 GCCATGTCCTAGACATAGTCTTACACAGGCACGTATATCATCACCAAT
1 GCCATGTCC-AGACATGGTCTTACACAGGCACATATATCATCACCAAT
* * *
54858344 GCCATGTCTCAGACATGGTCTTACATAGGCACATATATCATCGCCGAT
1 GCCATGTC-CAGACATGGTCTTACACAGGCACATATATCATCACCAAT
* * *
54858392 GCCATGTCCCAGACATGGTCTTACACAGGCAC-TCATCTCAGAT-ATCGAT
1 GCCATGT-CCAGACATGGTCTTACACAGGCACAT-ATATC--ATCACCAAT
54858441 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGT-CCAGACATGGTCTTACA
54858466 TGGAATCTAA
Statistics
Matches: 108, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 74 0.69
49 31 0.29
50 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (47 bp):
GCCATGTCCAGACATGGTCTTACACAGGCACATATATCATCACCAAT
Found at i:54861211 original size:22 final size:22
Alignment explanation
Indices: 54861168--54861211 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54861158 TCAATAAGCA
**
54861168 TATAATAAAGCATTTAGCACAT
1 TATAATAAAGCATTTAAAACAT
*
54861190 TATATTAAAGCATTTAAAACAT
1 TATAATAAAGCATTTAAAACAT
54861212 ACTACCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (22 bp):
TATAATAAAGCATTTAAAACAT
Found at i:54864598 original size:42 final size:43
Alignment explanation
Indices: 54864506--54864618 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
54864496 CAATGCTAAC
* * * **
54864506 GTCCCAGACATGGTCTTATATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAATATCGATGCCAAT
*
54864549 GTCCCAGACAGGGTCTTACACG-AAATCAGATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCA-ATATCGATGCCAAT
* *
54864591 GTCCCAGACATGGTCTTATATGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
54864619 TCAATTGAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 32 0.54
43 27 0.46
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAATATCGATGCCAAT
Found at i:54864638 original size:43 final size:43
Alignment explanation
Indices: 54864506--54864643 Score: 149
Period size: 43 Copynumber: 3.2 Consensus size: 43
54864496 CAATGCTAAC
*
54864506 GTCCCAGACATGGTCTTATATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTATATGTAAATTCAATAT-GATGCCTAT
* * * * *
54864549 GTCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTATATGTAAATTCA-ATATGATGCCTAT
* *
54864591 GTCCCAGACATGGTCTTATATGTAAATCTCAAT-TGAGGCCTGT
1 GTCCCAGACATGGTCTTATATGTAAAT-TCAATATGATGCCTAT
54864634 GTCCCAGACA
1 GTCCCAGACA
54864644 CAGTCTTACA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 29 0.38
43 43 0.56
44 2 0.03
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTATATGTAAATTCAATATGATGCCTAT
Found at i:54867825 original size:52 final size:52
Alignment explanation
Indices: 54867759--54867862 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
54867749 TGAAGCAGAG
54867759 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
1 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
54867811 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
1 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
54867863 TCTCATTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (52 bp):
GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
Found at i:54869928 original size:19 final size:19
Alignment explanation
Indices: 54869892--54869930 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54869882 TTTTCATCAT
* *
54869892 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
54869911 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
54869930 A
1 A
54869931 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:54870441 original size:28 final size:28
Alignment explanation
Indices: 54870393--54870483 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
54870383 GTGACAGAGT
*
54870393 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
54870422 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
54870450 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
54870478 CACCAG
1 CACCAG
54870484 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:54870636 original size:28 final size:28
Alignment explanation
Indices: 54870593--54870653 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
54870583 TAACCCTAGG
*
54870593 GGTATAAAGGTCATTTTGCATACATAGA
1 GGTATAAAGGTAATTTTGCATACATAGA
* * *
54870621 GGTATAATGGTAATTTTTCATACATAGG
1 GGTATAAAGGTAATTTTGCATACATAGA
54870649 GGTAT
1 GGTAT
54870654 TCTAGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (28 bp):
GGTATAAAGGTAATTTTGCATACATAGA
Found at i:54877093 original size:28 final size:28
Alignment explanation
Indices: 54877045--54877125 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
54877035 GTGACAGAGT
* *
54877045 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
54877074 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
54877102 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
54877126 TAGCCACTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 43 0.86
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:54882214 original size:7 final size:7
Alignment explanation
Indices: 54882202--54882226 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54882192 CATCTACGTC
54882202 TCTATCT
1 TCTATCT
54882209 TCTATCT
1 TCTATCT
54882216 TCTATCT
1 TCTATCT
54882223 TCTA
1 TCTA
54882227 GGAGTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (7 bp):
TCTATCT
Found at i:54884873 original size:12 final size:15
Alignment explanation
Indices: 54884842--54884873 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54884832 ATCTACAAGA
54884842 AACAAAAATTAACAC
1 AACAAAAATTAACAC
54884857 AACAAAAATTAACAC
1 AACAAAAATTAACAC
54884872 AA
1 AA
54884874 GTAAGCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (15 bp):
AACAAAAATTAACAC
Found at i:54890538 original size:46 final size:46
Alignment explanation
Indices: 54890425--54890639 Score: 174
Period size: 46 Copynumber: 4.6 Consensus size: 46
54890415 GGGGTAAGGT
*
54890425 GCCGATGCCATGTCCCAGACATGGTCTTACATTGAC--ACATCTCGTA-
1 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGACTTACATCTCG-AG
* * *
54890471 GCTGATGCATGTCCCAGACATGTCTTACATTGACTTACATTTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACATTGACTTACATCTCGAG
* * *
54890517 GCCGATGCATGTCCCAAACATGTCTTACACT-AGCATT-CATCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACATTGA-C-TTACATCTCGAG
* * * * * **
54890563 GCCAATGCCATGTCCCAAACATGGTCTTACACTG-GTTCTCATAAT-TTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGACTT-ACAT-CTCGAG
54890611 GCCGATGCATGTCCCAAACATGTCTTACA
1 GCCGATGCATGTCCCAAACATGTCTTACA
54890640 CTAGCTCACA
Statistics
Matches: 143, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 64 0.45
47 30 0.21
48 19 0.13
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACATTGACTTACATCTCGAG
Found at i:54890582 original size:47 final size:47
Alignment explanation
Indices: 54890516--54890644 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 47
54890506 TACATTTCGA
*
54890516 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCATC-TCAA-T
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGCATTC-TCAT-AATT
*
54890563 -GCCAATGCCATGTCCCAAACATGGTCTTACACT-G-GTTCTCATAATTT
1 GGCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCATTCTCATAA-TT
*
54890610 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGC
54890645 TCACACAAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
45 4 0.06
46 20 0.28
47 31 0.44
48 16 0.23
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
GGCCAATGCATGTCCCAAACATGTCTTACACTAGCATTCTCATAATT
Found at i:54898196 original size:47 final size:47
Alignment explanation
Indices: 54898089--54898216 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 47
54898079 TACATTTCGA
*
54898089 GGCCAATGAATGTCCCAATCATGTCTTACACTAGCACTCGTCTCAAT
1 GGCCAATGAATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT
* * * *
54898136 -GCCGATGCCATGTCCCAAACATGGTCTTACACT-G-GCTC-TCTTAATGT
1 GGCCAATG-AATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCAA--T
*
54898183 GGCCAATGAATGTCCCAGACATGTCTTACACTAG
1 GGCCAATGAATGTCCCAAACATGTCTTACACTAG
54898217 TGTGACACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
45 5 0.07
46 19 0.28
47 27 0.40
48 16 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
GGCCAATGAATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT
Found at i:54901592 original size:18 final size:18
Alignment explanation
Indices: 54901555--54901592 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
54901545 TTTGTGATGA
54901555 ATTTAAAGTATTAGTTGTT
1 ATTTAAAGTATTA-TTGTT
54901574 ATTTATAAGTATT-TTGTT
1 ATTTA-AAGTATTATTGTT
54901592 A
1 A
54901593 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:54903291 original size:15 final size:16
Alignment explanation
Indices: 54903262--54903291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54903252 CAAACATGCT
54903262 TTAACACATTATCAAA
1 TTAACACATTATCAAA
54903278 TTAACACA-TATCAA
1 TTAACACATTATCAA
54903292 GAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:54904470 original size:33 final size:33
Alignment explanation
Indices: 54904401--54904543 Score: 205
Period size: 33 Copynumber: 4.3 Consensus size: 33
54904391 AGTCAGACCA
* * * **
54904401 AACACACCAAATGCTCACACGAGCCAATCCCTCC
1 AACACACC-AATGCTCATAAGAGCTAATCCAACC
*
54904435 AACACACCAATACTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
*
54904468 AACACACCAATTCTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
*
54904501 AATACACCAATGCTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
54904534 AACACACCAA
1 AACACACCAA
54904544 ACAGAGTGTA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 91 0.92
34 8 0.08
ACGTcount: A:0.43, C:0.36, G:0.07, T:0.15
Consensus pattern (33 bp):
AACACACCAATGCTCATAAGAGCTAATCCAACC
Found at i:54906529 original size:15 final size:16
Alignment explanation
Indices: 54906509--54906541 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54906499 TAAGTAAATG
54906509 AAATGGAAAG-TAAGT
1 AAATGGAAAGATAAGT
*
54906524 AAATGGAATGATAAGT
1 AAATGGAAAGATAAGT
54906540 AA
1 AA
54906542 GTAAATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (16 bp):
AAATGGAAAGATAAGT
Found at i:54906544 original size:24 final size:20
Alignment explanation
Indices: 54906499--54906570 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
54906489 AAGCTTATGC
*
54906499 TAAGTAAATGAAATGGA-AAG
1 TAAGTAAATGGAAT-GATAAG
54906519 TAAGTAAATGGAATGATAAG
1 TAAGTAAATGGAATGATAAG
*
54906539 TAAGTAAATGGAATGATGAG
1 TAAGTAAATGGAATGATAAG
54906559 TAAGTAAATGGA
1 TAAGTAAATGGA
54906571 GTGGTTGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 2 0.04
20 47 0.96
