Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 251 of 325
Found at i:78765574 original size:40 final size:40
Alignment explanation
Indices: 78765447--78765576 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
78765437 ATGCTGGAAA
* *
78765447 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGC-TAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAT-GTGG
* * * ***
78765487 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ATGTGG
*
78765527 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
78765567 TTATATCCGG
1 TTATATCCGG
78765577 TTATATTCCG
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCATGTGG
Found at i:78765575 original size:80 final size:80
Alignment explanation
Indices: 78765409--78765576 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
78765399 AAATTGAATG
* *
78765409 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
78765474 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
78765489 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
78765552 CATTTGTGC-ATGTGGTT
64 CAATTGTGCTA-GTGGCT
78765569 ATATCCGG
1 ATATCCGG
78765577 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:78767046 original size:31 final size:31
Alignment explanation
Indices: 78767008--78767071 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
78766998 CCTTTTCATA
78767008 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
78767039 TTTCATATTTCTTATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
78767070 TT
1 TT
78767072 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:78767315 original size:24 final size:24
Alignment explanation
Indices: 78767264--78767406 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
78767254 GCTTTGTCAT
*
78767264 ATAACTGGAGGC-TTAGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
78767289 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
78767313 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
78767337 ATCACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
78767360 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
78767384 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
78767407 TCACTTCCTC
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 21 0.20
24 71 0.68
25 12 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:78767381 original size:47 final size:47
Alignment explanation
Indices: 78767264--78767405 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
78767254 GCTTTGTCAT
* * *
78767264 ATAACTGGAGGCTTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCTAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTCA
*
78767313 ATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATAAGCCCTTT-A
1 ATAACTGGGGC-TAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
78767360 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGC-TAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
78767406 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 45 0.52
48 28 0.33
49 13 0.15
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
Found at i:78767482 original size:20 final size:20
Alignment explanation
Indices: 78767457--78767516 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
78767447 TATGATTACC
*
78767457 TCATGTTCATATCATACATA
1 TCATGTGCATATCATACATA
*
78767477 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
78767497 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
78767517 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:78767591 original size:25 final size:25
Alignment explanation
Indices: 78767559--78767606 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78767549 ATACATAAAC
* * *
78767559 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
78767584 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
78767607 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:78769663 original size:27 final size:27
Alignment explanation
Indices: 78769646--78769844 Score: 272
Period size: 27 Copynumber: 7.4 Consensus size: 27
78769636 AAAGTGATTA
* * *
78769646 TTTTTCCCTTATGGGGTAAAATGACAG
1 TTTTGCCCTTATGAGGTAAAATGACTG
*
78769673 TTTTGCCCTTATGAGGTAAAATGATTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
*
78769700 TTTTGCCCTTATGAGGTAAAAGGACTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
* *
78769727 TTTTACCCTTATGTGGTAAAATGACTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
* * *
78769754 TTTTGCCCTTATGTGGTAAAATAACTA
1 TTTTGCCCTTATGAGGTAAAATGACTG
* *
78769781 TTTTTCCCTTATGAGGTAAAATTACTG
1 TTTTGCCCTTATGAGGTAAAATGACTG
* *
78769808 TTTTGCCCTTATGTGGTAAAATGAATG
1 TTTTGCCCTTATGAGGTAAAATGACTG
78769835 TTTTGCCCTT
1 TTTTGCCCTT
78769845 TTATAGTAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTGCCCTTATGAGGTAAAATGACTG
Found at i:78769862 original size:81 final size:81
Alignment explanation
Indices: 78769646--78769874 Score: 266
Period size: 81 Copynumber: 2.8 Consensus size: 81
78769636 AAAGTGATTA
* * * * *
78769646 TTTTTCCCTTATGGGGTAAAATGACA-GTTTTGCCC--TTATGAGGTAAAATGATTGTTTTGCCC
1 TTTTACCCTTATGTGGTAAAATGA-ATGTTTTGCCCTTTTAT-A-GTAAAATGACTATTTTACCC
78769708 TTATGAGGTAAAAGGACTG
63 TTATGAGGTAAAAGGACTG
* * * * * *
78769727 TTTTACCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTATTTTTCCCTTA
1 TTTTACCCTTATGTGGTAAAATGAATGTTTTGCCCTTTTATAGTAAAATGACTATTTTACCCTTA
**
78769792 TGAGGTAAAATTACTG
66 TGAGGTAAAAGGACTG
* * *
78769808 TTTTGCCCTTATGTGGTAAAATGAATGTTTTGCCCTTTTATAGTAAGATGACTATTTTACCCCTA
1 TTTTACCCTTATGTGGTAAAATGAATGTTTTGCCCTTTTATAGTAAAATGACTATTTTACCCTTA
78769873 TG
66 TG
78769875 TGATGTATGT
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
81 122 0.98
83 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (81 bp):
TTTTACCCTTATGTGGTAAAATGAATGTTTTGCCCTTTTATAGTAAAATGACTATTTTACCCTTA
TGAGGTAAAAGGACTG
Found at i:78769865 original size:27 final size:27
Alignment explanation
Indices: 78769661--78769865 Score: 173
Period size: 27 Copynumber: 7.6 Consensus size: 27
78769651 CCCTTATGGG
* *
78769661 GTAAAATGACAGTTTTGCCCTTATGA-G
1 GTAAAATGACTGTTTTGCCCTTAT-ATA
* *
78769688 GTAAAATGATTGTTTTGCCCTTATGA-G
1 GTAAAATGACTGTTTTGCCCTTAT-ATA
* * * *
78769715 GTAAAAGGACTGTTTTACCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATATA
* *
78769742 GTAAAATGACTGTTTTGCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATATA
* * * *
78769769 GTAAAATAACTATTTTTCCCTTATGA-G
1 GTAAAATGACTGTTTTGCCCTTAT-ATA
* * *
78769796 GTAAAATTACTGTTTTGCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATATA
* *
78769823 GTAAAATGAATGTTTTGCCCTTTTATA
1 GTAAAATGACTGTTTTGCCCTTATATA
* *
78769850 GTAAGATGACTATTTT
1 GTAAAATGACTGTTTT
78769866 ACCCCTATGT
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTTATATA
Found at i:78770210 original size:18 final size:18
Alignment explanation
Indices: 78770187--78770256 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
78770177 GAACTTGCAT
78770187 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
* *
78770205 ACTGTTTACTATTATTGC
1 ACTGTTTACTGTTACTGC
*
78770223 ACTG-TTATTGTTACTGC
1 ACTGTTTACTGTTACTGC
**
78770240 ACTACTTACTGTTACTG
1 ACTGTTTACTGTTACTG
78770257 TAATGGGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.30
18 31 0.70
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:78771609 original size:20 final size:20
Alignment explanation
Indices: 78771584--78771637 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
78771574 AACAGGGGTC
78771584 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
78771604 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
78771624 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
78771638 GTAGGCTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.11, C:0.31, G:0.39, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:78776337 original size:25 final size:25
Alignment explanation
Indices: 78776291--78776339 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
78776281 GAGTTTACTG
* *
78776291 TTATTCAGCTTGGAGGAGCTTACCA
1 TTATTCAGCTTGAAAGAGCTTACCA
*
78776316 TTATTCAGCTTGAAAGATCTTACC
1 TTATTCAGCTTGAAAGAGCTTACC
78776340 GTTTCCAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (25 bp):
TTATTCAGCTTGAAAGAGCTTACCA
Found at i:78778641 original size:22 final size:21
Alignment explanation
Indices: 78778616--78778671 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
78778606 TGCAAGTTAA
78778616 TTATATTTTATTTTTTTATTAT
1 TTATATTTTATTTTTTTATT-T
* *
78778638 TTATTAATTTA-ATTTTTATTT
1 TTA-TATTTTATTTTTTTATTT
78778659 TT-TATTATTATTT
1 TTATATT-TTATTT
78778672 ATTAATTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.11
20 3 0.11
21 4 0.15
22 11 0.41
23 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATATTTTATTTTTTTATTT
Found at i:78778644 original size:29 final size:32
Alignment explanation
Indices: 78778621--78778686 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
78778611 GTTAATTATA
78778621 TTTTA-TTTTT-TTATTATTTATTAATTTAAT
1 TTTTATTTTTTATTATTATTTATTAATTTAAT
*
78778651 TTTTATTTTTTATTATTATTTATTAATTTACT
1 TTTTATTTTTTATTATTATTTATTAATTTAAT
78778683 TTTT
1 TTTT
78778687 CTTTCTCTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 5 0.15
