Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 131 of 344
Found at i:44287691 original size:47 final size:47
Alignment explanation
Indices: 44287632--44287741 Score: 166
Period size: 47 Copynumber: 2.3 Consensus size: 47
44287622 TAAGGCATGA
**
44287632 ATACCATGTAAGACCTTGTTTGGAACATGGCATTTGGTAAGACAAAG
1 ATACCATGTAAGACCAAGTTTGGAACATGGCATTTGGTAAGACAAAG
** *
44287679 ATACCATGTAAGACCAAGTTTGGAACATGGCATTTGGTAAGGTAAGG
1 ATACCATGTAAGACCAAGTTTGGAACATGGCATTTGGTAAGACAAAG
*
44287726 ATATCATGTAAGACCA
1 ATACCATGTAAGACCA
44287742 TACCAAGGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (47 bp):
ATACCATGTAAGACCAAGTTTGGAACATGGCATTTGGTAAGACAAAG
Found at i:44287787 original size:54 final size:53
Alignment explanation
Indices: 44287728--44287868 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 53
44287718 AGGTAAGGAT
* *
44287728 ATCATGTAAGACCATACCAAGGCATAGCATTGATAAGTT-CTACAAGGCAAGTAA-
1 ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTACAAGG-AA--AAG
* * * *
44287782 ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAG
1 ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTACAAGGAAAAG
*
44287835 GTCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 AT--CATGTAAGACCATGCCAAGGCATGGCATTG
44287869 GTGAGTTCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.03
53 1 0.01
54 36 0.49
55 35 0.47
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (53 bp):
ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTACAAGGAAAAG
Found at i:44287850 original size:55 final size:53
Alignment explanation
Indices: 44287730--44287918 Score: 166
Period size: 55 Copynumber: 3.5 Consensus size: 53
44287720 GTAAGGATAT
** * * * * * *
44287730 CATGTAAGACCATACCAAGGCATAGCATTGATAAGTTC-TACAAGGCAAGTAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATA-AA-GAAAGTATAC
* * *
44287784 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAG-GTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAAG-AAAGTATAC
* * * *
44287839 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAAGCAAGTATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAAGAAAGTATAC
* *
44287892 CACGTAAGACGATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
44287919 ATGGTAAGTT
Statistics
Matches: 108, Mismatches: 22, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
52 3 0.03
53 30 0.28
54 33 0.31
55 36 0.33
56 4 0.04
57 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAAGAAAGTATAC
Found at i:44292515 original size:40 final size:40
Alignment explanation
Indices: 44292419--44292570 Score: 216
Period size: 40 Copynumber: 3.7 Consensus size: 40
44292409 TATTCGGATG
44292419 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
44292462 ATACCCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
44292502 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
44292542 ATATCCGGGCTAAGACCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
44292571 CGCGAGTTGC
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 67 0.68
43 30 0.30
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:44292586 original size:40 final size:40
Alignment explanation
Indices: 44292419--44292602 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
44292409 TATTCGGATG
* *
44292419 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCGAGT-G--ACT
* * * *
44292462 ATACCCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
*** *
44292502 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
* *
44292542 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACT
* *
44292582 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44292603 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.11
40 73 0.59
41 2 0.02
42 1 0.01
43 33 0.27
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
Found at i:44292586 original size:80 final size:81
Alignment explanation
Indices: 44292419--44292602 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
44292409 TATTCGGATG
** **
44292419 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGC--GTAGTTGCTATACCCGGGCTAAGACCCGAAG
* * *
44292484 GCATTTGTGCTAGTGACT
64 GCATTTGCGCGAGTGACC
*
44292502 ATATCCGGGCTAAGTCCCGAAGGCATTCATGC-TAG-TGACTATATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCGTAGTTG-CTATACCCGGGCTAAGACCCGAAGG
44292565 CATTTGCGCGAGTTG-CC
65 CATTTGCGCGAG-TGACC
* *
44292582 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44292603 ATACTTGGGT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
79 17 0.19
80 40 0.45
81 2 0.02
83 30 0.34
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCGTAGTTGCTATACCCGGGCTAAGACCCGAAGGC
ATTTGCGCGAGTGACC
Found at i:44297137 original size:44 final size:44
Alignment explanation
Indices: 44297072--44297155 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
44297062 TTGATATCTT
* *
44297072 AAAGTCCATAGTTGTACCATGGCAATTAAGGAAGAATTGAAAAA
1 AAAGTCCATAGTTATAACATGGCAATTAAGGAAGAATTGAAAAA
* *
44297116 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATAGTT-ATAACATGGCAATTAAGGAAGAATTGA
44297156 TGGTTAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (44 bp):
AAAGTCCATAGTTATAACATGGCAATTAAGGAAGAATTGAAAAA
Found at i:44297402 original size:54 final size:55
Alignment explanation
Indices: 44297337--44297484 Score: 174
Period size: 54 Copynumber: 2.7 Consensus size: 55
44297327 TTTGGTAAGA
*
44297337 CAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTAGAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
* * * * *
44297391 CAAGGAAATCATATAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
*** * *
44297446 CAAAGG-CCGCATGAAAGACCATTCCAAGGCATGGCATTG
1 C-AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
44297485 GTGAGTTCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
54 41 0.53
55 33 0.42
56 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (55 bp):
CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
Found at i:44297749 original size:433 final size:434
Alignment explanation
Indices: 44297082--44297931 Score: 1594
Period size: 433 Copynumber: 2.0 Consensus size: 434
44297072 AAAGTCCATA
*
44297082 GTTGTACCATGGCAATTAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGG
1 GTTGTACCATGGCAATTAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCACTTAAGG
* *
44297147 AGGAATTGATGGTTAAGGATAACATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAG
66 AGGAATTGACGGTTAAGGATAACATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
*
44297212 ACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAAATGTGGC
131 ACCATGTCAAGACATGACATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAAATGTGGC
44297277 ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
196 ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
44297342 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATATAA
261 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATATAA
* *
44297407 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCGCATGAAAGACCATTCCA
326 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
44297472 AGGCATGGCATTGGTGAGTTCATAAAGCAAGGTACCACATCATC
391 AGGCATGGCATTGGTGAGTTCATAAAGCAAGGTACCACATCATC
44297516 GTTGTACCATGGCAATTAAGGAAGAATTG-AAAAAAAGTCCATGTTCATAACATGGCACTTAAGG
1 GTTGTACCATGGCAATTAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCACTTAAGG
*
44297580 AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
66 AGGAATTGACGGTTAAGGATAACATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
* *
44297645 ACCATGTCAAGACATGACATTGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATGTGGC
131 ACCATGTCAAGACATGACATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAAATGTGGC
44297710 ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
196 ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
*
44297775 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATGTAA
261 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATATAA
*
44297840 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGTAAGACCATGCCA
326 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
44297905 AGGCATGGCATTGGTGAGTTCATAAAG
391 AGGCATGGCATTGGTGAGTTCATAAAG
44297932 TAATGATACC
Statistics
Matches: 405, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
433 376 0.93
434 29 0.07
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (434 bp):
GTTGTACCATGGCAATTAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCACTTAAGG
AGGAATTGACGGTTAAGGATAACATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
ACCATGTCAAGACATGACATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAAATGTGGC
ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATATAA
GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
AGGCATGGCATTGGTGAGTTCATAAAGCAAGGTACCACATCATC
Found at i:44297835 original size:54 final size:55
Alignment explanation
Indices: 44297770--44297917 Score: 201
Period size: 54 Copynumber: 2.7 Consensus size: 55
44297760 TTTGGTAAGA
*
44297770 CAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTAGAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
* * * *
44297824 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
***
44297879 CAAAGG-CCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 C-AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
44297918 GTGAGTTCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 42 0.51
55 36 0.44
56 4 0.05
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (55 bp):
CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
Found at i:44301799 original size:22 final size:22
Alignment explanation
Indices: 44301757--44301800 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44301747 AATTATTTAC
* *
44301757 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
44301779 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
44301801 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:44302101 original size:40 final size:40
Alignment explanation
Indices: 44302027--44302248 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
44302017 AACCCAAGTA
* * *
44302027 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
44302066 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44302106 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44302146 CCTTCGGGACTTAGCCCGGATATAGTCAATAACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
44302186 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
44302226 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
44302249 CATTCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 151 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:44311287 original size:31 final size:32
Alignment explanation
Indices: 44311252--44311323 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 32
44311242 TCGGTCTAAG
*
44311252 TTCAAAAT-CCTCTTTTCTTGATCTATATTTA
1 TTCAAAATAACTCTTTTCTTGATCTATATTTA
44311283 TTCAAAATTAACTCTTTTCTTGATCTATATTTA
1 TTCAAAA-TAACTCTTTTCTTGATCTATATTTA
44311316 TTCAAAAT
1 TTCAAAAT
44311324 TAATCCTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
31 7 0.18
32 2 0.05
33 29 0.76
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (32 bp):
TTCAAAATAACTCTTTTCTTGATCTATATTTA
Found at i:44311333 original size:33 final size:33
Alignment explanation
Indices: 44311261--44311326 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
44311251 GTTCAAAATC
44311261 CTCTTTTCTTGATCTATATTTATTCAAAATTAA
1 CTCTTTTCTTGATCTATATTTATTCAAAATTAA
44311294 CTCTTTTCTTGATCTATATTTATTCAAAATTAA
1 CTCTTTTCTTGATCTATATTTATTCAAAATTAA
44311327 TCCTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (33 bp):
CTCTTTTCTTGATCTATATTTATTCAAAATTAA
Found at i:44315868 original size:40 final size:40
Alignment explanation
Indices: 44315813--44316027 Score: 265
Period size: 40 Copynumber: 5.3 Consensus size: 40
44315803 TATTCGGATG
*
44315813 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
44315853 ATATCCGGGCTAAGTCCCGAAGGCATTTGTTTG-AGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG--TGCA--AGTTACT
* *
44315896 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
44315936 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
44315976 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
44316016 ATATCC-GGCTAA
1 ATATCCGGGCTAA
44316028 ATCCTGACGA
Statistics
Matches: 155, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 6 0.04
40 108 0.70
41 5 0.03
42 4 0.03
43 32 0.21
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:44315958 original size:83 final size:80
Alignment explanation
Indices: 44315813--44316027 Score: 276
Period size: 83 Copynumber: 2.7 Consensus size: 80
44315803 TATTCGGATG
* *
44315813 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
** *
44315878 TTTGTTTGAGTAGTTG-CT
66 -TT-CATG-CTAG-TGACT
*
44315896 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGC
44315960 ATTCATGCTAGTGACT
65 ATTCATGCTAGTGACT
* *
44315976 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAA
44316028 ATCCTGACGA
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
79 8 0.07
80 43 0.36
81 6 0.05
82 4 0.03
83 59 0.49
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:44323664 original size:40 final size:40
Alignment explanation
Indices: 44323609--44323832 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
44323599 TATTCGGATG
*
44323609 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
44323649 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
44323692 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
44323732 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
44323772 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
44323812 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44323833 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:44323752 original size:83 final size:80
Alignment explanation
Indices: 44323613--44323832 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
44323603 CGGATGATAT
* * **
44323613 CCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
44323678 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
44323696 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
44323761 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
44323776 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
44323833 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:44325999 original size:49 final size:47
Alignment explanation
Indices: 44325934--44326061 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
44325924 TGTTGGGTGT
*
44325934 CAGTGTAAGACCTGTCTGGGACATGGCATC-AGCTTGGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTT-GA-ATATGAAAGC
* * * * **
44325983 TAGTGTAAGACCTGTCTAGGACACGGCATCGACTTTAATATGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAATATGAAAGC
44326030 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
44326062 CATTTGATCC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 18 0.27
48 18 0.27
49 30 0.45
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAATATGAAAGC
Found at i:44334555 original size:36 final size:36
Alignment explanation
Indices: 44334487--44334555 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
44334477 TTGGTCGCAT
* *
44334487 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
1 GTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGA
*
44334523 GTGTAGTACTAAGTGCAAGCTACTACGTGTACC
1 GTGTAGTACTAAGTGCAAGCTACTACGCGTACC
44334556 AGATTATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (36 bp):
GTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGA
Found at i:44334581 original size:85 final size:85
Alignment explanation
Indices: 44334438--44334604 Score: 298
Period size: 85 Copynumber: 2.0 Consensus size: 85
44334428 GAGGTCACGT
* *
44334438 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
*
44334503 AGGCTACTATGCGTACCCGA
66 AAGCTACTATGCGTACCCGA
*
44334523 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
44334588 AAGCTACTATGCGTACC
66 AAGCTACTATGCGTACC
44334605 AGATGGCTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (85 bp):
GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
AAGCTACTATGCGTACCCGA
Found at i:44340631 original size:11 final size:11
Alignment explanation
Indices: 44340615--44340643 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44340605 CCGTGTGTGA
44340615 TACACGGTATG
1 TACACGGTATG
44340626 TACACGGTATG
1 TACACGGTATG
44340637 TAC-CGGT
1 TACACGGT
44340644 CGTGTGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (11 bp):
TACACGGTATG
Found at i:44345602 original size:7 final size:7
Alignment explanation
Indices: 44345590--44345622 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
44345580 ATAAAATAAG
44345590 TTTTTTA
1 TTTTTTA
44345597 TTTTTTTA
1 -TTTTTTA
44345605 TTTTTTA
1 TTTTTTA
44345612 TTTTTT-
1 TTTTTTA
44345618 TTTTT
1 TTTTT
44345623 ATATAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.20
7 13 0.52
8 7 0.28
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTA
Found at i:44345603 original size:8 final size:8
Alignment explanation
Indices: 44345590--44345622 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
44345580 ATAAAATAAG
44345590 TTTTTTAT
1 TTTTTTAT
44345598 TTTTTTA-
1 TTTTTTAT
44345605 TTTTTTAT
1 TTTTTTAT
44345613 TTTTTT-T
1 TTTTTTAT
44345620 TTT
1 TTT
44345623 ATATAAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.46
8 13 0.54
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTAT
Found at i:44345610 original size:15 final size:14
Alignment explanation
Indices: 44345590--44345622 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
44345580 ATAAAATAAG
44345590 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
44345604 ATTTTTTATTTTTTT
1 -TTTTTTATTTTTTT
44345619 TTTT
1 TTTT
44345623 ATATAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTATTTTTTT
Found at i:44359038 original size:27 final size:26
Alignment explanation
Indices: 44359008--44359133 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
44358998 AAATTGTACA
44359008 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
44359035 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
44359062 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
44359089 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
44359117 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
44359134 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:44359072 original size:54 final size:54
Alignment explanation
Indices: 44359007--44359133 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
44358997 TAAATTGTAC
* **
44359007 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
44359060 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
44359116 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
44359134 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:44362039 original size:33 final size:33