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGATAAG
Found at i:54915053 original size:21 final size:21
Alignment explanation
Indices: 54915019--54915070 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
54915009 ATCAACTCAC
54915019 TTGAGC-TCATTTTAGCTCGT
1 TTGAGCTTCATTTTAGCTCGT
*
54915039 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTCATTTTAGCTCGT
*
54915060 TTCAGC-TCATT
1 TTGAGCTTCATT
54915071 CCTTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (21 bp):
TTGAGCTTCATTTTAGCTCGT
Found at i:54916100 original size:41 final size:41
Alignment explanation
Indices: 54916043--54916128 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
54916033 GTGTGGTGTT
54916043 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
1 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
*
54916084 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGG
1 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
54916125 AACC
1 AACC
54916129 GAGGTGACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.33
Consensus pattern (41 bp):
AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
Found at i:54918398 original size:48 final size:48
Alignment explanation
Indices: 54918346--54918627 Score: 383
Period size: 48 Copynumber: 5.9 Consensus size: 48
54918336 TTCATTCTTC
*
54918346 CCCTTTCTCAATCGGTTTCCCTTTAACCGATTGCTTCTAGTTCTTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * * *
54918394 CCCTTTCCCAATCGGTTTCCCTTTGATCGATTACTTCTAGTTCCTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
** *
54918442 CCCTTTCTCAATTAGTTTCCATTTGACCGATTGCTTCTAGTTCGTTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTC-TTTTT
* * * *
54918491 -CTTTTCTCAACCGGTTTCCCTTTGATCGATTGCTTTTAG-T-TTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* *
54918536 CCCTTTCTCAATCGATTTCCCTTTGACCGATTGCTTCTAGTTATTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* *
54918584 CCCTTTCTCAATCGATTTCCC-TTGACCGATTGCTTCTTGTTCTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTT
54918628 CTCCCCTCCC
Statistics
Matches: 204, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
45 5 0.02
46 34 0.17
47 23 0.11
48 138 0.68
49 4 0.02
ACGTcount: A:0.13, C:0.28, G:0.11, T:0.48
Consensus pattern (48 bp):
CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
Found at i:54919521 original size:26 final size:26
Alignment explanation
Indices: 54919485--54919537 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
54919475 ACCTGGACCT
*
54919485 CTAATTGATAAAATGACTATTATGCC
1 CTAAGTGATAAAATGACTATTATGCC
*
54919511 CTAAGTGATAAAATGACTGTTATGCC
1 CTAAGTGATAAAATGACTATTATGCC
54919537 C
1 C
54919538 CTATGAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (26 bp):
CTAAGTGATAAAATGACTATTATGCC
Found at i:54919622 original size:12 final size:12
Alignment explanation
Indices: 54919602--54919640 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
54919592 GTATGATATT
*
54919602 ATGACATGATGC
1 ATGATATGATGC
54919614 ATGATATGATGC
1 ATGATATGATGC
*
54919626 ATGATATGTTGC
1 ATGATATGATGC
54919638 ATG
1 ATG
54919641 GGGATGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (12 bp):
ATGATATGATGC
Found at i:54926172 original size:47 final size:47
Alignment explanation
Indices: 54926114--54926488 Score: 561
Period size: 47 Copynumber: 8.0 Consensus size: 47
54926104 TTTAGGATTT
* *
54926114 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54926161 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54926208 AATGTGATGAAAGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54926255 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54926302 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
54926349 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54926396 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
54926443 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
54926489 TAGTGTGAAA
Statistics
Matches: 294, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 294 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54926264 original size:25 final size:25
Alignment explanation
Indices: 54926189--54926264 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 25
54926179 ATGTATATAT
54926189 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * *
54926214 ATGA-AAGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
54926236 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
54926261 GTGA
1 GTGA
54926265 ATATGAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.16
23 11 0.29
24 11 0.29
25 10 0.26
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:54926336 original size:25 final size:25
Alignment explanation
Indices: 54926256--54926381 Score: 72
Period size: 25 Copynumber: 5.3 Consensus size: 25
54926246 CGAATGGCCA
* *
54926256 ATGTGGTGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* ** *
54926281 ATGTGAT-AAGGCCAA-ATGGC--CT
1 ATGTGATGAATGTGAACAT-GCATAT
54926303 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
54926328 ATGTGATG-AGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
54926350 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
54926375 ATGTGAT
1 ATGTGAT
54926382 AAGGCCGAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
22 17 0.24
23 16 0.22
24 16 0.22
25 23 0.32
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:54926496 original size:94 final size:94
Alignment explanation
Indices: 54926114--54926488 Score: 633
Period size: 94 Copynumber: 4.0 Consensus size: 94
54926104 TTTAGGATTT
54926114 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
54926179 ATGTATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
*
54926208 AATGTGATGAAAGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
54926273 ATGCATATATGTGATAAGGCCAAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
* * * * * * *
54926302 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
54926367 ATGCATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
*
54926396 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
54926461 ATGCATATATGTGGTAAAGCCGAATGGC
66 ATGCATATATGTGATAAGGCCGAATGGC
54926489 TAGTGTGAAA
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 259 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (94 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54926543 original size:141 final size:139
Alignment explanation
Indices: 54926114--54926530 Score: 452
Period size: 141 Copynumber: 3.0 Consensus size: 139
54926104 TTTAGGATTT
54926114 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * * *
54926179 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAA-GTGAGCATGCATATGTG-TGA-T
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGA--AAATGT-AG-GTG-ATGTGCGTTTATT
**
54926241 AAGGCCGAATGGCC
126 GTGGCCGAATGGCC
* * * * * * * *
54926255 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCCTATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * * *
54926320 ATGCATATATGTGATGAGGCCGAATGGCCAATGTG---ATGAATGTGA-GCATGCATATATGTGA
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAAATGTAGGTGATG--TGCGTTTAT-TG-
54926381 TAAGGCCGAATGGCC
127 T--GGCCGAATGGCC
*
54926396 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * *
54926461 ATGCATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGTGATGTGCGTTTATTGTGG
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAA-ATGTAGGTGATGTGCGTTTATTGTGG
54926526 CCGAA
130 CCGAA
54926531 CGACCAAATG
Statistics
Matches: 224, Mismatches: 38, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
134 1 0.00
135 4 0.02
136 3 0.01
137 1 0.00
138 1 0.00
140 7 0.03
141 188 0.84
142 1 0.00
143 2 0.01
144 7 0.03
145 8 0.04
146 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (139 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAAATGTAGGTGATGTGCGTTTATTGTGGC
CGAATGGCC
Found at i:54926701 original size:37 final size:37
Alignment explanation
Indices: 54926651--54926796 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
54926641 GGAAATATAT
* * *
54926651 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54926688 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54926725 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
54926762 TCCGGGTAAGACCCGATAAGTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
54926797 CGTCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54940602 original size:48 final size:48
Alignment explanation
Indices: 54940549--54940791 Score: 328
Period size: 48 Copynumber: 5.1 Consensus size: 48
54940539 TTCATTCTTC
* * * * * *
54940549 CCCTTTCTTATTCGGTTTCCCTTTGACCAATTGTTTCTAATTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
*
54940597 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTTTAGTTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
*
54940645 CCCTTTCTCAATCAGTTTCCCTTTGATCGATTGCTTCTAGTTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
** *
54940693 CCCTTTCTCAATTGGTTTCCCTTTGACCGATTGCTTCTAGTTATTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * * *
54940741 CCCTTTCTCAAT-TGATTTCCC-TTGATCGATTGCTTCTTGTTCTTTTC
1 CCCTTTCTCAATCAG-TTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
54940788 CCCT
1 CCCT
54940792 CCCTTTTTCG
Statistics
Matches: 176, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
47 27 0.15
48 149 0.85
ACGTcount: A:0.12, C:0.27, G:0.10, T:0.51
Consensus pattern (48 bp):
CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
Found at i:54942279 original size:23 final size:23
Alignment explanation
Indices: 54942230--54942279 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
54942220 AAAAATAGTC
* * *
54942230 TCATATTTACATATTTGATAGTC
1 TCATATTTACATATATGACAGTA
54942253 TCATATTTACATATCATGACA-TA
1 TCATATTTACATAT-ATGACAGTA
54942276 TCAT
1 TCAT
54942280 TTTCTTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (23 bp):
TCATATTTACATATATGACAGTA
Found at i:54942714 original size:66 final size:66
Alignment explanation
Indices: 54942638--54942765 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
54942628 TTTCCATTTC
*** *
54942638 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGTGGGATTACTAGTCCAGGCTAAATCCCTAT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCTAT
54942703 G
66 G
* * *
54942704 AGAGAGCACACTCCTGCGAACTTCATTTCTTACAGCAAGATTACCAGTCCAGGCTAAATCCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCC
54942766 CTAGAATGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCTAT
G
Found at i:54955722 original size:47 final size:47