31 5 0.15
32 23 0.70
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTTTTATTATTATTTATTAATTTAAT
Found at i:78781498 original size:47 final size:46
Alignment explanation
Indices: 78781447--78781602 Score: 176
Period size: 47 Copynumber: 3.3 Consensus size: 46
78781437 GAACTCGAAT
* *
78781447 TCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGAC
1 TCAACTCAACGAGTTCGGATGCC-AGTTACATATCACGAACTCAGAC
* * *
78781494 TCAACTCAACGAGTTCGG--G-CA-TTCGCATCCATAAGTGAACTCAGAC
1 TCAACTCAACGAGTTCGGATGCCAGTT-ACAT--ATCA-CGAACTCAGAC
*
78781540 TCAACTCAACGAGTTCGGATGCCCAGTTACATCTCACGAACTCAGAC
1 TCAACTCAACGAGTTCGGATG-CCAGTTACATATCACGAACTCAGAC
78781587 TCAACTCAACGAGTTC
1 TCAACTCAACGAGTTC
78781603 AGACGTTCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 27 0.30
47 44 0.48
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (46 bp):
TCAACTCAACGAGTTCGGATGCCAGTTACATATCACGAACTCAGAC
Found at i:78781512 original size:93 final size:93
Alignment explanation
Indices: 78781391--78781657 Score: 412
Period size: 93 Copynumber: 2.9 Consensus size: 93
78781381 CACCTATAAG
* *
78781391 CGAACTCGGACTC-ACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
* *
78781455 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCCAGTTACATCTCA
*
78781483 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTC-AGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGA-ACTCAACTC
78781547 AACGAGTTCGGATGCCCAGTTACATCTCA
65 AACGAGTTCGGATGCCCAGTTACATCTCA
* * * * *
78781576 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
78781641 ATGAGTTCGGATGCCCA
66 ACGAGTTCGGATGCCCA
78781658 AATATCTGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
92 14 0.09
93 146 0.91
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCCAGTTACATCTCA
Found at i:78781548 original size:46 final size:46
Alignment explanation
Indices: 78781386--78781650 Score: 215
Period size: 46 Copynumber: 5.7 Consensus size: 46
78781376 TAACCCACCT
* * *
78781386 ATAAGCGAACTCGGACTC-ACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
* * *
78781431 ATAAGTGAACTCGAATTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACATCC
* * *
78781479 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
* *
78781524 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAGTT-ACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G--CA-TTCACATCC
* * * * *
78781573 -TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCACATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
* *
78781617 ATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
78781651 ATGCCCAAAT
Statistics
Matches: 174, Mismatches: 27, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
42 4 0.02
43 9 0.05
44 2 0.01
45 20 0.11
46 66 0.38
47 53 0.30
48 6 0.03
49 2 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
Found at i:78784407 original size:30 final size:29
Alignment explanation
Indices: 78784365--78784421 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
78784355 AAAGATAATA
*
78784365 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
78784394 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
78784422 ACGATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:78787469 original size:47 final size:47
Alignment explanation
Indices: 78787406--78787527 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
78787396 TCCATAAGTG
* *
78787406 AACTCGGACTCAACTCAATGAGTTCGGATGCCTAGGTACATTTCACA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGGTACATCTCACA
* * *
78787453 AACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGGTACATCTCACA
78787500 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
78787528 CGTTCACATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGGTACATCTCACA
Found at i:78787573 original size:46 final size:46
Alignment explanation
Indices: 78787353--78787573 Score: 166
Period size: 46 Copynumber: 4.8 Consensus size: 46
78787343 TAACCCACCT
* * *
78787353 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
* * * ** *
78787399 ATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG-CCTAGGTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTC-ACATCC
* ** *
78787445 ATTTCA-CAAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C
1 A--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACATCC
* *
78787495 -TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
* * *
78787539 ATAAGTGAAATCAGACTCAACTCAATGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78787574 TGCCCAAATA
Statistics
Matches: 137, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.02
43 4 0.03
44 2 0.01
45 3 0.02
46 62 0.45
47 57 0.42
48 2 0.01
50 1 0.01
51 2 0.01
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
Found at i:78792742 original size:42 final size:42
Alignment explanation
Indices: 78792673--78792774 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
78792663 TCGACTTGAG
78792673 ATTTACGTGTAAGACCATATCTAGGACA-TTGGCATCGTATATT
1 ATTTACGTGTAAGACCATATCTAGGACAGTT-GCATC-TATATT
* * *
78792716 ATTT-CGTGTAAGACCCTATTTGGGACAGTTGCATCTATATT
1 ATTTACGTGTAAGACCATATCTAGGACAGTTGCATCTATATT
*
78792757 -TGATTACATGTAAGACCA
1 AT--TTACGTGTAAGACCA
78792775 CGTCTGGGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
40 1 0.02
41 6 0.12
42 27 0.54
43 16 0.32
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (42 bp):
ATTTACGTGTAAGACCATATCTAGGACAGTTGCATCTATATT
Found at i:78796601 original size:43 final size:43
Alignment explanation
Indices: 78796553--78796657 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
78796543 TAACGAGATA
*
78796553 TGATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATTATG
1 TGATTATGTGTAAGACCATGTCTGGGAAATTGCCATCATTATG
* * * * *
78796596 TGATTATGTGTAAGACCAGGTCTGGGACATTTCCATCGTTATT
1 TGATTATGTGTAAGACCATGTCTGGGAAATTGCCATCATTATG
*
78796639 TGATT-TCGTGCAAGACCAT
1 TGATTAT-GTGTAAGACCAT
78796658 AGTTGGGCCA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
TGATTATGTGTAAGACCATGTCTGGGAAATTGCCATCATTATG
Found at i:78802835 original size:20 final size:20
Alignment explanation
Indices: 78802810--78802852 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
78802800 GCTACAATCG
*
78802810 AACCGTCATCAGACAAAACT
1 AACCGTCATCAAACAAAACT
78802830 AACCGTCATCAAACAAAACT
1 AACCGTCATCAAACAAAACT
78802850 AAC
1 AAC
78802853 TGTGTATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.30, G:0.07, T:0.14
Consensus pattern (20 bp):
AACCGTCATCAAACAAAACT
Found at i:78810270 original size:40 final size:40
Alignment explanation
Indices: 78810224--78810331 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
78810214 ACCCGATATC
* * *
78810224 TCACACACTAAGTGCCGTACATAGCCGAGGCTATCTCAAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
* * * *
78810264 TTACACAGTAAGTGCCATATATAGCCGAAGCTATATCGAA
1 TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
* * **
78810304 TCGCACACTAAGTGTCATGTATAGCCGA
1 TCACACACTAAGTGCCATACATAGCCGA
78810332 TCTAGCACAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (40 bp):
TCACACACTAAGTGCCATACATAGCCGAAGCTATATCAAA
Found at i:78815072 original size:27 final size:27
Alignment explanation
Indices: 78815013--78815065 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
78815003 CATACATCTT
78815013 ATAGGGGCATAACAGTCATTTTATCAC
1 ATAGGGGCATAACAGTCATTTTATCAC
* *
78815040 ATAGGGGCATCATAGTCATTTTATCA
1 ATAGGGGCATAACAGTCATTTTATCA
78815066 GTTAGGGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTTATCAC
Found at i:78822414 original size:68 final size:68
Alignment explanation
Indices: 78822267--78822422 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
78822257 AGCCGATTTG
* * * * *
78822267 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
78822332 TATC
65 TATA
* *
78822336 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
78822398 ATATAGTA
62 ATATA-TA
78822406 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
78822423 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:78823998 original size:2 final size:2
Alignment explanation
Indices: 78823986--78824016 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
78823976 AGTATAGTTG
78823986 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
78824017 GCATATTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78824570 original size:28 final size:28
Alignment explanation
Indices: 78824538--78824607 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
78824528 AATGAGATTG
*
78824538 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
78824566 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
78824594 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78824608 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:78826711 original size:25 final size:25
Alignment explanation
Indices: 78826678--78826727 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
78826668 TGAATACGGC
* *
78826678 TAAGGGGTGTTATAATATGAATTAA
1 TAAGCGGTGCTATAATATGAATTAA
78826703 TAAGCGGTGCTATAATATGAATTAA
1 TAAGCGGTGCTATAATATGAATTAA
78826728 AATGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (25 bp):
TAAGCGGTGCTATAATATGAATTAA