Alignment explanation
Indices: 44361997--44362061 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
44361987 TCCAAAGATA
*
44361997 GAGCATTCGACCAACCCCAAAGTGCTAGACCAC
1 GAGCATTCGACCAACCCCAAAATGCTAGACCAC
*
44362030 GAGCATTCGACCAACCCTAAAATGCTAGACCA
1 GAGCATTCGACCAACCCCAAAATGCTAGACCA
44362062 TAACGCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.34, G:0.17, T:0.14
Consensus pattern (33 bp):
GAGCATTCGACCAACCCCAAAATGCTAGACCAC
Found at i:44367467 original size:19 final size:20
Alignment explanation
Indices: 44367440--44367485 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
44367430 ATATATGAAA
*
44367440 ATTTAGAATTTTT-ATAAA-T
1 ATTTTGAATTTTTGA-AAATT
44367459 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
44367479 ATTTTGA
1 ATTTTGA
44367486 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:44367864 original size:23 final size:22
Alignment explanation
Indices: 44367825--44367879 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 22
44367815 ACTTTCCAAA
*
44367825 TCAATCTTTAAAACTAAATTAAC
1 TCAATC-TCAAAACTAAATTAAC
44367848 TCAATCTCAAAATCTAAATTAAC
1 TCAATCTCAAAA-CTAAATTAAC
44367871 TCAATCTCA
1 TCAATCTCA
44367880 CATCTCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (22 bp):
TCAATCTCAAAACTAAATTAAC
Found at i:44369882 original size:38 final size:38
Alignment explanation
Indices: 44369818--44369911 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 38
44369808 TCAAACATGT
44369818 ACTAGGCC-ATAGCCCTTTTCATATTTCATATTTCATAAC
1 ACTAGGCCGA-AG-CCTTTTCATATTTCATATTTCATAAC
* * **
44369857 ACTGGGCTGAAGCCTTTTCATATTTCATATTTCATATT
1 ACTAGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
44369895 ACTAGGCCGAAGCCTTT
1 ACTAGGCCGAAGCCTTT
44369912 ACTATAAACG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 39 0.81
39 8 0.17
40 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (38 bp):
ACTAGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
Found at i:44370158 original size:24 final size:24
Alignment explanation
Indices: 44370105--44370274 Score: 211
Period size: 25 Copynumber: 7.0 Consensus size: 24
44370095 GCTTTATCAT
*
44370105 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
44370129 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
44370154 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
44370179 GTAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
44370204 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
44370229 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
44370252 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44370275 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.15
24 34 0.26
25 76 0.58
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:44370346 original size:9 final size:9
Alignment explanation
Indices: 44370332--44370377 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
44370322 ATCTCATGTG
44370332 CATATCATA
1 CATATCATA
44370341 CATATCATA
1 CATATCATA
* *
44370350 CATGTCATGTG
1 CATATCA--TA
44370361 CATATCATA
1 CATATCATA
44370370 CATATCAT
1 CATATCAT
44370378 GTTTATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 24 0.77
11 7 0.23
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44370348 original size:20 final size:20
Alignment explanation
Indices: 44370341--44370379 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44370331 GCATATCATA
*
44370341 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTG
44370361 CATATCATACATATCATGT
1 CATATCATACATATCATGT
44370380 TTATCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
CATATCATACATATCATGTG
Found at i:44370362 original size:29 final size:29
Alignment explanation
Indices: 44370320--44370377 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44370310 GCATTTATGA
44370320 ACATCTCATGTGCATATCATACATATCAT
1 ACATCTCATGTGCATATCATACATATCAT
*
44370349 ACATGTCATGTGCATATCATACATATCAT
1 ACATCTCATGTGCATATCATACATATCAT
44370378 GTTTATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (29 bp):
ACATCTCATGTGCATATCATACATATCAT
Found at i:44374748 original size:43 final size:43
Alignment explanation
Indices: 44374698--44374831 Score: 178
Period size: 43 Copynumber: 3.1 Consensus size: 43
44374688 TGCTAGGCTT
44374698 GAAGCCCAATATCATTTCACCGGCATTATAGCCTACTAGGCCC
1 GAAGCCCAATATCATTTCACCGGCATTATAGCCTACTAGGCCC
* * * * *
44374741 GAGGCCCAATATTATCTCACCAGCATTATAGCCTGCTAGGCCC
1 GAAGCCCAATATCATTTCACCGGCATTATAGCCTACTAGGCCC
* * * *
44374784 GAAGCCCGATATCATTTCACTGACATTATAGCCTTCTAGGCCC
1 GAAGCCCAATATCATTTCACCGGCATTATAGCCTACTAGGCCC
*
44374827 AAAGC
1 GAAGC
44374832 TCGTATATCA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
GAAGCCCAATATCATTTCACCGGCATTATAGCCTACTAGGCCC
Found at i:44376075 original size:31 final size:31
Alignment explanation
Indices: 44376037--44376100 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
44376027 AGGTATTAAG
44376037 TAGAAAATAAAAACATTATTAGCATGCATGC
1 TAGAAAATAAAAACATTATTAGCATGCATGC
44376068 TAGAAAATAAAAACATTATTAGCATGCATGC
1 TAGAAAATAAAAACATTATTAGCATGCATGC
44376099 TA
1 TA
44376101 TCTACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (31 bp):
TAGAAAATAAAAACATTATTAGCATGCATGC
Found at i:44379152 original size:15 final size:15
Alignment explanation
Indices: 44379132--44379162 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44379122 AAAAAAATTT
44379132 CCTTGTACATGAGCA
1 CCTTGTACATGAGCA
44379147 CCTTGTACATGAGCA
1 CCTTGTACATGAGCA
44379162 C
1 C
44379163 AAAGATCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (15 bp):
CCTTGTACATGAGCA
Found at i:44382990 original size:27 final size:27
Alignment explanation
Indices: 44382960--44383137 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44382950 ATATTGAGTC
* * * *
44382960 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44382987 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
44383014 CGCACACTTAGTGCTACATAGTCGAACT
1 CGCACACTTAGTGCTACATAGTC-AAAT
** * *
44383042 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44383069 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44383096 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44383123 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44383138 GTACAATTCA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44383099 original size:82 final size:81
Alignment explanation
Indices: 44382981--44383136 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44382971 TGCTATATAA
* * *
44382981 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCGAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AAATCGCA
44383046 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44383063 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44383127 CACTTAGTGC
65 CACTTAGTGC
44383137 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44383149 original size:82 final size:83
Alignment explanation
Indices: 44382960--44383149 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
44382950 ATATTGAGTC
* * * * *
44382960 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
* *
44383024 GTGCTACATAGTCGAACT
66 GTGCAACATAGTCGAAAT
* * **
44383042 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
44383103 TTAGTGCAACATAGTC-AAAT
63 TTAGTGCAACATAGTCGAAAT
44383123 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
44383150 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 19 0.21
82 66 0.74
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCGAAAT
Found at i:44391095 original size:27 final size:27
Alignment explanation
Indices: 44391065--44391242 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44391055 ATATTGAGTC
* * * *
44391065 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44391092 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
44391119 CGCACACTTAGTGCTACATAGTCGAACT
1 CGCACACTTAGTGCTACATAGTC-AAAT
** * *
44391147 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44391174 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44391201 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44391228 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44391243 GTACAATTCA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44391204 original size:82 final size:81
Alignment explanation
Indices: 44391086--44391241 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44391076 TGCTATATAA
* * *
44391086 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCGAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AAATCGCA
44391151 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44391168 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44391232 CACTTAGTGC
65 CACTTAGTGC
44391242 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44391254 original size:82 final size:83
Alignment explanation
Indices: 44391065--44391267 Score: 220
Period size: 82 Copynumber: 2.5 Consensus size: 83
44391055 ATATTGAGTC
* * * * *
44391065 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
* *
44391129 GTGCTACATAGTCGAACT
66 GTGCAACATAGTCGAAAT
* * **
44391147 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
44391208 TTAGTGCAACATAGTC-AAAT
63 TTAGTGCAACATAGTCGAAAT
*
44391228 CGCACACTTAGTGCTGTACAATTCAATCCCGCACACTTAG
1 CGCACACTTAGTGCTGTACAATTCAAT-TCGCACACTTAG
44391268 CGCCAATCTC
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 19 0.19
82 66 0.66
83 12 0.12
84 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCGAAAT
Found at i:44391255 original size:27 final size:25
Alignment explanation
Indices: 44391065--44391267 Score: 124
Period size: 27 Copynumber: 7.4 Consensus size: 25
44391055 ATATTGAGTC
* * *
44391065 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACA-ATTCAA-T
44391092 CGCACACTTAGTGCTACGTAA-TCAAAT
1 CGCACACTTAGTGCTAC--AATTC-AAT
*
44391119 CGCACACTTAGTGCTACATAGTCGAACT
1 CGCACACTTAGTGCTACA-ATTC-AA-T
**
44391147 CGCACACTTAGTGCCGC-ATGGTCAATT
1 CGCACACTTAGTGCTACAAT--TCAA-T
*
44391174 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CA-ATTCA-AT
* *
44391201 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACA-ATTC-AAT
44391228 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGC--TACAATTCAAT
44391255 CCCGCACACTTAG
1 --CGCACACTTAG
44391268 CGCCAATCTC
Statistics
Matches: 145, Mismatches: 13, Indels: 34
0.76 0.07 0.18
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 99 0.68
28 26 0.18
29 17 0.12
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
CGCACACTTAGTGCTACAATTCAAT
Found at i:44398007 original size:36 final size:36
Alignment explanation
Indices: 44397967--44398042 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
44397957 GTCGGTATCG
44397967 CTTGTAAAACTACTTTGATAAGTATCTCCTTTCCAC
1 CTTGTAAAACTACTTTGATAAGTATCTCCTTTCCAC
*
44398003 CTTGTAAAACTACTTTGATAAGTATCTCTTTTCCAC
1 CTTGTAAAACTACTTTGATAAGTATCTCCTTTCCAC
44398039 CTTG
1 CTTG
44398043 AGATACTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (36 bp):
CTTGTAAAACTACTTTGATAAGTATCTCCTTTCCAC
Found at i:44415177 original size:27 final size:27
Alignment explanation
Indices: 44415147--44415208 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
44415137 AGCCTATCAA
* * *
44415147 GAAAGTAAAAATAGGGTAGTCCATTGG
1 GAAAATAAAAATAGAGTAATCCATTGG
* *
44415174 GAAAATAAACATAGAGTAATTCATTGG
1 GAAAATAAAAATAGAGTAATCCATTGG
*
44415201 GACAATAA
1 GAAAATAA
44415209 TCACGAGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAAATAAAAATAGAGTAATCCATTGG
Found at i:44420714 original size:17 final size:17
Alignment explanation
Indices: 44420692--44420725 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44420682 ATTGGAGGAC
44420692 TCTCATTCTAGTCTTTG
1 TCTCATTCTAGTCTTTG
44420709 TCTCATTCTAGTCTTTG
1 TCTCATTCTAGTCTTTG
44420726 GTGACCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.53
Consensus pattern (17 bp):
TCTCATTCTAGTCTTTG
Found at i:44423095 original size:46 final size:46
Alignment explanation
Indices: 44423045--44423220 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
44423035 TGGTTGAGCA
*
44423045 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44423091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
44423136 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44423184 CCCGAGCTCGTTGAGTTGAGCCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44423221 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44423201 original size:93 final size:93
Alignment explanation
Indices: 44423042--44423213 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44423032 GGATGGTTGA
* * *
44423042 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
44423107 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* *
44423135 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44423200 TGAGCCCGAGTTCG
66 TGAGCCCGAGTTCG
44423214 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:44432080 original size:23 final size:22
Alignment explanation
Indices: 44432028--44432080 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
44432018 TCCACGTCTT
*
44432028 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
44432050 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
44432073 TTTCTTTT
1 TTTCTTTT
44432081 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:44440063 original size:25 final size:25
Alignment explanation
Indices: 44440034--44440083 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
44440024 GCCACAAAAG
44440034 TGACTCTTCATTAATTGTCAACCTA
1 TGACTCTTCATTAATTGTCAACCTA
44440059 TGACTCTTCATTAATTGTCAACCTA
1 TGACTCTTCATTAATTGTCAACCTA
44440084 AACTTTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (25 bp):
TGACTCTTCATTAATTGTCAACCTA
Found at i:44442584 original size:46 final size:49
Alignment explanation
Indices: 44442478--44442599 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
44442468 TGTCTTCGAC
* * *
44442478 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * * *
44442528 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
44442574 ATGGACTTACATGACTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
44442600 CTGTCCTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 26 0.42
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:44444022 original size:13 final size:13
Alignment explanation
Indices: 44444004--44444033 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44443994 AAACATATTT
44444004 AAAACATAACTTG
1 AAAACATAACTTG
*
44444017 AAAACATATCTTG
1 AAAACATAACTTG
44444030 AAAA
1 AAAA
44444034 TAGAGTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:44449138 original size:28 final size:28
Alignment explanation
Indices: 44449072--44449199 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
44449062 CATGAGATTG
* * **
44449072 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
44449101 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44449129 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
44449158 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44449186 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
44449200 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44449161 original size:57 final size:57
Alignment explanation
Indices: 44449072--44449199 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
44449062 CATGAGATTG
*
44449072 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
44449129 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
44449186 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
44449200 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:44454968 original size:25 final size:28
Alignment explanation
Indices: 44454918--44454969 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
44454908 CAATATTTTT
*
44454918 GTATGAAAATTGATATGATAGGAAAATC
1 GTATGAAAATTGATATGATAGAAAAATC
44454946 GTATGAAAA-T-AT-TGATAGAAAAAT
1 GTATGAAAATTGATATGATAGAAAAAT
44454970 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.02, G:0.19, T:0.29
Consensus pattern (28 bp):
GTATGAAAATTGATATGATAGAAAAATC
Found at i:44455490 original size:11 final size:10
Alignment explanation
Indices: 44455347--44455501 Score: 60
Period size: 10 Copynumber: 15.9 Consensus size: 10
44455337 TAAAATATTT
*
44455347 AAAAATTATT
1 AAAAATTATA
*
44455357 AAAAATTA-G
1 AAAAATTATA
44455366 AAAAATATATA
1 AAAAAT-TATA
**
44455377 TAAAAATCGTA
1 -AAAAATTATA
*
44455388 AAAAA-TATG
1 AAAAATTATA
*
44455397 AAATA-TAT-
1 AAAAATTATA
*
44455405 AAAAATATAGA
1 AAAAAT-TATA
44455416 AATAAATTATA
1 AA-AAATTATA
**
44455427 AAATTTTATA
1 AAAAATTATA
* **
44455437 GAAACGTA-A
1 AAAAATTATA
*
44455446 GAAAATTATA
1 AAAAATTATA
44455456 AAAAATGTA-A
1 AAAAAT-TATA
*
44455466 AGAAA-TAT-
1 AAAAATTATA
44455474 -AAAATTCATA
1 AAAAATT-ATA
44455484 AAAAATTAT-
1 AAAAATTATA
44455493 AAAAATTAT
1 AAAAATTAT
44455502 GGTATCAAAA
Statistics
Matches: 109, Mismatches: 22, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
7 3 0.03
8 7 0.06
9 32 0.29
10 40 0.37
11 17 0.16
12 10 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:44462803 original size:54 final size:54
Alignment explanation
Indices: 44462741--44462850 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
44462731 GAAAACTGAG
*
44462741 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAATTATAAT
1 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
* * **
44462795 TTAGTTTATTTTAGGTTTTAGCTATAGTGTTCATGCATTGCATCTAACTATAAT
1 TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
44462849 TT
1 TT
44462851 TCATTTTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (54 bp):
TTAGTTTATTTTAAGTTTTAGCTATAGTCTTCACACATTGCATCTAACTATAAT
Found at i:44466102 original size:104 final size:104
Alignment explanation
Indices: 44465882--44466102 Score: 316
Period size: 104 Copynumber: 2.1 Consensus size: 104
44465872 TTATTTTCCA
** * * * * *
44465882 TTATTAAGGCTTGCTGATTTAAGATCGCAGCCTCCAATTATTTGAGTTAGCTGATTTAATATCGC
1 TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
* *
44465947 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTGATT
66 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
* * **
44465986 TTACTAACGCTCACTGATTTAAGATCCCAACCTCTGATTATTTGAGTTAGCTAATTTAAGATCAC
1 TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
*
44466051 AACTCCTAACAGCTCGCTGACCTACGTTCACAGCTAATG
66 AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
44466090 TTATTAAGGCTCA
1 TTATTAAGGCTCA
44466103 TTGACCTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (104 bp):
TTATTAAGGCTCACTGATTTAAGATCCCAACCTCCAATTATTTGAGTTAGCTAATTTAAGATCAC
AACTCCTAACAGCTCGCTGACCTACGTTCACAACTAATG
Found at i:44466117 original size:36 final size:36
Alignment explanation
Indices: 44466068--44466142 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
44466058 AACAGCTCGC
*
44466068 TGACCTACGTTCACAGCTAATGTTATTAAGGCTCAT
1 TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
* * *
44466104 TGACCTACATTCACTGCTGATTTTATTAAGGCTCAT