Alignment explanation
Indices: 54955644--54955985 Score: 275
Period size: 47 Copynumber: 8.0 Consensus size: 47
54955634 TGATTTGATT
* *
54955644 AATGTGAT-AAT-TGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54955689 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54955736 AAT-TGATGAA-AGTGAGCATGCATAT-GGTG--AAGG-CGAAT-GCC
1 AATGTGATGAATA-TGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54955777 AATGTGGTG-ATATGAACAT-CATATA--TG-TAA-GCCAAATGGCC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54955818 -A--TGA--AAT-GGAA-A--CATA-ATGTGATGAGGCCGAAT-G-C
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
*
54955853 AA-GT-AT-AAT-TGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
54955896 AATG-GAT-AATGTGAGCATGCATA-GTGTGATAAGGCTGAATGGCC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54955940 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGC
54955986 TAGTGTGAAA
Statistics
Matches: 241, Mismatches: 27, Indels: 56
0.74 0.08 0.17
Matches are distributed among these distances:
33 1 0.00
34 4 0.02
35 4 0.02
36 8 0.03
37 14 0.06
38 3 0.01
39 3 0.01
40 16 0.07
41 32 0.13
42 11 0.05
43 7 0.03
44 29 0.12
45 25 0.10
46 34 0.14
47 50 0.21
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54955826 original size:93 final size:92
Alignment explanation
Indices: 54955655--54955985 Score: 331
Period size: 91 Copynumber: 3.9 Consensus size: 92
54955645 ATGTGATAAT
*
54955655 TGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTG
1 TGAGCATGCATATGTGTGA-AAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTG
54955720 ATAAGGCCGAATGGCCAATTGATGAAAG
65 ATAAGGCCGAATGGCCAATTGATGAAAG
54955748 TGAGCATGCATATG-GTG-AAGG-CGAAT-GCCAATGTGGTG-ATATGAACAT-CATATA--TG-
1 TGAGCATGCATATGTGTGAAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGA
*
54955804 TAA-GCCAAATGGCC-----ATGAAA-
66 TAAGGCCGAATGGCCAATTGATGAAAG
** * *
54955824 TG-G-AAACATAATGTGATG--AGGCCGAAT-G-CAA-GT-AT-AAT-TGAGCATGCATATATGT
1 TGAGCATGCAT-ATGTG-TGAAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGT
* *
54955879 GATAAGGCCGAATGGCCAATGGAT-AATG
64 GATAAGGCCGAATGGCCAATTGATGAAAG
*
54955907 TGAGCATGCATA-GTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAACATGCATATATGTG
1 TGAGCATGCATATGTGTGA-AAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTG
* *
54955971 GTAAAGCCGAATGGC
65 ATAAGGCCGAATGGC
54955986 TAGTGTGAAA
Statistics
Matches: 196, Mismatches: 15, Indels: 56
0.73 0.06 0.21
Matches are distributed among these distances:
73 6 0.03
74 13 0.07
75 6 0.03
76 11 0.06
77 17 0.09
78 10 0.05
82 14 0.07
83 10 0.05
84 4 0.02
85 12 0.06
86 6 0.03
87 13 0.07
88 14 0.07
89 6 0.03
90 7 0.04
91 30 0.15
92 3 0.02
93 14 0.07
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (92 bp):
TGAGCATGCATATGTGTGAAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGA
TAAGGCCGAATGGCCAATTGATGAAAG
Found at i:54956198 original size:37 final size:37
Alignment explanation
Indices: 54956148--54956293 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
54956138 GGAAATATAT
* * *
54956148 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54956185 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54956222 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
54956259 TCCGGGTAAGACCCGATAAGTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
54956294 CGTCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54970152 original size:48 final size:48
Alignment explanation
Indices: 54970100--54970342 Score: 328
Period size: 48 Copynumber: 5.1 Consensus size: 48
54970090 TTCATTCTTC
* * * * * *
54970100 CCCTTTCTTATTCGGTTTCCCTTTGACCAATTGTTTCTAATTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
*
54970148 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTTTAGTTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
*
54970196 CCCTTTCTCAATCAGTTTCCCTTTGATCGATTGCTTCTAGTTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
** *
54970244 CCCTTTCTCAATTGGTTTCCCTTTGACCGATTGCTTCTAGTTATTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * * *
54970292 CCCTTTCTCAAT-TGATTTCCC-TTGATCGATTGCTTCTTGTTCTTTTC
1 CCCTTTCTCAATCAG-TTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
54970339 CCCT
1 CCCT
54970343 CCCTTTTTCG
Statistics
Matches: 176, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
47 27 0.15
48 149 0.85
ACGTcount: A:0.12, C:0.27, G:0.10, T:0.51
Consensus pattern (48 bp):
CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
Found at i:54972274 original size:67 final size:67
Alignment explanation
Indices: 54972201--54972332 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
54972191 TTTCCATTTC
*** *
54972201 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGTGGGATTACTAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
54972266 TG
66 TG
* * *
54972268 AGAGAGCACACTCCTGCGAACTTCATTTCTTACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
54972333 GAATGACAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
TG
Found at i:54985512 original size:16 final size:15
Alignment explanation
Indices: 54985491--54985520 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
54985481 AAAGACGACT
54985491 GAACCCTAACATGAAG
1 GAACCCTAAC-TGAAG
54985507 GAACCCTAACTGAA
1 GAACCCTAACTGAA
54985521 CCCTAACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.27, G:0.17, T:0.13
Consensus pattern (15 bp):
GAACCCTAACTGAAG
Found at i:54985534 original size:12 final size:12
Alignment explanation
Indices: 54985507--54985544 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
54985497 TAACATGAAG
54985507 GAACCCTAAC-T
1 GAACCCTAACAT
54985518 GAACCCTAACAT
1 GAACCCTAACAT
54985530 GAACCCTAACAT
1 GAACCCTAACAT
54985542 GAA
1 GAA
54985545 GGACGACTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.16
Consensus pattern (12 bp):
GAACCCTAACAT
Found at i:54996799 original size:27 final size:26
Alignment explanation
Indices: 54996738--54996850 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
54996728 AGGAAGCATC
* *
54996738 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
54996766 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
54996793 ATGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
54996821 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
54996847 CTGG
1 CTGG
54996851 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.50
28 30 0.41
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:54996832 original size:55 final size:54
Alignment explanation
Indices: 54996739--54996846 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 54
54996729 GGAAGCATCC
*
54996739 TGGTGGCTATGCCACAAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTTA
1 TGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTTA
* * * *
54996794 TGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
54996847 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
54 16 0.34
55 31 0.66
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTTA
Found at i:55004471 original size:27 final size:26
Alignment explanation
Indices: 55004415--55004522 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
55004405 AAGCGTCCTA
* *
55004415 GTGGCTATGCCACAAATTATCTGATCTG
1 GTGGCTCTGCCAC--ATTATCTGTTCTG
*
55004443 GTGGCTCTGCCACATATATCTGTTATG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
55004470 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
55004498 GTGACTCTGTCACATTATCTGTTCT
1 GTGGCTCTGCCACATTATCTGTTCT
55004523 AGCAGCCATG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.07
27 36 0.52
28 28 0.41
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:55004499 original size:55 final size:54
Alignment explanation
Indices: 55004415--55004520 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
55004405 AAGCGTCCTA
*
55004415 GTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTATG
1 GTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTATG
* * * *
55004470 GTGGCTCTGCCAC-GATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 GTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
55004521 CTAGCAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 15 0.33
55 30 0.67
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTATG
Found at i:55015711 original size:30 final size:30
Alignment explanation
Indices: 55015616--55015712 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
55015606 AGCTCATTCC
* *
55015616 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
55015646 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
55015676 CAGCTCAACTTTAGCTCACGTGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
55015706 TAGCTCA
1 TAGCTCA
55015713 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:55018239 original size:21 final size:20
Alignment explanation
Indices: 55018205--55018272 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
55018195 ACATTCTTGT
55018205 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
55018226 AAAGAAAAAGCAAAAAAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
*
55018247 AAAGAAAATG-AAATAAATAGA
1 AAAGAAAAAGCAAA-AAA-AGA
55018268 AAAGA
1 AAAGA
55018273 GAGGCAAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
20 12 0.29
21 28 0.67
22 2 0.05
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:55018245 original size:15 final size:14
Alignment explanation
Indices: 55018225--55018254 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
55018215 CAAAGAAAAG
55018225 AAAAGAAAAAGCAAA
1 AAAAGAAAAAG-AAA
55018240 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
55018254 A
1 A
55018255 TGAAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:55018340 original size:12 final size:12
Alignment explanation
Indices: 55018320--55018350 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
55018310 TTGAGAGAAC
*
55018320 TTGATAAAGCCT
1 TTGAAAAAGCCT
55018332 TTGAAAAAGCCT
1 TTGAAAAAGCCT
55018344 TTGAAAA
1 TTGAAAA
55018351 GCAAAAAGAA
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:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:55018387 original size:30 final size:31
Alignment explanation
Indices: 55018353--55018432 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 31
55018343 TTTGAAAAGC
* *
55018353 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* *
55018383 AAAAAGAGAATG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
55018413 AAAAAGAAGATGAAAAAGAA
1 AAAAAGAAAATGAAAAAGAA
55018433 TTGAAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.19