Found at i:78828909 original size:28 final size:28
Alignment explanation
Indices: 78828869--78828926 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
78828859 CTATGAATTT
78828869 ACTTAGATTATGTTTTCGATTGACTCGA
1 ACTTAGATTATGTTTTCGATTGACTCGA
78828897 ACTTAGATTATGTTTTCGATTGACTCGA
1 ACTTAGATTATGTTTTCGATTGACTCGA
78828925 AC
1 AC
78828927 GGACTAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (28 bp):
ACTTAGATTATGTTTTCGATTGACTCGA
Found at i:78829152 original size:15 final size:15
Alignment explanation
Indices: 78829132--78829183 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
78829122 ACGTTTAATT
78829132 TAATAAATAAAAATC
1 TAATAAATAAAAATC
** *
78829147 TAATAAA-ATGTAATT
1 TAATAAATA-AAAATC
78829162 TAATAAATAAAAATC
1 TAATAAATAAAAATC
78829177 TAATAAA
1 TAATAAA
78829184 ATGTGTACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
TAATAAATAAAAATC
Found at i:78829163 original size:30 final size:30
Alignment explanation
Indices: 78829127--78829187 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
78829117 TTTAAACGTT
78829127 TAATTTAATAAATAAAAATCTAATAAAATG
1 TAATTTAATAAATAAAAATCTAATAAAATG
78829157 TAATTTAATAAATAAAAATCTAATAAAATG
1 TAATTTAATAAATAAAAATCTAATAAAATG
78829187 T
1 T
78829188 GTACTAACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
TAATTTAATAAATAAAAATCTAATAAAATG
Found at i:78834960 original size:27 final size:27
Alignment explanation
Indices: 78834930--78834982 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
78834920 CGAGTGGAGA
78834930 GTGCCTAGTTCAACTACTAGAATTTGC
1 GTGCCTAGTTCAACTACTAGAATTTGC
78834957 GTGCCTAGTTCAACTACTAGAATTTG
1 GTGCCTAGTTCAACTACTAGAATTTG
78834983 TGTACTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGCCTAGTTCAACTACTAGAATTTGC
Found at i:78834992 original size:24 final size:26
Alignment explanation
Indices: 78834938--78834995 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78834928 GAGTGCCTAG
*
78834938 TTCAACTACTAGAATTTGCGTGCCTA
1 TTCAACTACTAGAATTTGCGTGACTA
*
78834964 GTTCAACTACTAGAATTTGTGT-ACT-
1 -TTCAACTACTAGAATTTGCGTGACTA
78834989 TTCAACT
1 TTCAACT
78834996 GGATAATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.24
26 2 0.07
27 20 0.69
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (26 bp):
TTCAACTACTAGAATTTGCGTGACTA
Found at i:78837925 original size:31 final size:29
Alignment explanation
Indices: 78837890--78837962 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
78837880 CGGCTCAGTA
*
78837890 ACTAAAATGTTACAATGCAATAACATAAGTG
1 ACTAAAATGTAACAATGC-A-AACATAAGTG
* * * *
78837921 ACTAAAACGTAACACTTCAAATATAAGTG
1 ACTAAAATGTAACAATGCAAACATAAGTG
78837950 ACTAAAATGTAAC
1 ACTAAAATGTAAC
78837963 TTAAGGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 21 0.58
30 1 0.03
31 14 0.39
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (29 bp):
ACTAAAATGTAACAATGCAAACATAAGTG
Found at i:78852514 original size:20 final size:22
Alignment explanation
Indices: 78852497--78852544 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
78852487 ATATTATTTT
78852497 TAATTTTTTTAAAATATTTATA
1 TAATTTTTTTAAAATATTTATA
*
78852519 TTATTTTTTT--AATATTTA-A
1 TAATTTTTTTAAAATATTTATA
78852538 TAATTTT
1 TAATTTT
78852545 ATATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
22 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TAATTTTTTTAAAATATTTATA
Found at i:78852715 original size:29 final size:30
Alignment explanation
Indices: 78852668--78852724 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
78852658 TTGATTTAAT
* *
78852668 GTGCAATTATATACATGAACTT-TAATTTG
1 GTGCAATTATACACATGAAATTCTAATTTG
**
78852697 GTGCAATTATACATGTGAAATTCTAATT
1 GTGCAATTATACACATGAAATTCTAATT
78852725 GTAGTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
GTGCAATTATACACATGAAATTCTAATTTG
Found at i:78853483 original size:13 final size:13
Alignment explanation
Indices: 78853451--78853484 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
78853441 TTTGTTTTAC
78853451 TAAAAATAATTTT
1 TAAAAATAATTTT
*
78853464 TGGAAAATAATTTT
1 T-AAAAATAATTTT
78853478 TAAAAAT
1 TAAAAAT
78853485 TGATTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (13 bp):
TAAAAATAATTTT
Found at i:78853968 original size:15 final size:15
Alignment explanation
Indices: 78853948--78854001 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
78853938 ATACTACAAA
78853948 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
78853963 ATATTTATAATTGCAAT
1 ATATTTATTATT--AAT
*
78853980 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
78853997 ATATT
1 ATATT
78854002 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 16 0.50
17 5 0.16
19 11 0.34
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:78853999 original size:19 final size:17
Alignment explanation
Indices: 78853946--78853995 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
78853936 TTATACTACA
78853946 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
78853963 --ATATTTATAATTGCAAT
1 AAATATTTATTATT--AAT
78853980 AAATATTTATTATTAA
1 AAATATTTATTATTAA
78853996 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 11 0.41
17 5 0.19
19 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:78854103 original size:20 final size:20
Alignment explanation
Indices: 78854078--78854137 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
78854068 TTAAAGTAAA
78854078 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
78854098 ATTAAAA-A-TAAATTATATTT
1 ATTAAAATATTAAA-TA-ATTT
78854118 ATT---ATATT-AATAATTT
1 ATTAAAATATTAAATAATTT
78854134 ATTA
1 ATTA
78854138 TATGAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 7 0.20
19 4 0.11
20 14 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Found at i:78854133 original size:16 final size:16
Alignment explanation
Indices: 78854114--78854146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
78854104 AATAAATTAT
*
78854114 ATTTATTATATTAATA
1 ATTTATTATATGAATA
78854130 ATTTATTATATGAATA
1 ATTTATTATATGAATA
78854146 A
1 A
78854147 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:78869236 original size:2 final size:2
Alignment explanation
Indices: 78869229--78869256 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
78869219 ATTTTGTTTC
78869229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78869257 CTTTTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78869854 original size:131 final size:132
Alignment explanation
Indices: 78869588--78869870 Score: 399
Period size: 131 Copynumber: 2.2 Consensus size: 132
78869578 TTATTCATTC
** * *
78869588 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGTGGAATCGTGCCCTAACATG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACATG
* * *
78869653 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCGAAATTTCACTCACGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAACTTCACTCACATCTT
78869718 -T
131 CT
* *
78869719 TAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACATG
* * * * *
78869784 TTGGGTTGCAATTTCGCGTTTGCTCAAAGTAATCGAGTATC-CTTTCAAAACTTCATTCATATCT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCAC-TTCAAAACTTCACTCACATCT
78869848 TCT
130 TCT
* *
78869851 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
78869871 GCAACATTCG
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.01
131 114 0.86
132 18 0.14
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACATG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAACTTCACTCACATCTT
CT
Found at i:78869901 original size:131 final size:131
Alignment explanation
Indices: 78869588--78869941 Score: 363
Period size: 131 Copynumber: 2.7 Consensus size: 131
78869578 TTATTCATTC
* * * ** * * *
78869588 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGTGGAATCGTGCCCTAACATG
1 AAAAATTATTCAAAACGAAGACAACATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * *
78869653 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCGAAATTTCACTCACGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAACTTCACTCACATCTT
78869718 T
131 T
* * * * * *
78869719 TAAAATTCTTCAAAACGAAGACGAGATTCGATACTT-AGCAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATTATTCAAAACGAAGACAACATTCGACATTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* * * * *
78869783 GTTGGGTTGCAATTTCGCGTTTGCTCAAAGTAATCGAGTATC-CTTTCAAAACTTCATTCATATC
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCAC-TTCAAAACTTCACTCACATC
78869847 TTCT
129 TT-T
* * * * * *
78869851 AAAAATTATTTAAAACGAAGGCAACATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATTATTCAAAACGAAGACAACATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* ** * *
78869915 CTGGGTTGTGATTTCTCGTTTGTTCAA
66 TTGGGTTGCAATTTCGCGTTTGCTCAA
78869942 TGATTGAATA
Statistics
Matches: 188, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
130 1 0.01
131 151 0.80
132 35 0.19
133 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAAATTATTCAAAACGAAGACAACATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAACTTCACTCACATCTT
T
Found at i:78874113 original size:40 final size:38
Alignment explanation
Indices: 78874050--78874138 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
78874040 GAAAATGAAC
*