1 TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
44466140 TGA
1 TGA
44466143 TTTAAGAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (36 bp):
TGACCTACATTCACAGCTAATGTTATTAAGGCTCAT
Found at i:44466157 original size:140 final size:140
Alignment explanation
Indices: 44465964--44466242 Score: 398
Period size: 140 Copynumber: 2.0 Consensus size: 140
44465954 AACAGCTCGC
* * *
44465964 TGACCTACGTTCACAACTGATTTTACTAACGCTCACTGATTTAAGATCCCAACC-TCTGATTATT
1 TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTC-GATTATT
* *
44466028 TGAGTTAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTAATGTTA
65 TGAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTA
*
44466093 TTAAGGCTCAT
130 CTAAGGCTCAT
** * * *
44466104 TGACCTACATTCACTGCTGATTTTATTAAGGCTCATTGATTTAAGAACACAACCTTCGATTATTT
1 TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTCGATTATTT
* * * * *
44466169 GAGATAGCTGATTTAAGATCGCAACTCCTAACAGCTCGCTAACTTACGTTCATAGCTAATTTTAC
66 GAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTAC
44466234 TAAGGCTCA
131 TAAGGCTCA
44466243 CTGATTTAAG
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
140 120 0.98
141 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (140 bp):
TGACCTACATTCACAACTGATTTTACTAACGCTCACTGATTTAAGAACACAACCTTCGATTATTT
GAGATAGCTAATTTAAGATCACAACTCCTAACAGCTCGCTAACCTACGTTCACAGCTAATGTTAC
TAAGGCTCAT
Found at i:44466553 original size:18 final size:18
Alignment explanation
Indices: 44466530--44466564 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44466520 TGGCCGTATG
*
44466530 GCTAGGCTGTGTGACATA
1 GCTAGGCTGTGTAACATA
*
44466548 GCTAGGTTGTGTAACAT
1 GCTAGGCTGTGTAACAT
44466565 TCAAACAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (18 bp):
GCTAGGCTGTGTAACATA
Found at i:44469487 original size:20 final size:20
Alignment explanation
Indices: 44469443--44469480 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
44469433 TATTATATAC
44469443 TTTTGAAGTCATTTTATAAT
1 TTTTGAAGTCATTTTATAAT
44469463 TTTTGAA-T-ATTTTATAAT
1 TTTTGAAGTCATTTTATAAT
44469481 AGTTTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTGAAGTCATTTTATAAT
Found at i:44469539 original size:31 final size:31
Alignment explanation
Indices: 44469469--44469539 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 31
44469459 TAATTTTTGA
* *
44469469 ATATTTTATAATAGTTTTGTATTTTTTGTTT
1 ATATTTTATAATAGTTTTGAATTTTTTATTT
44469500 ATAAATTTTAATAA-A-TTTTGAATTTTTATATTT
1 AT--ATTTT-ATAATAGTTTTGAATTTTT-TATTT
44469533 ATATTTT
1 ATATTTT
44469540 GAATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
31 7 0.21
32 11 0.32
33 12 0.35
34 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (31 bp):
ATATTTTATAATAGTTTTGAATTTTTTATTT
Found at i:44469546 original size:53 final size:48
Alignment explanation
Indices: 44469453--44469578 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 48
44469443 TTTTGAAGTC
* * **
44469453 ATTTTATAATTTTTGAATATTTTATAATAGTTTTGTATTTTTTGTTTAT
1 ATTTTATAAATTTTGAAT-TTTTATAATAGTTTTGAATTTTTTAATTAT
44469502 AAATTTTAATAAATTTTGAATTTTTATATTTATA-TTTTGAATTTTTTAATTAT
1 --ATTTT-ATAAATTTTGAATTTTTATA---ATAGTTTTGAATTTTTTAATTAT
*
44469555 ATTTGATAAATATTTGAATTTTTA
1 ATTTTATAAAT-TTTGAATTTTTA
44469579 GAATCAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
50 6 0.09
51 28 0.43
52 12 0.18
53 16 0.25
54 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (48 bp):
ATTTTATAAATTTTGAATTTTTATAATAGTTTTGAATTTTTTAATTAT
Found at i:44469554 original size:20 final size:20
Alignment explanation
Indices: 44469505--44469558 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
44469495 TGTTTATAAA
*
44469505 TTTTAA-TAAATTTTGAATT
1 TTTTAATTATATTTTGAATT
*
44469524 TTTATATTTATATTTTGAATT
1 TTT-TAATTATATTTTGAATT
44469545 TTTTAATTATATTT
1 TTTTAATTATATTT
44469559 GATAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 12 0.40
21 15 0.50
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTAATTATATTTTGAATT
Found at i:44472746 original size:76 final size:76
Alignment explanation
Indices: 44472665--44472807 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 76
44472655 GTGTATATTA
* *
44472665 ATATTAAAAA-GCAGACTCACTTGATTATATTTAGAACTTAATTTAAAAAT-ATGACCCACTTCA
1 ATATTAAAAATG-AGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGA-GACCCACTTCA
44472728 AATATAACTATAT
64 AATATAACTATAT
* * *
44472741 ATATTAAAAATGGGACTCACTTTATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTTAAA
1 ATATTAAAAATGAGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTCAAA
44472806 TA
66 TA
44472808 GTTAAAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
76 58 0.97
77 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (76 bp):
ATATTAAAAATGAGACTCACTTGATCATATTTAAAACTTAATTTAAAAATGAGACCCACTTCAAA
TATAACTATAT
Found at i:44472802 original size:39 final size:40
Alignment explanation
Indices: 44472662--44472803 Score: 113
Period size: 39 Copynumber: 3.7 Consensus size: 40
44472652 TTTGTGTATA
* * * *
44472662 TTAATATTAAAAA-GCAGACTCACTTGATTATATTTAGAAC
1 TTAATATTAAAAATG-AGACCCACTTTATCATATTTAAAAC
* *
44472702 TTAAT-TTAAAAAT-ATGACCCAC--T-TCA-A-ATATAAC
1 TTAATATTAAAAATGA-GACCCACTTTATCATATTTAAAAC
* *
44472736 TATATATATTAAAAATGGGACTCACTTTATCATATTTAAAAC
1 T-TA-ATATTAAAAATGAGACCCACTTTATCATATTTAAAAC
44472778 TTAAT-TTAAAAATGAGACCCACTTTA
1 TTAATATTAAAAATGAGACCCACTTTA
44472804 AATAGTTAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
34 6 0.08
35 3 0.04
36 4 0.05
37 14 0.17
38 1 0.01
39 33 0.41
40 10 0.12
41 3 0.04
42 6 0.08
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (40 bp):
TTAATATTAAAAATGAGACCCACTTTATCATATTTAAAAC
Found at i:44473492 original size:21 final size:22
Alignment explanation
Indices: 44473468--44473522 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
44473458 AAAAGGGGCC
44473468 TAAAACA-ACATCAAAACACAT
1 TAAAACACACATCAAAACACAT
** *
44473489 TAAAACATGC-TCAAAACATAT
1 TAAAACACACATCAAAACACAT
*
44473510 CAAAACACACATC
1 TAAAACACACATC
44473523 TTAAGTGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.56, C:0.25, G:0.02, T:0.16
Consensus pattern (22 bp):
TAAAACACACATCAAAACACAT
Found at i:44476210 original size:10 final size:9
Alignment explanation
Indices: 44476168--44476208 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
44476158 TGTTAAACCA
44476168 TTTTAAAAT
1 TTTTAAAAT
44476177 TTTT--AAT
1 TTTTAAAAT
*
44476184 TTTT-ATAT
1 TTTTAAAAT
44476192 TTTTAAAAT
1 TTTTAAAAT
44476201 TTTTAAAA
1 TTTTAAAA
44476209 ATAATTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.25
8 6 0.21
9 15 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:44478057 original size:49 final size:50
Alignment explanation
Indices: 44477970--44478101 Score: 142
Period size: 49 Copynumber: 2.6 Consensus size: 50
44477960 TATTGTGAGG
* * ** * * *
44477970 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TTGGT
1 TCAC-TGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAACTTCGA
*
44478020 TGCA-TGTGCAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGA
1 T-CACTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAACTTCGA
*
44478070 TCACGTGTGGAGTACTAAGTGCAGGCTACTAC
1 TCAC-TGTGCAGTACTAAGTGCAGGCTACTAC
44478102 GTGTATTAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 36 0.53
50 5 0.07
51 27 0.40
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
TCACTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAACTTCGA
Found at i:44478089 original size:51 final size:50
Alignment explanation
Indices: 44477970--44478150 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 50
44477960 TATTGTGAGG
* * ** * * *
44477970 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGT
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAATTCGA
*
44478020 TGCA--TGTGCAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGA
1 T-CACGTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAA-TTCGA
* ** *** ** * *
44478070 TCACGTGTGGAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGG
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAATTCGA
*
44478120 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTA
44478151 TGCATACCAG
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 36 0.34
50 38 0.36
51 33 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TCACGTGTGCAGTACTAAGTGCAGGCTACTACACGTACCCGATAATTCGA
Found at i:44507396 original size:32 final size:32
Alignment explanation
Indices: 44507360--44507424 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
44507350 TGTATGCATT
*
44507360 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGGTAATGGATGATGGGCA
44507392 TTAGCATTTTAATAGGTAATGGATGATGGGCA
1 TTAGCATTTTAATAGGTAATGGATGATGGGCA
44507424 T
1 T
44507425 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGGTAATGGATGATGGGCA
Found at i:44508932 original size:26 final size:26
Alignment explanation
Indices: 44508903--44508955 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
44508893 TTTACAATTT
44508903 TACCCCTAGGAGTTAAATT-ACCGAAA
1 TACCCCTAGG-GTTAAATTGACCGAAA
*
44508929 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGTTAAATTGACCGAAA
44508955 T
1 T
44508956 GCATGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGTTAAATTGACCGAAA
Found at i:44511501 original size:15 final size:15
Alignment explanation
Indices: 44511478--44511513 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44511468 TATATATGAA
* *
44511478 ATATGATATGATATT
1 ATATTATATCATATT