30 27 0.64
31 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:55018407 original size:24 final size:24
Alignment explanation
Indices: 55018358--55018427 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
55018348 AAAGCAAAAA
*
55018358 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
55018382 GAAAAAGAGAATGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
55018406 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
55018428 AAGAATTGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:55020580 original size:30 final size:31
Alignment explanation
Indices: 55020546--55020642 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
55020536 AGCTCACTCC
*
55020546 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
55020576 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
55020606 TAGCTCAACTTT-AGCTCATGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
55020636 TAGCTCA
1 TAGCTCA
55020643 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 49 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:55022491 original size:40 final size:39
Alignment explanation
Indices: 55022415--55022550 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
55022405 CTGTCCGGGC
* * * *
55022415 TAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAATCCGGAT
* *
55022455 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGG-CATTGTGCGAGATACTAAATCCGGAT
* * * **
55022495 TAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGATACTAAATCCGGAT
*
55022534 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
55022551 TGAACGAGGA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.46
40 32 0.39
41 11 0.13
42 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGATACTAAATCCGGAT
Found at i:55022525 original size:39 final size:39
Alignment explanation
Indices: 55022408--55022550 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 39
55022398 TTGAATGCTG
* * * * *
55022408 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTG-TGAGTTACTAAA
** * * *
55022448 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CATTGTGTGAGTTACTAAA
*
55022488 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
* *
55022527 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55022551 TGAACGAGGA
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 38 0.45
40 39 0.46
41 8 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
Found at i:55029951 original size:20 final size:18
Alignment explanation
Indices: 55029921--55029963 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
55029911 TTTGTAAAGT
*
55029921 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
55029940 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
55029958 TTGTGA
1 TTGTGA
55029964 GTTTCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:55030652 original size:46 final size:47
Alignment explanation
Indices: 55030585--55030851 Score: 222
Period size: 49 Copynumber: 5.6 Consensus size: 47
55030575 TATGTGTGCT
*
55030585 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGATTATGAGAGCC
* *
55030631 AGTGTAAGACATGTCTGGGACATGCATCAG-CATTGA-GATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CGATTATGAGAGCC
* * * *
55030677 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-TTATG-AGAGCC
* * *
55030725 AGTGTAAGA-ACTGTCTAGGACATGGCATC-GACACCGATAGATGAGAGCC
1 AGTGTAAGACA-TGTCTGGGACAT-GCATCAGCCA-CGAT-TATGAGAGCC
* * * ** * * *
55030774 AGTGTAAGACCTATCTGGGACATGGCATCGGCCTTGATATATGAAATCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCACGAT-TATGAGAGCC
* *
55030823 AGTGTAAGACCTGTCTAGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
55030852 GACTTAGATA
Statistics
Matches: 182, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 69 0.38
47 3 0.02
48 29 0.16
49 77 0.42
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGATTATGAGAGCC
Found at i:55030781 original size:49 final size:49
Alignment explanation
Indices: 55030622--55030878 Score: 212
Period size: 49 Copynumber: 5.4 Consensus size: 49
55030612 CAGCCACATT
* *
55030622 ATGAGAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATC-AGCATTG--AG
1 ATGAGAGCCAGTGTAAGAAC-TGTCTGGGACATGGCATCGA-CCTCGATAG
* * *
55030668 ATGAGAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCTCGAGAT
1 ATGAGAGCCAGTGTAAGAAC-TGTCTGGGACATGGCATCGACCTCGATAG
* *
55030716 ATGCA-AGCTAGTGTAAGAACTGTCTAGGACATGGCATCGACAC-CGATAG
1 ATG-AGAGCCAGTGTAAGAACTGTCTGGGACATGGCATCGAC-CTCGATAG
* * * * *
55030765 ATGAGAGCCAGTGTAAGACCTATCTGGGACATGGCATCGGCCTTGATAT
1 ATGAGAGCCAGTGTAAGAACTGTCTGGGACATGGCATCGACCTCGATAG
* * * * * * *
55030814 ATGAAATCTAGTGTAAGACCTGTCTAGGACATGGCATCGACTTAGAT--
1 ATGAGAGCCAGTGTAAGAACTGTCTGGGACATGGCATCGACCTCGATAG
*
55030861 ATGTGAGCCAGTGTAAGA
1 ATGAGAGCCAGTGTAAGA
55030879 CCAAGTTTGG
Statistics
Matches: 174, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
46 40 0.23
47 14 0.08
48 28 0.16
49 91 0.52
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
ATGAGAGCCAGTGTAAGAACTGTCTGGGACATGGCATCGACCTCGATAG
Found at i:55030838 original size:98 final size:97
Alignment explanation
Indices: 55030666--55030880 Score: 308
Period size: 98 Copynumber: 2.2 Consensus size: 97
55030656 ATCAGCATTG
* * *
55030666 AGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTA
1 AGATGAGAGCCAGTGTAAGACCTATCTGGGACATGCATCGGCCTCGAGATATGAAAGCTAGTGTA
*
55030731 AGAACTGTCTAGGACATGGCATCGACACCGAT
66 AGAACTGTCTAGGACATGGCATCGACACAGAT
* * *
55030763 AGATGAGAGCCAGTGTAAGACCTATCTGGGACATGGCATCGGCCTTGATATATGAAATCTAGTGT
1 AGATGAGAGCCAGTGTAAGACCTATCTGGGACAT-GCATCGGCCTCGAGATATGAAAGCTAGTGT
* **
55030828 AAGACCTGTCTAGGACATGGCATCGACTTAGAT
65 AAGAACTGTCTAGGACATGGCATCGACACAGAT
*
55030861 --ATGTGAGCCAGTGTAAGACC
1 AGATGAGAGCCAGTGTAAGACC
55030881 AAGTTTGGAG
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
96 19 0.18
97 32 0.30
98 55 0.52
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (97 bp):
AGATGAGAGCCAGTGTAAGACCTATCTGGGACATGCATCGGCCTCGAGATATGAAAGCTAGTGTA
AGAACTGTCTAGGACATGGCATCGACACAGAT
Found at i:55034746 original size:15 final size:15
Alignment explanation
Indices: 55034726--55034795 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 15
55034716 GTATCGTATC
55034726 TTGGATTTCTCTATT
1 TTGGATTTCTCTATT
* *
55034741 TTGGATCTCTTTATT
1 TTGGATTTCTCTATT
* * *
55034756 ATGGGTTTCTCCATT
1 TTGGATTTCTCTATT
* *
55034771 TTGGATTTCTTTATC
1 TTGGATTTCTCTATT
*
55034786 TTGGTTTTCT
1 TTGGATTTCT
55034796 TACCATCTCT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTCTATT
Found at i:55034795 original size:30 final size:30
Alignment explanation
Indices: 55034722--55034795 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
55034712 TACGGTATCG
*
55034722 TATCTTGGATTTCTCTATTTTGGATCTCTT
1 TATCTTGGATTTCTCCATTTTGGATCTCTT
* *
55034752 TAT-TATGGGTTTCTCCATTTTGGATTTCTT
1 TATCT-TGGATTTCTCCATTTTGGATCTCTT
*
55034782 TATCTTGGTTTTCT
1 TATCTTGGATTTCT
55034796 TACCATCTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 36 0.95
31 1 0.03
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTCCATTTTGGATCTCTT
Found at i:55037537 original size:48 final size:47
Alignment explanation
Indices: 55037371--55037735 Score: 218
Period size: 46 Copynumber: 7.7 Consensus size: 47
55037361 TGATATGTGT
* * * *
55037371 GCTATTGTAAGACATGTCTGGGACAT-GCATCAACC--ACATTATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTAGA-TATGA-A
* * * * *
55037417 GCCAATGTAAGACATGTCTGGGACAT-GCATCGGA-ATT-GCA-ACGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATC-GACCTTAG-ATATGA-A
* *
55037463 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGACCTTGAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTT-AGATATG-AA
* * * *
55037511 GCTAGTGTAAGACTTGTCTGGGACATGGCGTCGA-CTT-GACATG-T
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTAGATATGAA
* * * * *
55037555 GTTAGTGTAAGACCTGTTTGGGACATGGCATCAACATCA-ATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTAGAT--ATGA-A
* * * * *
55037604 GCCAGTGTAAGACCTATCTGGGACATGGCAT-TAGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCT-TAGATATG-AA
** *
55037653 GCTAGTGTAAGACCTGTCTGGGGTATGGCATCGA-CTTAGATATGTGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTAGATATG-AA
* * *
55037700 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGAC
55037736 ATCATACCCT
Statistics
Matches: 252, Mismatches: 44, Indels: 43
0.74 0.13 0.13
Matches are distributed among these distances:
44 29 0.12
45 4 0.02
46 71 0.28
47 25 0.10
48 51 0.20
49 67 0.27
50 3 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTAGATATGAA
Found at i:55037617 original size:49 final size:48
Alignment explanation
Indices: 55037558--55037739 Score: 170
Period size: 49 Copynumber: 3.8 Consensus size: 48
55037548 GACATGTGTT
*
55037558 AGTGTAAGACCTGTTTGGGACATGGCATCAACATCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCAATA-ATGAGAGCC
* * * * * * *
55037607 AGTGTAAGACCTATCTGGGACATGGCATTAGCCTCGATATATGAAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCAATA-ATGAGAGCC
** * * *
55037656 AGTGTAAGACCTGTCTGGGGTATGGCATCGAC-TTAGAT-ATGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCA-ATAATGAGAGCC
* * *
55037703 AGTGTAAGACCATGTTTGGAACATGGCATCGACATCA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCAACATCA
55037740 TACCCTATGT
Statistics
Matches: 105, Mismatches: 25, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
47 17 0.16
48 18 0.17
49 70 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACATCAATAATGAGAGCC
Found at i:55037674 original size:142 final size:144
Alignment explanation
Indices: 55037459--55037739 Score: 372
Period size: 142 Copynumber: 2.0 Consensus size: 144
55037449 GAATTGCAAC
* * * *
55037459 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATGCAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATATCTGGGACATGCATAGACCTCGAGATATGAAAGCTAGTGTAAGAC
* * ** *
55037524 TTGTCTGGGACATGGCGTCGACTT-GACATGT-GTTAGTGTAAGACC-TGTTTGGGACATGGCAT
66 CTGTCTGGGACATGGCATCGACTTAGACATGTAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
55037586 CAACATCAATAGAT
131 CAACATCAATAGAT
* *
55037600 GAGAGCCAGTGTAAGACCTATCTGGGACATGGCATTAG-CCTCGATATATGAAAGCTAGTGTAAG
1 GAGAGCCAGTGTAAGACATATCTGGGACAT-GCA-TAGACCTCGAGATATGAAAGCTAGTGTAAG
** *
55037664 ACCTGTCTGGGGTATGGCATCGACTTAGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGG
64 ACCTGTCTGGGACATGGCATCGACTTAGACATGT-AGCCAGTGTAAGACCATGTTTGGAACATGG
*
55037729 CATCGACATCA
128 CATCAACATCA
55037740 TACCCTATGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