78874050 AAATAACTTATAAAAATACTAATA-ATAAAGAAATAAAAT
1 AAATAACTAATAAAAATACTAATAGAT-AAG-AATAAAAT
* *
78874089 AATATAACTAATAATAACTA-TAATAGATAAGAATTAAAT
1 AA-ATAACTAATAA-AAATACTAATAGATAAGAATAAAAT
*
78874128 AAATAATTAAT
1 AAATAACTAAT
78874139 TAAATAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
38 8 0.19
39 11 0.26
40 18 0.42
41 6 0.14
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.29
Consensus pattern (38 bp):
AAATAACTAATAAAAATACTAATAGATAAGAATAAAAT
Found at i:78874497 original size:24 final size:24
Alignment explanation
Indices: 78874460--78874507 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
78874450 GGAGAAGGAA
* *
78874460 AGGGATGAAGGGGCCAAGGGAGGG
1 AGGGACGAAAGGGCCAAGGGAGGG
78874484 AGGGACGAAAGGGCCAAGGGAGGG
1 AGGGACGAAAGGGCCAAGGGAGGG
78874508 CGACGGTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.56, T:0.02
Consensus pattern (24 bp):
AGGGACGAAAGGGCCAAGGGAGGG
Found at i:78887046 original size:38 final size:40
Alignment explanation
Indices: 78886983--78887094 Score: 129
Period size: 38 Copynumber: 2.8 Consensus size: 40
78886973 CATGAGCAAT
* * *
78886983 TGAATGACGTCCGGGCTAAGTCCCGAAGACATTTATGCTAG
1 TGAAT-ACATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* * * *
78887024 T-AAT-TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG
1 TGAATACATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
*
78887062 TGACTACATCCGGGCTAAGACCCGAAGGCATTT
1 TGAATACATCCGGGCTAAGACCCGAAGGCATTT
78887095 GTGCAAATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
38 28 0.48
39 2 0.03
40 27 0.47
41 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TGAATACATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
Found at i:78887083 original size:40 final size:39
Alignment explanation
Indices: 78886992--78887169 Score: 141
Period size: 40 Copynumber: 4.5 Consensus size: 39
78886982 TTGAATGACG
* * * * *
78886992 TCCGGGCTAAGTCCCGAAGACATTTATGCTAGT-AATTA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTTA
* *
78887030 TCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTACA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACT-TA
* *
78887070 TCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA--TA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGC---TAGTGACTTA
* * *
78887110 TCCGGGCTAAG-CCCGAAGGTAATTGTGCGAGTTG-CGATA
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGAC-TTA
* *
78887149 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGCTAAGACCCGAAGGC
78887170 CTTTGTGCGG
Statistics
Matches: 113, Mismatches: 17, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
36 1 0.01
37 2 0.02
38 28 0.25
39 29 0.26
40 48 0.42
43 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGACTTA
Found at i:78887154 original size:79 final size:80
Alignment explanation
Indices: 78887028--78887177 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 80
78887018 TGCTAGTAAT
* * *
78887028 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCAT
78887093 TTGTGCAAATTGTGA
66 TTGTGCAAATTGTGA
* * * * *
78887108 TATCCGGGCTAAG-CCCGAAGGTAATTGTGCGAGTTG-CGATATCCGGGTTAAGTCCCGAAGGCC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG-TGACGACATCCGGGCTAAGACCCGAAGGCA
78887171 TTTGTGC
65 TTTGTGC
78887178 GGGTTACCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 47 0.77
80 14 0.23
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAATTGTGA
Found at i:78887176 original size:40 final size:40
Alignment explanation
Indices: 78887028--78887214 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
78887018 TGCTAGTAAT
* * * *
78887028 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CGA
* * * *
78887068 CATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
* *
78887108 TATCCGGGCTAAG-CCCGAAGGTAATTGTGCGAGTTGCGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
* * * * * *
78887147 TATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
* * *
78887187 TAACCGGGCTATA-TCCCGAAGGCGTTTG
1 TATCCGGGCTA-AGACCCGAAGGCATTTG
78887215 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
Found at i:78887194 original size:79 final size:79
Alignment explanation
Indices: 78887031--78887209 Score: 180
Period size: 79 Copynumber: 2.2 Consensus size: 79
78887021 TAGTAATTAT
* * *
78887031 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCATTTG
*** *
78887096 TGCAAATTGTGATAT
65 TGCAAATTACCATAA
* * * * *
78887111 CCGGGCTAAGCCCGAAGGTAATTGTGCGAGTTG-CGATATCCGGGTTAAGTCCCGAAGGCCTTTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAG-TGACGACATCCGGGCTAAGACCCGAAGGCATTTG
***
78887175 TGCGGGTTACCATAA
65 TGCAAATTACCATAA
*
78887190 CCGGGCTATATCCCGAAGGC
1 CCGGGCTA-AGCCCGAAGGC
78887210 GTTTGAACGA
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 60 0.75
80 20 0.25
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCATTTGT
GCAAATTACCATAA
Found at i:78895215 original size:40 final size:39
Alignment explanation
Indices: 78895171--78895279 Score: 146
Period size: 39 Copynumber: 2.7 Consensus size: 39
78895161 TAGTGACTAC
*
78895171 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGAT
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCAAATTGCGAT
* * *
78895211 ATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGCGAT
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCAAATTGCGAT
* *
78895250 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGC
78895280 GGGTTACCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.56
40 27 0.44
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCAAATTGCGAT
Found at i:78895267 original size:79 final size:80
Alignment explanation
Indices: 78895130--78895279 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 80
78895120 TGCTAGTAAT
* * *
78895130 TATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCAT
78895195 TTGTGCAAATTGTGA
66 TTGTGCAAATTGTGA
* * * * *
78895210 TATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG-CGATATCCGGGTTAAGTCCCGAAGGCC
1 TATCCGGGCTAAGACCCAAAGGCAATTGTGCGAG-TGACGACATCCGGGCTAAGACCCGAAGGCA
78895273 TTTGTGC
65 TTTGTGC
78895280 GGGTTACCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 47 0.77
80 14 0.23
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAATTGTGA
Found at i:78895280 original size:40 final size:40
Alignment explanation
Indices: 78895130--78895335 Score: 173
Period size: 40 Copynumber: 5.2 Consensus size: 40
78895120 TGCTAGTAAT
* * * * *
78895130 TATCCGGGTTAAGACCCAAAGGCAATTGTGCTAG-TGACTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CGA
* * * *
78895170 CATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
*
78895210 TATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGCGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
* * * * * *
78895249 TATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
* * * * ** * *
78895289 TAACCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
78895329 TATCCGG
1 TATCCGG
78895336 TTAAACTCCG
Statistics
Matches: 134, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
39 34 0.25
40 98 0.73
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCGA
Found at i:78895296 original size:79 final size:80
Alignment explanation
Indices: 78895133--78895311 Score: 182
Period size: 79 Copynumber: 2.2 Consensus size: 80
78895123 TAGTAATTAT
* * * *
78895133 CCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCATTTG
*** *
78895198 TGCAAATTGTGATAT
66 TGCAAATTACCATAA
* * * *
78895213 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG-CGATATCCGGGTTAAGTCCCGAAGGCCTTT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAG-TGACGACATCCGGGCTAAGACCCGAAGGCATTT
***
78895276 GTGCGGGTTACCATAA
65 GTGCAAATTACCATAA
* *
78895292 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
78895312 GTTTGAACGA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 61 0.75
80 20 0.25
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACGACATCCGGGCTAAGACCCGAAGGCATTTG
TGCAAATTACCATAA
Found at i:78901859 original size:27 final size:21
Alignment explanation
Indices: 78901800--78901847 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
78901790 TTTCAATGAT
78901800 CTCAATTTTAGACTTATCAAC
1 CTCAATTTTAGACTTATCAAC
78901821 CTCAATTTTAGACTTATCAAC
1 CTCAATTTTAGACTTATCAAC
78901842 CTCAAT
1 CTCAAT
78901848 CCCTTTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (21 bp):
CTCAATTTTAGACTTATCAAC
Found at i:78914185 original size:28 final size:29
Alignment explanation
Indices: 78914115--78914186 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 29
78914105 ATATATGTGG
*
78914115 CACTTAGTGTGCGAAATATTGAGAATGGA
1 CACTTAGTGTGCGAGATATTGAGAATGGA
* *
78914144 -ACTTGGTGTGCGAGATATTGAGTAT-GA
1 CACTTAGTGTGCGAGATATTGAGAATGGA
78914171 CACTTAGTGTGCGAGA
1 CACTTAGTGTGCGAGA
78914187 CATCGAAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (29 bp):
CACTTAGTGTGCGAGATATTGAGAATGGA
Found at i:78918630 original size:22 final size:22
Alignment explanation
Indices: 78918589--78918670 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 22
78918579 TAGCTCATTG
78918589 GAGCTTACCGTTCCAGCTCGATA
1 GAGCTTACCGTT-CAGCTCGATA
*
78918612 GAGCTTACTGTTCAGCTCGATA
1 GAGCTTACCGTTCAGCTCGATA