44511493 ATATTATATCATATT
1 ATATTATATCATATT
44511508 ATATTA
1 ATATTA
44511514 ATTTTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATTATATCATATT
Found at i:44511874 original size:19 final size:20
Alignment explanation
Indices: 44511836--44511880 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
44511826 ATTTAATATA
44511836 ACATTTTGTACTTAAATTTG
1 ACATTTTGTACTTAAATTTG
* *
44511856 ACATTTTTTTCTT-AATTTG
1 ACATTTTGTACTTAAATTTG
*
44511875 ATATTT
1 ACATTT
44511881 AATTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.58
Consensus pattern (20 bp):
ACATTTTGTACTTAAATTTG
Found at i:44511925 original size:25 final size:26
Alignment explanation
Indices: 44511869--44511932 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 26
44511859 TTTTTTTCTT
* * *
44511869 AATTTGATATTTAATTTTTTTGGGTTT
1 AATTTGATACTTAATTTTTTT-GATTC
44511896 AATTTGATACTTAATTTTTTT-ATTC
1 AATTTGATACTTAATTTTTTTGATTC
* *
44511921 GATTTGGTACTT
1 AATTTGATACTT
44511933 GTCAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 12 0.38
27 20 0.62
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.59
Consensus pattern (26 bp):
AATTTGATACTTAATTTTTTTGATTC
Found at i:44516672 original size:28 final size:28
Alignment explanation
Indices: 44516640--44516735 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
44516630 AATGGTGGAC
*
44516640 AGTGCAAGCCAAAGTGGTAGATAGTCCA
1 AGTGCAAGCCAAAGTGGTAGACAGTCCA
* *
44516668 AGTGCAAGCCAAAAAT-GTGGACAGTCCA
1 AGTGCAAGCC-AAAGTGGTAGACAGTCCA
* ** * *
44516696 TGTAAAAGCC-AAGTGGTAAACAATCCA
1 AGTGCAAGCCAAAGTGGTAGACAGTCCA
44516723 AGTGCAAGCCAAA
1 AGTGCAAGCCAAA
44516736 ATAGTGGACA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
26 3 0.06
27 16 0.31
28 29 0.56
29 4 0.08
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.16
Consensus pattern (28 bp):
AGTGCAAGCCAAAGTGGTAGACAGTCCA
Found at i:44520676 original size:23 final size:23
Alignment explanation
Indices: 44520646--44520758 Score: 115
Period size: 23 Copynumber: 5.0 Consensus size: 23
44520636 GGCTTTGCCA
* *
44520646 ATCAGGCACTTTATGCGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
*
44520669 ATCAGGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
*
44520692 TTCAAGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
44520715 TTCAAGCACCTCATGTGTC--AT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
44520736 TTTAGGCAC-TTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
44520758 A
1 A
44520759 CTGATCAAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.10
21 9 0.11
22 2 0.03
23 60 0.76
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (23 bp):
ATCAAGCACTTTATGTGTCGTAT
Found at i:44520731 original size:46 final size:44
Alignment explanation
Indices: 44520651--44520758 Score: 128
Period size: 46 Copynumber: 2.4 Consensus size: 44
44520641 TGCCAATCAG
* * * *
44520651 GCACTTTATGCGTCGTATATCAGGCACTTTATGTGTCGTATTTCAA
1 GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTC--ATTTCAA
* * *
44520697 GCACTTTATGTGTCGTATTTCAAGCACCTCATGTGTCATTTTAG
1 GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTCATTTCAA
44520741 GCAC-TTATGTGTCGTATA
1 GCACTTTATGTGTCGTATA
44520759 CTGATCAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 13 0.24
44 9 0.17
46 32 0.59
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (44 bp):
GCACTTTATGTGTCGTATATCAAGCACCTCATGTGTCATTTCAA
Found at i:44520953 original size:18 final size:19
Alignment explanation
Indices: 44520930--44520969 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
44520920 AATGAATTAT
*
44520930 AAATTGAAATGTGA-ATTG
1 AAATTGAAATATGAGATTG
*
44520948 AAATTGAGATATGAGATTG
1 AAATTGAAATATGAGATTG
44520967 AAA
1 AAA
44520970 GCTTGAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (19 bp):
AAATTGAAATATGAGATTG
Found at i:44521651 original size:22 final size:22
Alignment explanation
Indices: 44521625--44521693 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
44521615 TCTTTGATTA
*
44521625 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
44521647 TTAGCACATCT-GTGCTATCTGT
1 TTAGCACAT-TAGTGCTCTCTGT
* * *
44521669 ATAACACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
44521691 TTA
1 TTA
44521694 ATAGTGCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:44524925 original size:178 final size:178
Alignment explanation
Indices: 44524620--44524980 Score: 704
Period size: 178 Copynumber: 2.0 Consensus size: 178
44524610 GTTCTGTATC
44524620 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
1 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
*
44524685 AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTTGAATAATGT
66 AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
44524750 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
131 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
44524798 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
1 TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
*
44524863 AGTAAAAATTATAGATAATGTTACTTACCGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
66 AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
44524928 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
131 ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
44524976 TTGAG
1 TTGAG
44524981 CTATTTATGT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 181 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (178 bp):
TTGAGATAAAAATAATTAAGTGACTATGATGCCGATTGAAAGCTTGAGTATTCATATAAGTAAAT
AGTAAAAATTATAGATAATGTTACTTACAGGTGTGTTATATACTGATAATGCTCTAGAATAATGT
ATTTTTATGTATTAATCATGTGTTTATTCTGGGCTTGATCCTACTAAT
Found at i:44525253 original size:20 final size:20
Alignment explanation
Indices: 44525225--44525272 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44525215 ATTTTAGGAT
*
44525225 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
44525244 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
44525264 TTTATCTTT
1 TTTATCTTT
44525273 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:44528963 original size:15 final size:14
Alignment explanation
Indices: 44528943--44528989 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
44528933 GCAACCCAAT
44528943 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
44528958 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
*
44528971 TCTTATTATTTATTA
1 TTTTATT-TTTATTA
44528986 TTTT
1 TTTT
44528990 CAGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:44529895 original size:9 final size:9
Alignment explanation
Indices: 44529881--44529915 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
44529871 ATTGTATAAC
44529881 AAAAAGAAA
1 AAAAAGAAA
44529890 AAAAAGAAACA
1 AAAAAG-AA-A
44529901 AAAAAGAAA
1 AAAAAGAAA
44529910 AAAAAG
1 AAAAAG
44529916 TCATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:44533290 original size:10 final size:10
Alignment explanation
Indices: 44533275--44533302 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44533265 AGGATTTAAT
44533275 TTTAATTATC
1 TTTAATTATC
44533285 TTTAATTATC
1 TTTAATTATC
44533295 TTTAATTA
1 TTTAATTA
44533303 ATTGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATTATC
Found at i:44536997 original size:46 final size:44
Alignment explanation
Indices: 44536944--44537100 Score: 132
Period size: 46 Copynumber: 3.5 Consensus size: 44
44536934 TCATTTGTGT
*
44536944 GCTAGTGTAAGACATGTCTGGGACATACATTGGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-CA-TGGCCATATGATGAGA
*
44536990 GCTAGTGTAAGACCATGTCT-GG-CATCA--G-CAT-TGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATCATGGCCATAT--GATGAGA
*
44537031 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACAT-CAT-GGCCAT-ATGATG-AGA
* *
44537077 GCCAGTATAAGACATGTCTGGGAC
1 GCTAGTGTAAGACATGTCTGGGAC
44537101 GTGCATCGAC
Statistics
Matches: 92, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
39 1 0.01
40 10 0.11
41 20 0.22
42 3 0.03
43 2 0.02
44 2 0.02
45 3 0.03
46 42 0.46
47 9 0.10
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATCATGGCCATATGATGAGA
Found at i:44537106 original size:46 final size:44
Alignment explanation
Indices: 44537038--44537148 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
44537028 AGAGCTAGTG
*
44537038 TAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATC-GACTACAAGATGT--GCCAGTA
* * *
44537084 TAAGACATGTCTGGGACGTGCATCGACTACATGATGTGTCAGTA
1 TAAGACATGTCTGGGACATGCATCGACTACAAGATGTGCCAGTA
44537128 TAAGACCATGTCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
44537149 GAATTGGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 11 0.19
45 17 0.29
46 30 0.52
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGACTACAAGATGTGCCAGTA
Found at i:44539269 original size:27 final size:27
Alignment explanation
Indices: 44539084--44539395 Score: 271
Period size: 27 Copynumber: 11.6 Consensus size: 27
44539074 TTAGTTTACC
* *
44539084 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
44539110 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *
44539137 AAATTA-TCGAAATACCGTCGA-TTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
44539163 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44539190 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
44539217 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
44539244 AAATTACTGAAATATCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
44539271 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** **
44539298 AAATTACCCAAATATTCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
44539325 AAATTACCGAAATACCC-CTATATGGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* * **
44539352 GAATTACTGAAATACCCTTG-TAGGGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
*
44539379 GAATTACTGAAATACCC
1 AAATTACTGAAATACCC
44539396 CTGTAGGGTA
Statistics
Matches: 238, Mismatches: 36, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.01
26 42 0.18
27 185 0.78
28 8 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:44539277 original size:81 final size:81
Alignment explanation
Indices: 44539084--44539341 Score: 319
Period size: 81 Copynumber: 3.2 Consensus size: 81
44539074 TTAGTTTACC
* *
44539084 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTA-TCGA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACT-GA
* *
44539147 AATACCGTCGA-TTATA
65 AATACCCTCGATTTGTA
* * **
44539163 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC-AGTTTGCAAAATTACTG
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCGA-TTTATAAAATTACTG
44539226 AAATACCCTCGATTTGTA
64 AAATACCCTCGATTTGTA
* * **
44539244 AAATTACTGAAATATCCTTGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTGAA
**
44539309 ATATTCTCGATTTGTA
66 ATACCCTCGATTTGTA
*
44539325 AAATTACCGAAATACCC
1 AAATTACTGAAATACCC
44539342 CTATATGGTA
Statistics
Matches: 153, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
79 18 0.12
80 46 0.30
81 88 0.58
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTGAA
ATACCCTCGATTTGTA
Found at i:44539400 original size:27 final size:27
Alignment explanation
Indices: 44539326--44539736 Score: 554
Period size: 27 Copynumber: 15.3 Consensus size: 27
44539316 CGATTTGTAA
* *
44539326 AATTACCGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44539353 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44539380 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44539407 AATTACCGGAATACGCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44539434 AGTTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * **
44539461 AATTTCTGGAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44539488 AATTACTGAAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44539515 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44539542 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44539569 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44539596 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44539623 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
44539650 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
44539677 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
44539704 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
44539730 AATTACC
1 AATTACC
44539737 ATTTTGCCCC
Statistics
Matches: 340, Mismatches: 44, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 16 0.05
27 324 0.95
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:44540216 original size:6 final size:6
Alignment explanation
Indices: 44540144--44540269 Score: 53
Period size: 6 Copynumber: 20.3 Consensus size: 6
44540134 TTGCATTCAC
* * * * *
44540144 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTTTG AGTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
44540194 -TTACCTG ATACTG ATTCTA ATTCTG ATTCTG ATTCTG -TCACGTA ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG
*
44540244 ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
44540270 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.76
7 13 0.15
8 3 0.03
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:44546059 original size:43 final size:43
Alignment explanation
Indices: 44545985--44546108 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
44545975 TCTGAACTCA
* *
44545985 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
* * *
44546027 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
** *
44546070 CCCACCGGCAATATAGCCTGCTAGGCCTGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
44546109 ATATTATTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 12 0.17
43 59 0.83
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
Found at i:44548062 original size:14 final size:15
Alignment explanation
Indices: 44548033--44548062 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44548023 CAAAATTTAG
44548033 ACATGATACTTTCAC
1 ACATGATACTTTCAC
44548048 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
44548062 A
1 A
44548063 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:44552540 original size:41 final size:40
Alignment explanation
Indices: 44552440--44552542 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
44552430 CTTTTATCAA
* *
44552440 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGATTTTAAACCCGAACTC
** ** *
44552480 ATCACCGGCATAAAGCCTGCTAGATTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGATTTTAAACCCGAACTC
44552520 ATTCACCGGCATTTCA-CCTGCTA
1 A-TCACCGGCATTT-AGCCTGCTA
44552543 AGCTTGAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 34 0.65
41 17 0.33
42 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGATTTTAAACCCGAACTC
Found at i:44552594 original size:43 final size:43
Alignment explanation
Indices: 44552536--44552644 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
44552526 CGGCATTTCA
* ** *
44552536 CCTGCTAAGCTTGAAGCCCGATATCATTTCACCAGCATTATAG
1 CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
* * **
44552579 CCTGCTATGCCTGAAGCCCGATATTATCCCACTGGCAATATAG
1 CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
* *
44552622 CCTGCTAGGCCCGAAGCCCGATA
1 CCTGCTAAGCCTGAAGCCCGATA
44552645 ATATTATTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CCTGCTAAGCCTGAAGCCCGATATCATCCCACCAGCAATATAG
Found at i:44557582 original size:44 final size:44
Alignment explanation
Indices: 44557455--44557597 Score: 152
Period size: 44 Copynumber: 3.3 Consensus size: 44
44557445 GACGTTCCGA
* *
44557455 ACATGGTCTTACATGT-AAT-TCAGTATCGATGCCTCTGTCCCAG
1 ACATGGTCTTACACGTAAATCTCA-TATCGATGCCTATGTCCCAG
* * **
44557498 ACAGGGTCTTA-AC-AAAATCAGATAT-GATGCCTATGTCCCAG
1 ACATGGTCTTACACGTAAATCTCATATCGATGCCTATGTCCCAG
* * *
44557539 ACATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAG
1 ACATGGTCTTACACGTAAATCTCATATCGATGCCTATGTCCCAG
*
44557583 ACACGGTCTTACACG
1 ACATGGTCTTACACG
44557598 ATAGCTCAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
41 25 0.31
42 9 0.11
43 19 0.23
44 28 0.35
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
ACATGGTCTTACACGTAAATCTCATATCGATGCCTATGTCCCAG
Found at i:44560306 original size:17 final size:17
Alignment explanation
Indices: 44560284--44560317 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44560274 CTTTTGCTCC
44560284 CCCTGTTTCCTTTATAT
1 CCCTGTTTCCTTTATAT
44560301 CCCTGTTTCCTTTATAT
1 CCCTGTTTCCTTTATAT
44560318 GAAAATAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.06, T:0.53
Consensus pattern (17 bp):
CCCTGTTTCCTTTATAT
Found at i:44560784 original size:50 final size:50
Alignment explanation
Indices: 44560661--44560805 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
44560651 AGCCAAAGCT
* * * * * **
44560661 ATCTGGTACGCATAGTAGCCTACACTTAATACTACACATGCGACC-AATT
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
44560710 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
44560760 ATCTGATACGCGTAGTAGCCTGCACTTAGTACTACACGCGTGACCT
1 ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
44560806 CACAATAGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 38 0.46
50 44 0.54
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:44561847 original size:168 final size:168
Alignment explanation
Indices: 44561569--44561906 Score: 658
Period size: 168 Copynumber: 2.0 Consensus size: 168
44561559 AGCTTGGATG
44561569 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
1 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
*
44561634 ATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
66 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
44561699 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
131 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
*
44561737 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGTTAAACCGAGTCACCAAATT
1 TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
44561802 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
66 ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
44561867 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
131 TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
44561905 TG
1 TG
44561907 TGTGGCACTT
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (168 bp):
TGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATT
ATTTGAATATGATATTTATTGTCTAAAACATGTGAATATGAATGTGTGAAAGTTTTGAGCTTCGA
TTTAGTCGATTGCATGTGAAGTTAATTAATAGGACTTA
Found at i:44564146 original size:49 final size:49
Alignment explanation
Indices: 44564086--44564591 Score: 847
Period size: 49 Copynumber: 10.6 Consensus size: 49
44564076 CATAATTGTG
*
44564086 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44564133 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564180 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564229 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564276 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564325 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564374 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564421 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564470 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