141 28 0.24
142 48 0.40
143 8 0.07
145 12 0.10
146 23 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
GAGAGCCAGTGTAAGACATATCTGGGACATGCATAGACCTCGAGATATGAAAGCTAGTGTAAGAC
CTGTCTGGGACATGGCATCGACTTAGACATGTAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
CAACATCAATAGAT
Found at i:55041285 original size:40 final size:40
Alignment explanation
Indices: 55041236--55041319 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
55041226 GCAATCAAGA
* * * *
55041236 GCACGAATGTACGA-TTAGGGGCACTGAGGTGCAAAGAGGG
1 GCACAAATGTAC-ATTTAGGGGCACTGAAGTACAAACAGGG
*
55041276 GCACAAATGTACATTTAGGGGTACTGAAGTACAAACAGGG
1 GCACAAATGTACATTTAGGGGCACTGAAGTACAAACAGGG
55041316 GCAC
1 GCAC
55041320 GTAAGTGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (40 bp):
GCACAAATGTACATTTAGGGGCACTGAAGTACAAACAGGG
Found at i:55047285 original size:53 final size:53
Alignment explanation
Indices: 55047104--55047310 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 53
55047094 ATTAGGGTTT
* * *
55047104 AAGGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTC-TGCAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAT--AAGGC
* * * * * *
55047158 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGTTAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * * *
55047213 AAAGATCCCATGCAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
*
55047266 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
55047311 TAAAAAGCAA
Statistics
Matches: 124, Mismatches: 26, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 45 0.36
54 38 0.31
55 40 0.32
57 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:55050723 original size:22 final size:22
Alignment explanation
Indices: 55050696--55050738 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
55050686 CTTACCAGTA
* *
55050696 TATGAGATCCCTTTATGGGACG
1 TATGAGAGCCCTTTATAGGACG
55050718 TATGAGAGCCCTTTATAGGAC
1 TATGAGAGCCCTTTATAGGAC
55050739 ATTTGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (22 bp):
TATGAGAGCCCTTTATAGGACG
Found at i:55054085 original size:20 final size:20
Alignment explanation
Indices: 55054048--55054084 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
55054038 GACGAAAACG
55054048 AGAACTTTAGAAAATTTTAC
1 AGAACTTTAGAAAATTTTAC
55054068 AGAAC-TTAGAAAATTTT
1 AGAACTTTAGAAAATTTT
55054085 TCATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (20 bp):
AGAACTTTAGAAAATTTTAC
Found at i:55059209 original size:93 final size:93
Alignment explanation
Indices: 55059100--55059270 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55059090 GCCCCTAAGT
* * * *
55059100 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55059165 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
*
55059193 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55059258 CGAGTTCGGATGC
66 CAAGTTCGGATGC
55059271 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55059267 original size:46 final size:46
Alignment explanation
Indices: 55059095--55059267 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
55059085 AACCCGCCCC
* * * *
55059095 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
* * *
55059141 TAAGTGAACTTGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTCGCATCCA
* *
55059189 TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
*
55059234 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
55059268 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 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 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCA
Found at i:55061684 original size:40 final size:40
Alignment explanation
Indices: 55061633--55062337 Score: 1187
Period size: 40 Copynumber: 17.6 Consensus size: 40
55061623 CATTTGAATG
55061633 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55061673 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
**
55061713 ATATCCGGGCTAAGACTTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55061753 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55061793 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55061833 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTAAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55061873 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55061913 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55061953 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55061993 ATATCCGGGCTAAGACCTGAAGACATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55062033 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55062073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55062113 ATATCCAGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55062153 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55062193 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55062233 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
55062273 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55062313 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55062338 ATTGAGCTTG
Statistics
Matches: 630, Mismatches: 33, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 627 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55069653 original size:40 final size:40
Alignment explanation
Indices: 55069602--55070265 Score: 1145
Period size: 40 Copynumber: 16.6 Consensus size: 40
55069592 CATTTGAATG
55069602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55069642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55069682 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55069721 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55069761 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55069801 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55069841 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55069881 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55069921 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55069961 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55070001 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-ATATGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAAT-TGAT
*
55070041 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55070081 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55070121 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55070161 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
55070201 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55070241 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55070266 ATTGAGCTTG
Statistics
Matches: 598, Mismatches: 21, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
39 43 0.07
40 552 0.92
41 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55078598 original size:29 final size:30
Alignment explanation
Indices: 55078546--55078605 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
55078536 TCCTTAACTC
55078546 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
55078576 AAACTTT-GCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
55078605 A
1 A
55078606 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:55082803 original size:22 final size:22
Alignment explanation
Indices: 55082775--55082816 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
55082765 AGGAATTTCA
55082775 ATACAAATTCAGAAACATCTTG
1 ATACAAATTCAGAAACATCTTG
*
55082797 ATACAAATTTAGAAACATCT
1 ATACAAATTCAGAAACATCT
55082817 CTTTTCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (22 bp):
ATACAAATTCAGAAACATCTTG
Found at i:55091177 original size:42 final size:41
Alignment explanation
Indices: 55091035--55091183 Score: 131
Period size: 42 Copynumber: 3.6 Consensus size: 41
55091025 CATACCAATT
* *
55091035 TCATATCCCAGATATGGTCTTACATGGGATCTCAT-ATAGATG
1 TCATATCCCAGATATGGTCTTACA-CGAATCTCATAATA-ATG
* * * * * *
55091077 CTAATA-GCCAGCTATGTTCTTACACGATTCTCATATTAATG
1 -TCATATCCCAGATATGGTCTTACACGAATCTCATAATAATG
* * * *
55091118 CCATGTCCCAGACATGGTCCTACACGAAATCTCATAATAATG
1 TCATATCCCAGATATGGTCTTACACG-AATCTCATAATAATG
*
55091160 TCATATCCCAGGTATGGTCTTACA
1 TCATATCCCAGATATGGTCTTACA
55091184 AATAAACTCA
Statistics
Matches: 80, Mismatches: 23, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
40 2 0.03
41 25 0.31
42 49 0.61
43 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (41 bp):
TCATATCCCAGATATGGTCTTACACGAATCTCATAATAATG
Found at i:55093204 original size:12 final size:14
Alignment explanation
Indices: 55093189--55093221 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
55093179 TGTGAGAAAA
55093189 TATGTGTA-G-TAC
1 TATGTGTAGGCTAC
55093201 TATGTGTAGGCTAC
1 TATGTGTAGGCTAC
55093215 TATGTGT
1 TATGTGT
55093222 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 1 0.05
14 10 0.53
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (14 bp):
TATGTGTAGGCTAC
Found at i:55093358 original size:51 final size:51
Alignment explanation
Indices: 55093299--55093469 Score: 141
Period size: 51 Copynumber: 3.4 Consensus size: 51
55093289 CGCATGTATA
* * *** *
55093299 GTACTAAGTGCAGGCTACTATATGTAGCTGATAGCTTCGATCACATGTGTG
1 GTACTAAGTGCAGGCCACTATAGGTAAAAGATAGCTTCGATCACAAGTGTG
* * * *
55093350 GTACTAAGTGCAAGCCACTATGGGTAAAAGATAGCTTGGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATAGGTAAAAGATAGCTTCGATCACAAGTGTG
* * * * * *
55093401 GTACTATGTGAAGGCCACT-T-TGTGAAGAAGGTAGCTTTGA-CTACAAGGGTG
1 GTACTAAGTGCAGGCCACTATAGGT-AA-AAGATAGCTTCGATC-ACAAGTGTG
*
55093452 GTACTATGTGCAGGCCAC
1 GTACTAAGTGCAGGCCAC
55093470 CAGCATCTGT
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.02
50 4 0.04
51 92 0.94
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATAGGTAAAAGATAGCTTCGATCACAAGTGTG
Found at i:55096417 original size:971 final size:971
Alignment explanation
Indices: 55094524--55099821 Score: 9786
Period size: 971 Copynumber: 5.5 Consensus size: 971
55094514 GCTAATATTG
* * *
55094524 TTCAATTTATAGGGTATGACT-ATGCATGACTTTTTTGTATGAGTGTGTAATGATTAAGTATGGA
1 TTCAAGTTATACGGTATGA-TGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGA
* * * *
55094588 AACTGCGACATGTGAATGGTTATGTGAGGGCCACGGCCTCGGGAACAAGCGTGTGCCCCTAATTT
65 AATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTT
* *
55094653 CAAGAAATTTTTCAATGTTCTCCAAAGTTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTT
130 CAAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTT
*
55094718 GGACCTCGTAGGTTCATATTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAA
195 GGACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAA
55094783 ATTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTG
260 ATTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTG
* *
55094848 GCCTAGAACAAGGGTAAGTGGTGTTACATACCAAGCCATTTTTCCACCCTCACTTGCACACATCT
325 GCCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCT
55094913 ATACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTA
390 ATACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTA
*
55094978 AACATGTCATTTAAAAGTCAACATCTATGATGCTTAATACATCATACTTTGTTCAAACTCAAACA
455 AACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACA
55095043 TACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCAT
520 TACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCAT
55095108 AGAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATG
585 AGAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATG
55095173 AATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTG
650 AATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTG
*
55095238 CAAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTACACATG
715 CAAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATG
55095303 TCTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATC
780 TCTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATC
*
55095368 TCCGATGATCTCCAACCTGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAA
845 TCCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAA
55095433 GCTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
910 GCTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
55095495 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
1 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
55095560 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
66 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
*
55095625 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCGGACCATTTCCAAAGTATGTTTTG
131 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
*
55095690 GACCTCATAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
196 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
55095755 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
261 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
55095820 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
326 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
55095885 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
391 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
55095950 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
456 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
*
55096015 ACCACAAGCACATCCATAATCAAGATAAGAATTTGACATCCTCATGCCAGTATTTATCATGCATA
521 ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
55096080 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
586 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
55096145 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
651 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
55096210 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
716 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
* *
55096275 ATTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTGGATAGTGTGATAGGATCT
781 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
*
55096340 CCGATGATCTCCAACCTGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
846 CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
55096405 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
911 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
55096466 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
1 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
55096531 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
66 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
*
55096596 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCGGACCATTTCCAAAGTATGTTTTG
131 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
55096661 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
196 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
* *
55096726 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGATAATGTCTCGTACCATGTTCTGC
261 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
55096791 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
326 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
* *
55096856 TACAACTTCAATAGCATAACACATAATACAAACAAGCAGCCAATACCAACATAACGAAGGCTTAA
391 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
*
55096921 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTTAAACTCAAACAT
456 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
*
55096986 ACCATAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
521 ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
* *
55097051 GAACATCAACAATTATACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
586 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
55097116 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
651 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
55097181 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
716 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
55097246 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
781 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
55097311 CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
846 CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
**
55097376 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACAACAACCATACATATA
911 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
*
55097437 TTCAAGTTATACAGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
1 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
55097502 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
66 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
*
55097567 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCGGACCATTTCCAAAGTATGTTTTG
131 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
55097632 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
196 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
*
55097697 TTTATGTCATGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
261 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
55097762 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTT--ACACATCTA
326 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
55097825 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
391 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
*
55097890 ACATGTCACTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
456 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
55097955 ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
521 ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
* *
55098020 GAACATCAACCATTCTACACAATATCATGCAAAATTTCAGATTCATAAATGGAATTAATATATGA
586 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
*
55098085 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGT
651 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
55098150 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
716 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
*
55098215 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTGGATAGTGTGATAGGATCT
781 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
*
55098280 CCGATGATCTCCAACCCAACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
846 CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
55098345 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
911 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
*
55098406 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATTAGTGTGTAATGATTAAGTATGGAA
1 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
55098471 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
66 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
*
55098536 AAGAAAATTTTTAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
131 AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
55098601 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
196 GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
55098666 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
261 TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
*
55098731 CCTAGGACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
326 CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
*
55098796 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAAATAAGGCTTAA
391 TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
*
55098861 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACGT
456 ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
*
55098926 ACCACAAGCACATCCATAATTAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
521 ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
*
55098991 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGAATTAATATATGA
586 GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
*
55099056 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGG
651 ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
*
55099121 AAGCCAACACATGTGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
716 AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
* * *
55099186 CATAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTTATAGCTAGATTGTGTGATAGGATCT
781 CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
* * * * *
55099251 CCGATGATCTACAACCCGAGCTAGATATTTAACTCTATAATACATGGGAAAGGAAGAGGGGTAAG
846 CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
*
55099316 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGTAACCCCAACCATACATATA
911 CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
55099377 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
1 TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
*
55099442 ATTGCGACATGTGAATGGTCATGTGAGGAACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
66 ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
* * * * **
55099507 AA-AAAATTTTGCAATGTTCTTCAAAGTTCTCGATTTGTCCCAGACTGTTTCCAAAGTATGTTTT
131 AAGAAAATTTT-CAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTT
* * * * * *
55099571 GGACCTCGTAGG-TCTATATTAGGTACTTGACTATAAAAGTTGAATTGTTTTCATTTGGATGCAA
195 GGACCTCGTAGGTTC-ATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAA
* * * *
55099635 AATTTATGTCACGGTTTTGTACGATTTCATGTGTTATGTTTCGGTAATGTCTCGTACCCTGTTCC
259 AATTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCT
* * *
55099700 GACGTAGAACAAGGATAAGGGGTGTTACATACCAAGCCA-TTTGCCACCCTCACTTGCACACATC