* *
78918634 GAGTTTACCGTTTCAGCTCAATA
1 GAGCTTACCG-TTCAGCTCGATA
*
78918657 GAGCTTACTGTTCA
1 GAGCTTACCGTTCA
78918671 TTAGCTCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 22 0.42
23 30 0.58
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (22 bp):
GAGCTTACCGTTCAGCTCGATA
Found at i:78918697 original size:26 final size:25
Alignment explanation
Indices: 78918648--78918697 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
78918638 TTACCGTTTC
* * *
78918648 AGCTCAATAGAGCTTACTGTTCATT
1 AGCTCAAAAGAGCTTACCGATCATT
78918673 AGCTCAAAAGGAGCTTACCGATCAT
1 AGCTCAAAA-GAGCTTACCGATCAT
78918698 GGCTTGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCTCAAAAGAGCTTACCGATCATT
Found at i:78928403 original size:20 final size:19
Alignment explanation
Indices: 78928358--78928395 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
78928348 GAGCGAAAGG
78928358 AACGAG-AAATGGGCCAAA
1 AACGAGAAAATGGGCCAAA
*
78928376 AACAGAGAAAATGGGTCAAA
1 AAC-GAGAAAATGGGCCAAA
78928396 GTACGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 3 0.18
20 11 0.65
ACGTcount: A:0.53, C:0.13, G:0.26, T:0.08
Consensus pattern (19 bp):
AACGAGAAAATGGGCCAAA
Found at i:78928495 original size:13 final size:13
Alignment explanation
Indices: 78928477--78928501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78928467 AAGCACGATT
78928477 CACACGGGCGTGG
1 CACACGGGCGTGG
78928490 CACACGGGCGTG
1 CACACGGGCGTG
78928502 TCCCTACCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGG
Found at i:78934475 original size:29 final size:29
Alignment explanation
Indices: 78934442--78934515 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
78934432 GTGACGAGAT
78934442 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
78934471 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
78934500 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78934516 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:78934531 original size:29 final size:29
Alignment explanation
Indices: 78934499--78934574 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
78934489 CTGGAAATAT
* *
78934499 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
78934528 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
78934557 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
78934575 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:78934542 original size:58 final size:58
Alignment explanation
Indices: 78934442--78934574 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
78934432 GTGACGAGAT
* * * * * *
78934442 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
78934500 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
78934558 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
78934575 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:78942341 original size:29 final size:29
Alignment explanation
Indices: 78942308--78942381 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
78942298 GTGACGAGAT
78942308 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
78942337 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
78942366 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78942382 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:78942397 original size:29 final size:29
Alignment explanation
Indices: 78942365--78942440 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
78942355 CTGGAAATAT
* *
78942365 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
78942394 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
78942423 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
78942441 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:78942408 original size:58 final size:58
Alignment explanation
Indices: 78942308--78942440 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
78942298 GTGACGAGAT
* * * * * *
78942308 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
78942366 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
78942424 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
78942441 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:78948840 original size:39 final size:40
Alignment explanation
Indices: 78948796--78948959 Score: 178
Period size: 39 Copynumber: 4.2 Consensus size: 40
78948786 CGGAATATAA
*
78948796 CCGGATATAATCACGT-GCACAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCTAGCACAATGCCTTCGGGTCTTAGC
* * *
78948835 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCTAGCAC-AATGCCTTCGGGTCTTAGC
* *
78948875 CCGGATAT-AGC-CCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCTAGCACAA-TGCCTTCGGGTCTTAGC
** * *
78948914 CCGGATATAATTTCC-AGCATAATGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCTAGCACAATGCCTTCGGGTCTTAGC
78948952 CCGGATAT
1 CCGGATAT
78948960 CATTCAATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
38 17 0.16
39 54 0.51
40 33 0.31
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCTAGCACAATGCCTTCGGGTCTTAGC
Found at i:78948917 original size:79 final size:76
Alignment explanation
Indices: 78948812--78948959 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 76
78948802 ATAATCACGT
*
78948812 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATGCCTTCGGG-CTTAGCC
78948876 CGGATATAGCCCTA
63 CGGATATAGCCCTA
* ** * *
78948890 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATGTCTTCGGGCTTAGCCCG
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATGCCTTCGGGCTTAGCCCG
78948955 GATAT
65 GATAT
78948960 CATTCAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
77 14 0.23
78 18 0.29
79 30 0.48
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (76 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATGCCTTCGGGCTTAGCCCGG
ATATAGCCCTA
Found at i:78955833 original size:40 final size:39
Alignment explanation
Indices: 78955788--78955914 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
78955778 TTCGGAATAA
78955788 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
78955828 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
78955868 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
78955908 CCGGATA
1 CCGGATA
78955915 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78963827 original size:40 final size:39
Alignment explanation
Indices: 78963782--78963908 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
78963772 CGGAACATAA
78963782 CCGGATACAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATACAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
78963822 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATACAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
78963862 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATACAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
78963902 CCGGATA
1 CCGGATA
78963909 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATACAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78967786 original size:2 final size:2
Alignment explanation
Indices: 78967779--78967808 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
78967769 CCACTAGAAC
78967779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78967809 GTAGCGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78968591 original size:27 final size:27
Alignment explanation
Indices: 78968561--78968706 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
78968551 GGGGCAAAAT
* * * *
78968561 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
78968588 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
78968615 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
78968642 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
78968669 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
78968696 GGTAATTCTAC
1 GGTAATTCTAC
78968707 AACTTATCCA
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:78974566 original size:31 final size:31
Alignment explanation
Indices: 78974531--78974594 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
78974521 CTTTTTCATA
*
78974531 TTTCATATTTCATAAAACTGGGCCGAAGCCT
1 TTTCAAATTTCATAAAACTGGGCCGAAGCCT
**
78974562 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAAAACTGGGCCGAAGCCT
78974593 TT
1 TT
78974595 ACTGTAAACG
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:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAAAACTGGGCCGAAGCCT
Found at i:78974677 original size:42 final size:42
Alignment explanation
Indices: 78974618--78974709 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
78974608 TGGCCCATAG
**
78974618 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
78974660 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
78974702 ACCCATTT
1 GCCCATTT
78974710 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:78974882 original size:24 final size:24
Alignment explanation
Indices: 78974844--78974901 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
78974834 CTGGAGGCCT
78974844 AGCCTCTTTTAGTAACTAGGGAAAA
1 AGCC-CTTTTAGTAACTAGGGAAAA
* * * *
78974869 AGCCCTTTTTGTAACTGGGGCATA
1 AGCCCTTTTAGTAACTAGGGAAAA
78974893 AGCCCTTTT
1 AGCCCTTTT
78974902 GATCACTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCCCTTTTAGTAACTAGGGAAAA
Found at i:78974909 original size:24 final size:24
Alignment explanation
Indices: 78974868--78975137 Score: 372
Period size: 23 Copynumber: 11.5 Consensus size: 24
78974858 ACTAGGGAAA
78974868 AAGCCCTTTTTG-TAACTGGGGCAT
1 AAGCCC-TTTTGATAACTGGGGCAT
*
78974892 AAGCCCTTTTGATCACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
* *
78974916 AAGCCC-TTTAATAACTGGGGTAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78974939 AAGCCCTTTTGATAATTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
* *
78974963 AAGCCCTTTTGATGATTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78974987 AAGCCCTTTTGATAACTAGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78975011 AAGCCC-TTTAATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78975034 AAGCCGTTTTGATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78975058 AAGCCC-TTTAATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
*
78975081 AAGCCC-TTTAATAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
* *
78975104 AAGCCC-TTTAACAACTGGGGCAT
1 AAGCCCTTTTGATAACTGGGGCAT
78975127 AAGCCCTTTTG
1 AAGCCCTTTTG
78975138 CACTTCCTCC
Statistics
Matches: 223, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
23 112 0.50
24 111 0.50
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
AAGCCCTTTTGATAACTGGGGCAT
Found at i:78974941 original size:47 final size:47
Alignment explanation
Indices: 78974880--78975137 Score: 410
Period size: 47 Copynumber: 5.5 Consensus size: 47
78974870 GCCCTTTTTG
*
78974880 TAACTGGGGCATAAGCCCTTTTGATCACTGGGGCATAAGCCCTTTAA
1 TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAA
* * *
78974927 TAACTGGGGTATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAA
* * *
78974975 TGATTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTAA
1 TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAA
*
78975022 TAACTGGGGCATAAGCCGTTTTGATAACTGGGGCATAAGCCCTTTAA
1 TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAA
*
78975069 TAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTAA
1 TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAA
*
78975115 CAACTGGGGCATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
78975138 CACTTCCTCC
Statistics
Matches: 191, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 44 0.23
47 106 0.55
48 41 0.21
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (47 bp):
TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAA
Found at i:78975210 original size:9 final size:9
Alignment explanation
Indices: 78975196--78975252 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
78975186 ATCTCATGTG
78975196 CATATCATA
1 CATATCATA
*
78975205 CATATCATGTG
1 CATATCA--TA
78975216 CATATCATA
1 CATATCATA
* *
78975225 CATGTCATGTG
1 CATATCA--TA
78975236 CATATCATA
1 CATATCATA
78975245 CATATCAT
1 CATATCAT
78975253 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:78975212 original size:20 final size:20
Alignment explanation
Indices: 78975183--78975254 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
78975173 CATTTATGAT
*
78975183 TACATCTCATGTGCATATCA
1 TACATATCATGTGCATATCA
78975203 TACATATCATGTGCATATCA
1 TACATATCATGTGCATATCA
*
78975223 TACATGTCATGTGCATATCA
1 TACATATCATGTGCATATCA
78975243 TACATATCATGT
1 TACATATCATGT
78975255 TTATCAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
TACATATCATGTGCATATCA
Found at i:78975219 original size:11 final size:11
Alignment explanation
Indices: 78975189--78975243 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
78975179 TGATTACATC
78975189 TCATGTGCATA
1 TCATGTGCATA
*
78975200 TCA--TACATA
1 TCATGTGCATA
78975209 TCATGTGCATA
1 TCATGTGCATA
* *
78975220 TCA--TACATG
1 TCATGTGCATA
78975229 TCATGTGCATA
1 TCATGTGCATA
78975240 TCAT
1 TCAT
78975244 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:78975319 original size:25 final size:25
Alignment explanation
Indices: 78975291--78975338 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
78975281 ATATATAAAC
*
78975291 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAATGGTCATTTTTA
78975316 CCTAGGGGTAAAATGGTCATTTT
1 CCTAGGGGTAAAATGGTCATTTT
78975339 CAGATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGTAAAATGGTCATTTTTA
Found at i:78976561 original size:27 final size:27
Alignment explanation
Indices: 78976499--78976563 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
78976489 GGGCATATTC
78976499 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
78976526 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
78976553 GTCTTTTTACC
1 GTCATTTTACC
78976564 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:78976647 original size:27 final size:27
Alignment explanation
Indices: 78976617--78976819 Score: 147
Period size: 27 Copynumber: 7.4 Consensus size: 27
78976607 GTAAATCAAC
* *
78976617 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
78976644 AAACCAATGGTATTTCTA-TAATTTTTAA
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
78976672 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
78976700 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
78976727 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
78976754 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
78976781 AAACCAAGGGTATTTTAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
78976808 AAATCGAGGGTA
1 AAACCAAGGGTA
78976820 AAACAGTAAT
Statistics
Matches: 143, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
27 115 0.80
28 14 0.10
29 14 0.10
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:78976818 original size:54 final size:54
Alignment explanation
Indices: 78976594--78976819 Score: 202
Period size: 54 Copynumber: 4.1 Consensus size: 54
78976584 TTTCATCCTA
* * ** * *
78976594 CAAGGGTGTTTTGGTAAATCAACAAACCAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
* * * * * * * *
78976648 CAATGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAATTTTATAAAC
* *** * * *
78976704 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
* *
78976758 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
*
78976812 CGAGGGTA
1 CAAGGGTA
78976820 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 34, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
54 84 0.63
55 15 0.11
56 35 0.26
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAAC
Found at i:78976827 original size:27 final size:27
Alignment explanation
Indices: 78976798--78977087 Score: 313
Period size: 27 Copynumber: 10.8 Consensus size: 27
78976788 GGGTATTTTA
* * *
78976798 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78976825 GTAATTCTGTAAATCAAGGATAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78976852 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78976879 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78976906 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78976933 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
78976960 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
*
78976987 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78977014 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
78977041 GTAA-TATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
78977067 GTAATTCTGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
78977088 CTTTGGTAAT
Statistics
Matches: 231, Mismatches: 26, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
26 32 0.14
27 198 0.86
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78977122 original size:27 final size:26
Alignment explanation
Indices: 78977084--78977182 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
78977074 TGTAAATCGG
78977084 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAA-TCGAA
* *
78977111 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTAC-AATCGAA
* * * *
78977138 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTCGGTAATTTTACAATCGAA
78977164 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
78977183 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.12
27 50 0.85
28 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAATCGAA
Found at i:78977122 original size:53 final size:53
Alignment explanation
Indices: 78977077--78977180 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
78977067 GTAATTCTGT
* *
78977077 AAATCG-GGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
78977130 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
78977181 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
53 17 0.39
54 27 0.61
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:78977196 original size:27 final size:27
Alignment explanation
Indices: 78977093--78977197 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
78977083 GGGTACTTTG
* * *
78977093 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
78977120 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
78977147 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
78977174 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
78977198 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:78979690 original size:27 final size:26