324 GGCCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATC
*
55099764 TATACAACTTCAATAGCATAACTCATAATGCAAACAAGCAGCC-ATA-C-ACATAACTAAG
389 TATACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAG
55099822 CANNNNNNNN
Statistics
Matches: 4221, Mismatches: 101, Indels: 14
0.97 0.02 0.00
Matches are distributed among these distances:
967 10 0.00
968 1 0.00
969 952 0.23
970 78 0.02
971 3180 0.75
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (971 bp):
TTCAAGTTATACGGTATGATGATGCATGACTTTGTTGTATGAGTGTGTAATGATTAAGTATGGAA
ATTGCGACATGTGAATGGTCATGTGAGGGACACGGCCTTGGGAACAAGCGTGTGCCCCTAATTTC
AAGAAAATTTTCAATGTTCTCCAAAATTGTCGGTTTGTCCCAGACCATTTCCAAAGTATGTTTTG
GACCTCGTAGGTTCATCTTAGGGACTTGACTATAAAAATTGAAGTATTTTAATTTGGATGCAAAA
TTTATGTCACGATTTTGTACGATTACATGTGTTATGTTTCGGTAATGTCTCGTACCATGTTCTGG
CCTAGAACAAGGGTAAGGGGTGTTACATACCAAGCCATTTTGCCACCCTCACTTGCACACATCTA
TACAACTTCAATAGCATAACTCATAATACAAACAAGCAGCCAATACCAACATAACTAAGGCTTAA
ACATGTCATTTAAAAGTCAACATCTATGATGCTTAAAACATCATACTTTGTTCAAACTCAAACAT
ACCACAAGCACATCCATAATCAAGATAATAATTTGACATCCTCATGCCAGTATTTATCATGCATA
GAACATCAACCATTCTACACAATATCATGCAAAATTTCACATTCATAAATGGCATTAATATATGA
ATATACTCATAACCAATATTAGCTAACTTGCATGGCTTTATACAAAAATGAACAAACACCATTGC
AAGCCAACACATATGGCCAAATTAATAATGACACATATAACCAAAATACCAATTCTTATACATGT
CTTAAGCTCAAAATACTTGAATTCATCAATACCCAAAGTGATAGCTAGATAGTGTGATAGGATCT
CCGATGATCTCCAACCCGACCTAGCTATTTAACTCTATAATACATGAGAAAGGAAGGGGGGTAAG
CTATATAATATAGCTTAGTAAGTTCATATGCAAATAATAAGCAACCCCAACCATACATATA
Found at i:55111791 original size:52 final size:49
Alignment explanation
Indices: 55111697--55111826 Score: 129
Period size: 52 Copynumber: 2.6 Consensus size: 49
55111687 TGTGAGAACA
* * * * *
55111697 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTT-TTCG
1 CATGTGTAGTACTAAGTGTAGGCTACTACGTGTCTAAAATGGTTAGTCG
*
55111745 ATCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACT-AGATGGTTAGGTCG
1 --CA--TGTGTAGTACTAAGTGTAGGCTACTACGTGT-CTAAAATGGTTA-GTCG
*
55111799 CATGTATAGTACTAAGTGTAGGCTACTA
1 CATGTGTAGTACTAAGTGTAGGCTACTA
55111827 TGCATACCCG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
50 27 0.40
52 37 0.54
53 1 0.01
54 3 0.04
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGTAGGCTACTACGTGTCTAAAATGGTTAGTCG
Found at i:55118439 original size:43 final size:43
Alignment explanation
Indices: 55118400--55118541 Score: 126
Period size: 43 Copynumber: 3.2 Consensus size: 43
55118390 AAGACACATG
55118400 CCCGTGTCTCAAGCTGTGTGGGCTTTCAAAGTAGGGACACACA
1 CCCGTGTCTCAAGCTGTGTGGGCTTTCAAAGTAGGGACACACA
* * ** * * * *
55118443 CCCGTGTC-CCAGCCCATGTCCGTGTGACTCACATGATTA-AGACACACG
1 CCCGTGTCTCAAG--C-TGT--GTG-GGCTTTCA-AAGTAGGGACACACA
*
55118491 CCCGTGTCTCAAGCTGTGTGGGCATTCAAAGTAGGGACACACA
1 CCCGTGTCTCAAGCTGTGTGGGCTTTCAAAGTAGGGACACACA
55118534 CCCGTGTC
1 CCCGTGTC
55118542 CCAGCCCATG
Statistics
Matches: 73, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
42 6 0.08
43 27 0.37
44 4 0.05
45 3 0.04
46 3 0.04
47 4 0.05
48 20 0.27
49 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (43 bp):
CCCGTGTCTCAAGCTGTGTGGGCTTTCAAAGTAGGGACACACA
Found at i:55118529 original size:91 final size:91
Alignment explanation
Indices: 55118374--55118557 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 91
55118364 GGCCAGGCCA
* *
55118374 TGTGACTCACATGATTAAGACACATGCCCGTGTCTCAAGCTGTGTGGGCTTTCAAAGTAGGGACA
1 TGTGACTCACATGATTAAGACACACGCCCGTGTCTCAAGCTGTGTGGGCATTCAAAGTAGGGACA
55118439 CACACCCGTGTCCCAGCCCATGTCCG
66 CACACCCGTGTCCCAGCCCATGTCCG
55118465 TGTGACTCACATGATTAAGACACACGCCCGTGTCTCAAGCTGTGTGGGCATTCAAAGTAGGGACA
1 TGTGACTCACATGATTAAGACACACGCCCGTGTCTCAAGCTGTGTGGGCATTCAAAGTAGGGACA
*
55118530 CACACCCGTGTCCCAGCCCATGTTCG
66 CACACCCGTGTCCCAGCCCATGTCCG
55118556 TG
1 TG
55118558 CTCGTGTAAC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (91 bp):
TGTGACTCACATGATTAAGACACACGCCCGTGTCTCAAGCTGTGTGGGCATTCAAAGTAGGGACA
CACACCCGTGTCCCAGCCCATGTCCG
Found at i:55137402 original size:22 final size:21
Alignment explanation
Indices: 55137377--55137431 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
55137367 TTGCAAACCA
*
55137377 AATCACCACCCTATC-ACCACC
1 AATCACCACCATA-CAACCACC
*
55137398 GAATCACGACCATACAACCACC
1 -AATCACCACCATACAACCACC
55137420 ACATCACCACCA
1 A-ATCACCACCA
55137432 CTCAAACATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.38, C:0.47, G:0.04, T:0.11
Consensus pattern (21 bp):
AATCACCACCATACAACCACC
Found at i:55138791 original size:21 final size:20
Alignment explanation
Indices: 55138759--55138799 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
55138749 ATACATGAGT
55138759 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
55138779 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
55138800 TAATTCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:55142398 original size:30 final size:30
Alignment explanation
Indices: 55142362--55142423 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
55142352 AATGCTCAAG
55142362 TAAGTATAATACCTATGAGGTAGATGGTAT
1 TAAGTATAATACCTATGAGGTAGATGGTAT
55142392 TAAGTATAATACCTATGAGGTAGATGGTAT
1 TAAGTATAATACCTATGAGGTAGATGGTAT
55142422 TA
1 TA
55142424 TGCATGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (30 bp):
TAAGTATAATACCTATGAGGTAGATGGTAT
Found at i:55145614 original size:48 final size:45
Alignment explanation
Indices: 55145560--55145712 Score: 130
Period size: 48 Copynumber: 3.2 Consensus size: 45
55145550 TAAGTGCCGC
*
55145560 TATCATGGCCTGAAGCCAACTTAGTATATCTCACACCCGAAGTGCTAA
1 TATCATGGCCTGAAGCCAAC-AAGTA-A-CTCACACCCGAAGTGCTAA
* * * ** *
55145608 TATCATGGCCTGTAGACAAACCAGTGAAGCTTGCACCCGAA-TGCCAA
1 TATCATGGCCTGAAG-CCAACAAGT-AA-CTCACACCCGAAGTGCTAA
*
55145655 TATCATGG-CTCGAAGCCAAATCAAAGTAACTCACACCCAAAGTGCTAA
1 TATCATGGCCT-GAAGCC-AA-C-AAGTAACTCACACCCGAAGTGCTAA
55145703 TATCATGGCC
1 TATCATGGCC
55145713 CATAGCCAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
46 3 0.04
47 27 0.33
48 44 0.53
49 9 0.11
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (45 bp):
TATCATGGCCTGAAGCCAACAAGTAACTCACACCCGAAGTGCTAA
Found at i:55145720 original size:48 final size:50
Alignment explanation
Indices: 55145589--55145726 Score: 144
Period size: 48 Copynumber: 2.9 Consensus size: 50
55145579 CTTAGTATAT
** * *
55145589 CTCACACCCGAAGTGCTAATATCATGGCCTGTAGACAAA-C-CAGTGAAG
1 CTCACACCCGAAGTGCTAATATCATGGCCCATAGCCAAATCAAAGTGAAG
** * *
55145637 CTTGCACCCGAA-TGCCAATATCATGGCTCGA-AGCCAAATCAAAGT-AA-
1 CTCACACCCGAAGTGCTAATATCATGGC-CCATAGCCAAATCAAAGTGAAG
*
55145684 CTCACACCCAAAGTGCTAATATCATGGCCCATAGCCAAATCAA
1 CTCACACCCGAAGTGCTAATATCATGGCCCATAGCCAAATCAA
55145727 TGTATCCCCT
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
47 31 0.42
48 39 0.53
49 3 0.04
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (50 bp):
CTCACACCCGAAGTGCTAATATCATGGCCCATAGCCAAATCAAAGTGAAG
Found at i:55159645 original size:47 final size:47
Alignment explanation
Indices: 55159587--55160041 Score: 667
Period size: 47 Copynumber: 9.5 Consensus size: 47
55159577 ATTCAGCCAA
55159587 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55159634 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
55159681 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
55159728 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55159777 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55159824 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55159871 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
55159918 GAAAGTGTATATATGTGATAAGGCCTAATGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTG---A----TAA-GGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
55159973 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
55160020 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
55160042 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 19, Indels: 20
0.91 0.05 0.05
Matches are distributed among these distances:
47 284 0.75
48 1 0.00
49 47 0.12
50 1 0.00
52 1 0.00
54 3 0.01
55 42 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:55159843 original size:143 final size:141
Alignment explanation
Indices: 55159587--55160041 Score: 694
Period size: 143 Copynumber: 3.2 Consensus size: 141
55159577 ATTCAGCCAA
55159587 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
55159652 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
66 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
55159717 GTGATGAATGT
131 GTGATGAATGT
55159728 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
* *
55159793 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCG
64 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
55159858 ATGTGATGAATGT
129 ATGTGATGAATGT
* * *
55159871 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * *
55159936 TAAGGCCTAATGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAG
66 TAAGGCCTAA-----T-A--GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
55160001 TGGCCAACGTGATGGATGT
123 TGGCCGATGTGATGAATGT
* *
55160020 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
55160042 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
141 72 0.25
143 139 0.48
146 1 0.00
147 1 0.00
149 74 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGT
Found at i:55159967 original size:102 final size:102
Alignment explanation
Indices: 55159845--55160041 Score: 286
Period size: 102 Copynumber: 1.9 Consensus size: 102
55159835 TGTGTGATAA
* * * * *
55159845 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTG
* *
55159910 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 ATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAAT
* * * *
55159947 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTG
*
55160012 ATGGATGTGAAAGTGCATAAATGTGATAAG
66 ATGAATGTGAAAGTGCATAAATGTGATAAG
55160042 TCCCGAAGGG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (102 bp):
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTG
ATGAATGTGAAAGTGCATAAATGTGATAAGGCCTAAT
Found at i:55160005 original size:55 final size:55
Alignment explanation
Indices: 55159892--55160005 Score: 183
Period size: 55 Copynumber: 2.1 Consensus size: 55
55159882 TGTGTGATAA
* *
55159892 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
* * *
55159947 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
55160002 GGCC
1 GGCC
55160006 AACGTGATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (55 bp):
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
Found at i:55160216 original size:37 final size:37
Alignment explanation