Alignment explanation
Indices: 78979642--78979701 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
78979632 GCGAGGCTGG
*
78979642 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
78979669 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
78979695 CAAATAT
1 CAGATAT
78979702 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78979705 original size:2 final size:2
Alignment explanation
Indices: 78979698--78979737 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
78979688 ACCAGAACAA
78979698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78979738 GTGGCAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78979840 original size:67 final size:67
Alignment explanation
Indices: 78979732--78979907 Score: 307
Period size: 67 Copynumber: 2.6 Consensus size: 67
78979722 ATATATATAT
* *
78979732 ATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAAC
78979797 AG
66 AG
* *
78979799 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACTAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAAC
78979864 AG
66 AG
*
78979866 ATATATGTGGCGAGGCCACCAGATTGCAGTGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
78979908 ACACTTCCTC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 104 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGAAC
AG
Found at i:78980391 original size:10 final size:10
Alignment explanation
Indices: 78980362--78980392 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
78980352 ACACACCTGG
*
78980362 TTGATGACGG
1 TTGATGACGA
78980372 TTGATGACGA
1 TTGATGACGA
78980382 TTGATGACGA
1 TTGATGACGA
78980392 T
1 T
78980393 ATCTCCCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.32, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:78980693 original size:27 final size:27
Alignment explanation
Indices: 78980551--78980696 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
78980541 GGGGCAAAAT
* * ** *
78980551 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78980578 GGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78980605 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78980632 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78980659 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78980686 GGTAATTCTAC
1 GGTAATTCTAC
78980697 AACTTATCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:78988488 original size:39 final size:39
Alignment explanation
Indices: 78988437--78988559 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
78988427 TATGGTAACC
* *
78988437 CGCACAAATGCCTTCGGGACTTA-ACCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
78988476 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
78988515 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
78988554 CGCACA
1 CGCACA
78988560 TTCATACACA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 4 0.05
39 76 0.95
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:78999026 original size:40 final size:40
Alignment explanation
Indices: 78998977--78999144 Score: 191
Period size: 40 Copynumber: 4.2 Consensus size: 40
78998967 TCGGATACAA
78998977 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * * *
78999017 CCGAATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
78999057 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
*
78999097 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTT-GAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAG-C
78999137 CCGGATAT
1 CCGGATAT
78999145 CATTCAATTG
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.05
40 105 0.95
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:78999117 original size:80 final size:80
Alignment explanation
Indices: 78998977--78999144 Score: 225
Period size: 80 Copynumber: 2.1 Consensus size: 80
78998967 TCGGATACAA
* *
78998977 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGAATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGAATATAACGACTAGCACAAATG
78999042 CCTTCGGGTATT-AGC
66 CCTTCGGGTATTGA-C
** * *
78999057 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGAATATAACG--ACTAGCACAAA
*
78999120 TGCCTTCGGGTCTTGAC
64 TGCCTTCGGGTATTGAC
78999137 CCGGATAT
1 CCGGATAT
78999145 CATTCAATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 74 0.95
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGAATATAACGACTAGCACAAATG
CCTTCGGGTATTGAC
Found at i:78999327 original size:124 final size:124
Alignment explanation
Indices: 78999107--78999450 Score: 544
Period size: 124 Copynumber: 2.8 Consensus size: 124
78999097 CCGGATAAAG
* * * * *
78999107 TCACTAGCACAATTGCCTTCGGGTCTTGACCCGGATATCATTCAATTGCTCATGCTCACACACAT
1 TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACACACAT
78999172 CAATAATCATTACACATTCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAATATAA
66 CAATAATCATTACACATTCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAATATAA
78999231 TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACACACAT
1 TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACACACAT
78999296 CAATAATCATTACACATTCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAATATAA
66 CAATAATCATTACACATTCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAATATAA
* * * * ** *
78999355 TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTACCATTCAAATACTCATACACACGTATAT
1 TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACACACAT
* * *
78999420 CAGTAATCATTACACATCCATAATTTCATTT
66 CAATAATCATTACACATTCAT-GTTTCATTT
78999451 CACATAATTC
Statistics
Matches: 204, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
124 196 0.96
125 8 0.04
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (124 bp):
TCACTAGCATAATTGCCTTCGGGACTTAACCCGGGTATCATTCAATTGCTCATGCACACACACAT
CAATAATCATTACACATTCATGTTTCATTTTCGTTACTAAGGCTCAAACACAAATATAA
Found at i:79007092 original size:46 final size:46
Alignment explanation
Indices: 79006991--79007079 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
79006981 TGTAACCCGC
* * *
79006991 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
* *
79007037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCA
79007080 ACCATCCTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
Found at i:79021687 original size:13 final size:13
Alignment explanation
Indices: 79021669--79021695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79021659 ACCATAAGTG
79021669 GAGACACGGCCGT
1 GAGACACGGCCGT
79021682 GAGACACGGCCGT
1 GAGACACGGCCGT
79021695 G
1 G
79021696 CGAAAATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.41, T:0.07
Consensus pattern (13 bp):
GAGACACGGCCGT
Found at i:79049183 original size:40 final size:40
Alignment explanation
Indices: 79049116--79049260 Score: 130
Period size: 40 Copynumber: 3.6 Consensus size: 40
79049106 AAATTGAATG
* * * *
79049116 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * * ***
79049156 ATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
79049196 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
*
79049236 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
79049261 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:79049261 original size:40 final size:39
Alignment explanation
Indices: 79049155--79049283 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
79049145 TGCTGGAAAT
* * * *
79049155 TATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
79049195 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
79049235 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
79049275 TATATCCGG
1 TATATCCGG
79049284 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:79060207 original size:19 final size:19
Alignment explanation
Indices: 79060174--79060212 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
79060164 TGATTTTGTA
*
79060174 TTTTGGCCCATTTTCTTCGT
1 TTTTGGCCCAGTTTC-TCGT
79060194 TTTTGGCCC-GTTTCTCGT
1 TTTTGGCCCAGTTTCTCGT
79060212 T
1 T
79060213 CCTTTCGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (19 bp):
TTTTGGCCCAGTTTCTCGT
Found at i:79074501 original size:28 final size:27
Alignment explanation
Indices: 79074435--79074504 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
79074425 ATAGTGAGTC
*
79074435 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
79074462 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
79074490 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79074505 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:79074575 original size:41 final size:41
Alignment explanation
Indices: 79074513--79074617 Score: 201
Period size: 41 Copynumber: 2.6 Consensus size: 41
79074503 CTGTACAAAT
*
79074513 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCA
79074554 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCA
79074595 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
79074618 GAGACCAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.30
Consensus pattern (41 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCA
Found at i:79089387 original size:23 final size:23
Alignment explanation
Indices: 79089322--79089488 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
79089312 CCTAGCCTCT
* *