Indices: 55160160--55160238 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55160150 CCGAGCTCTA
* *
55160160 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
55160197 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55160234 AAGAC
1 AAGAC
55160239 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55167263 original size:40 final size:40
Alignment explanation
Indices: 55167196--55167439 Score: 334
Period size: 40 Copynumber: 6.1 Consensus size: 40
55167186 GGATGATAAT
*
55167196 TCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
55167234 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
55167274 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
55167315 TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
** *
55167355 TCCGGGCTAAGTCCCGAAAACATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* * *
55167395 TCCGGGCTAAGTCCCAAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
55167435 TCCGG
1 TCCGG
55167440 TTAAAGCCCG
Statistics
Matches: 188, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 14 0.07
40 171 0.91
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:55177074 original size:40 final size:39
Alignment explanation
Indices: 55177004--55177221 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 39
55176994 CAACCAAGTA
* *
55177004 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
* *
55177043 CCTTTGGGACTTAGCCCAGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
*
55177083 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
* *
55177123 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
* * *
55177163 CCTTCGGGACTTAGCCCAGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
55177203 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55177222 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:55185118 original size:34 final size:37
Alignment explanation
Indices: 55185056--55185144 Score: 121
Period size: 34 Copynumber: 2.5 Consensus size: 37
55185046 CCACCAAGTA
* * *
55185056 CCTTCGGATTTAGCCGGACATAGCTACTCGCTCAATG
1 CCTTCGGACTTAGCCCGACATAGCTACTCGCACAATG
*
55185093 CCTTTGGAC-TAGCCCGA-ATAG-TACTCGCACAATG
1 CCTTCGGACTTAGCCCGACATAGCTACTCGCACAATG
55185127 CCTTCGGACTTAGCCCGA
1 CCTTCGGACTTAGCCCGA
55185145 TATACCGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 20 0.43
35 12 0.26
36 7 0.15
37 7 0.15
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (37 bp):
CCTTCGGACTTAGCCCGACATAGCTACTCGCACAATG
Found at i:55185193 original size:28 final size:30
Alignment explanation
Indices: 55185118--55185199 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 30
55185108 GAATAGTACT
*
55185118 CGCACAATGCCTTCGGACTTAGCCCGATATA
1 CGCACAATGCCTTCGGA-TTAGCCGGATATA
55185149 C-CGACAAT--CTTCGGATTA-CCGGA-ATA
1 CGC-ACAATGCCTTCGGATTAGCCGGATATA
55185175 CGCACAATGCCTTCGGATTAGCCGG
1 CGCACAATGCCTTCGGATTAGCCGG
55185200 TATCCTATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
26 9 0.20
27 5 0.11
28 13 0.29
29 11 0.24
30 1 0.02
31 6 0.13
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (30 bp):
CGCACAATGCCTTCGGATTAGCCGGATATA
Found at i:55199652 original size:40 final size:40
Alignment explanation
Indices: 55199582--55199759 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
55199572 CAACCAAGTA
* *
55199582 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGACATAG-TAACTCGCACAAATG
* *
55199621 CCTTTGGGACTTAGCCCAGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
*
55199661 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
* *
55199701 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACA-TAGTAACTCGCACAAATG
55199741 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55199760 TTATCATCCG
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 14 0.11
40 113 0.89
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
Found at i:55205638 original size:47 final size:47
Alignment explanation
Indices: 55205510--55205639 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
55205500 TACAATCGGT
* * *
55205510 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* **
55205557 AAGTACCTATA-CATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCA
55205604 AA-TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
55205640 TTATTCACAC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 36 0.48
47 39 0.52
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:55212111 original size:16 final size:15
Alignment explanation
Indices: 55212087--55212116 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55212077 AACTGTTTTA
55212087 TTACAAATTTCACTC
1 TTACAAATTTCACTC
55212102 TTACATAATTTCACT
1 TTACA-AATTTCACT
55212117 TCCTACATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:55212408 original size:49 final size:50
Alignment explanation
Indices: 55212316--55212457 Score: 187
Period size: 50 Copynumber: 2.9 Consensus size: 50
55212306 AACCGAAGCT
* * * * *
55212316 ATCTAGTACGCATAGTAGCCTACACTTAGTACTTCACATGTGACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * *
55212365 ATCTGGTACACATAGTAGCCTGCACCTAGTAGTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* *
55212415 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
55212458 TCGAAGTTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 38 0.47
50 42 0.52
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
Found at i:55214676 original size:39 final size:39
Alignment explanation
Indices: 55214609--55214831 Score: 304
Period size: 39 Copynumber: 5.7 Consensus size: 39
55214599 ACAAACCCTG
* ** *
55214609 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAACCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
55214649 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
55214689 CGGGGCTCAGCCAGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55214728 TGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
55214767 CAGGACTTAGCTCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
55214806 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
55214832 TTATAAAGTC
Statistics
Matches: 163, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 144 0.88
40 19 0.12
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:55214985 original size:28 final size:28
Alignment explanation
Indices: 55214904--55214985 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
55214894 ATTTAATCAT
* *
55214904 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
55214932 TCAATGTCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
55214960 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
55214986 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:55217536 original size:55 final size:53
Alignment explanation
Indices: 55217449--55217703 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 53
55217439 ATTAGGGTTT
* *
55217449 AAGGATACCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
55217504 AAGGA-ATTCATTTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATA-CCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * * *
55217559 AAAGG-TCCCATGTAAGATCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-TAAGGC
55217612 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* *
55217661 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
55217704 GTACCTGCGT
Statistics
Matches: 167, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 41 0.25
52 8 0.05
53 39 0.23
54 12 0.07
55 63 0.38
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:55217655 original size:108 final size:110
Alignment explanation
Indices: 55217456--55217705 Score: 290
Period size: 108 Copynumber: 2.4 Consensus size: 110
55217446 TTTAAGGATA
* *
55217456 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAATTCATTTAAGA
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAATCCATGTAAGA
*
55217521 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
55217566 CCATGTAAGATCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGG-ATACCATGTAA
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAT-CCATGTAA
* *
55217627 GACCATGTCAAGACATGGCAATGGTAAGTT--T-T-A---AAAGGATA
64 GACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGG-TC
* *
55217668 CCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGT
55217706 ACCTGCGTAT
Statistics
Matches: 120, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
101 5 0.04
102 29 0.24
103 2 0.02
104 1 0.01
105 1 0.01
106 1 0.01
107 5 0.04
108 45 0.38
109 7 0.06
110 24 0.20
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGACAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAATCCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55219084 original size:45 final size:45
Alignment explanation
Indices: 55219020--55219238 Score: 264
Period size: 45 Copynumber: 4.8 Consensus size: 45
55219010 TGTAACCCGC
*
55219020 CCATAAGC-GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAA-CTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
55219065 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
* *
55219110 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* ** *
55219156 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAACT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
* * *
55219203 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGG
55219239 ATGCTCAACC
Statistics
Matches: 152, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 78 0.51
46 32 0.21
47 32 0.21
49 4 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:55219224 original size:93 final size:92
Alignment explanation
Indices: 55219073--55219242 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
55219063 ATCCATAACT
* *
55219073 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
55219138 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
*
55219165 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
55219230 CGAGTTCGGATGC
65 CGAGCTCGGATGC
55219243 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55221831 original size:46 final size:46
Alignment explanation
Indices: 55221775--55221950 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
55221765 TATTTGGGCA
*
55221775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
55221821 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
55221866 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
55221914 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55221951 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 60 0.57
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Done.