79089322 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
79089345 TTTTGATCACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
79089369 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
79089392 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
79089416 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
79089439 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
79089462 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
79089486 TTT
1 TTT
79089489 TGCACTTCCT
Statistics
Matches: 130, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
23 68 0.52
24 62 0.48
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:79089396 original size:47 final size:47
Alignment explanation
Indices: 79089322--79089490 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
79089312 CCTAGCCTCT
* * * *
79089322 TTTAGTAACTGGGGCAAAAGCCCTTTTGATCACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
79089369 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
79089416 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
79089462 TTTTGATAACTGGGGCATAAGCCCTTTTG
1 -TTTAATAACTGGGGCATAAGCCCTTTTG
79089491 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 22 0.19
47 88 0.78
48 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:79089451 original size:70 final size:70
Alignment explanation
Indices: 79089301--79089488 Score: 281
Period size: 70 Copynumber: 2.7 Consensus size: 70
79089291 GCTTTATCAT
* * * *
79089301 ATAACTGGAGGCCT-AGCCTCTTTT-AGTAACTGGGGCAAAAGCCCTTTTGATCACTAGGGCATA
1 ATAACTGG-GGCATAAGCC-CTTTTGA-TAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATA
79089364 AGCCCTTTA
62 AGCCCTTTA
*
79089373 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
79089438 CTTTA
66 CTTTA
79089443 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
79089489 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
70 70 0.64
71 26 0.24
72 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
CTTTA
Found at i:79089563 original size:20 final size:20
Alignment explanation
Indices: 79089535--79089645 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
79089525 GCATTTATGA
*
79089535 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
79089555 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
79089575 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
79089595 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
79089615 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
79089635 ACATATCATGT
1 ACATATCATGT
79089646 TTATCAAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:79089710 original size:25 final size:25
Alignment explanation
Indices: 79089682--79089729 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
79089672 ATGTATAAAC
* * *
79089682 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
79089707 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
79089730 CATATTACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:79090949 original size:27 final size:27
Alignment explanation
Indices: 79090887--79090951 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
79090877 GGGCATATTC
79090887 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
79090914 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
79090941 GTCTTTTTACC
1 GTCATTTTACC
79090952 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:79091035 original size:27 final size:27
Alignment explanation
Indices: 79091005--79091260 Score: 129
Period size: 27 Copynumber: 9.4 Consensus size: 27
79090995 GTAAATCAAC
* *
79091005 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
79091032 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
79091060 AAAGTCAA-GGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * * * *
79091087 AAATCAGGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
79091114 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
79091141 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * * *
79091168 AAACTAGGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** *
79091195 AAATCGAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *** *
79091222 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
79091249 AAATCGAGGGTA
1 AAACCAAGGGTA
79091261 AAACGGTAAT
Statistics
Matches: 189, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 164 0.87
28 19 0.10
29 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:79091206 original size:54 final size:53
Alignment explanation
Indices: 79091003--79091204 Score: 165
Period size: 54 Copynumber: 3.7 Consensus size: 53
79090993 TGGTAAATCA
* * * ** ** *
79091003 ACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTT-TGTAATTTTGTAAATCAGGGGTATTTCGGTAA-TTTC
* * *
79091058 AGAAAGTCAA-GGTATTTCTGTAACTTTGTAAATCAGGGGTATTTCGGTAATTTC
1 ACAAA-CCAAGGGTATTT-TGTAATTTTGTAAATCAGGGGTATTTCGGTAATTTC
** * *
79091112 ACAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTT-GTAATTTTGTAAATC-AGGGGTATTTCGGTAATTTC
* *
79091166 ACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGG
1 ACAAACCAAGGGTATTTT-GTAATTTTGTAAATC-AGGG
79091205 TAAAACAGTA
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
53 5 0.04
54 69 0.58
55 42 0.35
56 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
ACAAACCAAGGGTATTTTGTAATTTTGTAAATCAGGGGTATTTCGGTAATTTC
Found at i:79091243 original size:81 final size:78
Alignment explanation
Indices: 79091158--79091388 Score: 225
Period size: 81 Copynumber: 2.9 Consensus size: 78
79091148 GGGTATTTTG
*** *
79091158 GTAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTA-AAACTAGGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC-GTAATTCTGTA
79091223 AATCAAGGGTAAAAC
64 AATCAAGGGTAAAAC
* * **
79091238 AGTAATTCTATAAA-TCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTG
1 -GTAATTTTA-AAACTAG-GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACG-TAATTCTG
* *
79091302 TAAGTCGAGGGTAAAAC
62 TAAATCAAGGGTAAAAC
* * *
79091319 GATAATTATGTAAATC-AGGGGTAAAATAGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCT
1 G-TAATT-T-TAAAACTAGGGGTAAAATAGTAATTTTGTAAATCGA-GGGTAAAAC-GTAATTCT
79091382 GTAAATC
61 GTAAATC
79091389 GGGGGTACTT
Statistics
Matches: 123, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
80 5 0.04
81 112 0.91
82 4 0.03
83 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (78 bp):
GTAATTTTAAAACTAGGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGTAATTCTGTAAA
TCAAGGGTAAAAC
Found at i:79091261 original size:27 final size:27
Alignment explanation
Indices: 79091184--79091395 Score: 243
Period size: 27 Copynumber: 7.9 Consensus size: 27
79091174 GGGGTATTTT
*
79091184 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
79091211 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
79091238 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
79091265 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
79091292 -GATAATTCTGTAAGTCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
79091319 -GATAATTATGTAAATC-AGGGGTAAAAT
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
79091346 AGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
79091373 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
79091396 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 160 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:79091395 original size:81 final size:81
Alignment explanation
Indices: 79091183--79091395 Score: 270
Period size: 81 Copynumber: 2.6 Consensus size: 81
79091173 AGGGGTATTT
* * * *
79091183 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTA
1 TAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATA
79091248 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * *
79091264 CGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAAC-GATAATTAT
1 TAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTAT
*
79091328 GTAAATC-AGGGGTAAAA
65 ATAAATCGA-GGGTAAAA
* * *
79091345 TAGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 TAGTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTA
79091396 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.03
81 110 0.97
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
TAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATA
TAAATCGAGGGTAAAA
Found at i:79091422 original size:27 final size:27
Alignment explanation
Indices: 79091392--79091490 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
79091382 GTAAATCGGG
*
79091392 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
79091419 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
79091446 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
79091472 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
79091491 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:79091430 original size:54 final size:53
Alignment explanation
Indices: 79091384--79091488 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
79091374 GTAATTCTGT
* * *
79091384 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
79091438 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
79091489 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Done.