44564519 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564566 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
44564592 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 12, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
47 192 0.44
48 3 0.01
49 242 0.55
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44564193 original size:96 final size:96
Alignment explanation
Indices: 44564086--44564591 Score: 853
Period size: 96 Copynumber: 5.3 Consensus size: 96
44564076 CATAATTGTG
*
44564086 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
44564149 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
44564180 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
44564245 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
44564276 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
44564341 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564374 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
44564437 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
44564470 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
44564535 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
44564566 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
44564592 TCCCGAAGGG
Statistics
Matches: 397, Mismatches: 9, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
94 15 0.04
95 3 0.01
96 285 0.72
98 94 0.24
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44564242 original size:145 final size:144
Alignment explanation
Indices: 44564086--44564591 Score: 872
Period size: 145 Copynumber: 3.5 Consensus size: 144
44564076 CATAATTGTG
* * *
44564086 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
*
44564150 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
44564215 GGCCGATGTGATGA
131 GGCCGATGTGATGA
44564229 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
44564294 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
44564359 TGGCCGATGTGATGA
130 TGGCCGATGTGATGA
44564374 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
44564439 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
44564504 TGGCCGATGTGATGA
130 TGGCCGATGTGATGA
* * * * * * * *
44564519 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
44564583 TGTGATAAG
66 TGTGATAAG
44564592 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
143 69 0.20
145 280 0.80
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (144 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGA
Found at i:44572159 original size:44 final size:43
Alignment explanation
Indices: 44572079--44572177 Score: 101
Period size: 44 Copynumber: 2.3 Consensus size: 43
44572069 GTTCCGGACG
* * * * *
44572079 TGGTCTTACATGTAATTCAGTATCGATGCCTATGTCCTAGACA
1 TGGTCTTACACGTAATTCAGAATCGAGGCCTATGTCCCAAACA
*
44572122 TGGTCTTACACGTAAATCTCA-AATCGAGGCCTGTGTCCCAAACA
1 TGGTCTTACACGT-AAT-TCAGAATCGAGGCCTATGTCCCAAACA
**
44572166 CAGTCTTACACG
1 TGGTCTTACACG
44572178 ATATCTTAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 12 0.26
44 31 0.67
45 3 0.07
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGTAATTCAGAATCGAGGCCTATGTCCCAAACA
Found at i:44575082 original size:47 final size:47
Alignment explanation
Indices: 44575010--44575142 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 47
44575000 TCATTTGTGT
44575010 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATACGAGA
* *
44575056 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CA-TTGATACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-ATACGAGA
* *
44575104 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
44575143 GATGTGTCAG
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
46 20 0.27
47 29 0.39
48 26 0.35
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATACGAGA
Found at i:44575198 original size:94 final size:93
Alignment explanation
Indices: 44575012--44575221 Score: 273
Period size: 94 Copynumber: 2.2 Consensus size: 93
44575002 ATTTGTGTGC
*
44575012 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCTA
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA-GAGAGCCAGTATAAGACCATGTCTA
*
44575077 GGACATGGCATCGGCATTGATACGAGAG-
65 GGACATGGCATCGGCATGGATACGAGAGT
* * * *
44575105 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-T-GATGTGTCAGTATAAGACCATGTTT
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA-GAGCCAGTATAAGACCATGTCT
* *
44575168 GGGACATGGCATCGGCATGGATATGTGAGAGT
64 AGGACATGGCATCGGCATGGATA--CGAGAGT
44575200 CAGTGTAAGACCATGTCTGGGA
1 CAGTGTAAGA-CATGTCTGGGA
44575222 TATGATGTCG
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
91 2 0.02
92 39 0.38
93 2 0.02
94 48 0.47
95 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGAGAGCCAGTATAAGACCATGTCTAG
GACATGGCATCGGCATGGATACGAGAGT
Found at i:44576850 original size:25 final size:25
Alignment explanation
Indices: 44576817--44576963 Score: 140
Period size: 25 Copynumber: 5.9 Consensus size: 25
44576807 GAGCATCTCA
* * *
44576817 ATAAATGGCTTTCTTGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
* ** *
44576842 TTGTTTGGCTCTGATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
44576867 ATAATTGGCTCTCATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
44576892 ATTAA-TGGCTCTCCA-GAGCTTCCCG
1 A-TAATTGGCTCT-CATGAGCTTCCCG
*
44576917 AT-ATTGGCTCGCATGAGCTTCCCG
1 ATAATTGGCTCTCATGAGCTTCCCG
* * *
44576941 TTACA-TGACTCACATGAGCTTCC
1 ATA-ATTGGCTCTCATGAGCTTCC
44576964 TGTTTCATGG
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.03
24 18 0.18
25 74 0.73
26 6 0.06
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
ATAATTGGCTCTCATGAGCTTCCCG
Found at i:44576876 original size:50 final size:48
Alignment explanation
Indices: 44576782--44576942 Score: 146
Period size: 50 Copynumber: 3.2 Consensus size: 48
44576772 CAGCACGCAA
* * * * * * * *
44576782 GAGCATCCCGTTATTTAGCTCTATTGAGCATCTCAATAAATGGCTTTCTT
1 GAGCTTCCCGTT-TTTGGCTCTA-TGAGCTTCCCGATAATTGGCTCTCAT
44576832 GAGCTTCCCGTTGTTTGGCTCTGATGAGCTTCCCGATAATTGGCTCTCAT
1 GAGCTTCCCGTT-TTTGGCTCT-ATGAGCTTCCCGATAATTGGCTCTCAT
** *
44576882 GAGCTTCCCGATTAATGGCTCTCCA-GAGCTTCCCGAT-ATTGGCTCGCAT
1 GAGCTTCCCG-TTTTTGGCTCT--ATGAGCTTCCCGATAATTGGCTCTCAT
44576931 GAGCTTCCCGTT
1 GAGCTTCCCGTT
44576943 ACATGACTCA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
48 2 0.02
49 21 0.22
50 68 0.72
51 4 0.04
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (48 bp):
GAGCTTCCCGTTTTTGGCTCTATGAGCTTCCCGATAATTGGCTCTCAT
Found at i:44576960 original size:49 final size:51
Alignment explanation
Indices: 44576855--44576963 Score: 154
Period size: 49 Copynumber: 2.2 Consensus size: 51
44576845 TTTGGCTCTG
* * *
44576855 ATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCC
1 ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
44576906 A-GAGCTTCCCGAT-ATTGGCTCGCATGAGCTTCCCG-TTACATGACTC-AC
1 ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTA-ATGACTCTAC
44576954 ATGAGCTTCC
1 ATGAGCTTCC
44576964 TGTTTCATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 5 0.09
49 35 0.66
50 12 0.23
51 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.29
Consensus pattern (51 bp):
ATGAGCTTCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATGACTCTAC
Found at i:44576972 original size:25 final size:25
Alignment explanation
Indices: 44576855--44576977 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 25
44576845 TTTGGCTCTG
* * *
44576855 ATGAGCTTCCCGATA-ATTGGCTCTC
1 ATGAGCTTCCCGTTACA-TGACTCAC
* *
44576880 ATGAGCTTCCCGATTA-ATGGCTCTCC
1 ATGAGCTTCCCG-TTACATGACTC-AC
* * * *
44576906 A-GAGCTTCCCGATA-TTGGCTCGC
1 ATGAGCTTCCCGTTACATGACTCAC
44576929 ATGAGCTTCCCGTTACATGACTCAC
1 ATGAGCTTCCCGTTACATGACTCAC
* * *
44576954 ATGAGCTTCCTGTTTCATGGCTCA
1 ATGAGCTTCCCGTTACATGACTCA
44576978 AAAAAGCTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.02
24 20 0.24
25 55 0.67
26 5 0.06
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGACTCAC
Found at i:44576986 original size:74 final size:74
Alignment explanation
Indices: 44576846--44576987 Score: 162
Period size: 74 Copynumber: 1.9 Consensus size: 74
44576836 TTCCCGTTGT
* * *** *
44576846 TTGGCTCTGATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTCCAGAGC
1 TTGGCTCTGATGAGCTTCCCGATAATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAAGC
44576911 TTCCCGATA
66 TTCCCGATA
* * * *
44576920 TTGGCTC-GCATGAGCTTCCCGTTACA-TGACTCACATGAGCTTCCTGTTTCATGGCTCAAAAAA
1 TTGGCTCTG-ATGAGCTTCCCGATA-ATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAA
44576983 GCTTC
64 GCTTC
44576988 ATGATTTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
73 1 0.02
74 54 0.96
75 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.31
Consensus pattern (74 bp):
TTGGCTCTGATGAGCTTCCCGATAATTGACTCACATGAGCTTCCCGATTAATGGCTCAAAAAAGC
TTCCCGATA
Found at i:44579032 original size:40 final size:40
Alignment explanation
Indices: 44578988--44579075 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
44578978 ATTGAGTTGT
44578988 TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
** *
44579028 TGGACTTTATTTTACTCATCTTAGTTAATTATTGATTTGC
1 TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
*
44579068 TAGACTTT
1 TGGACTTT
44579076 GTTTTTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (40 bp):
TGGACTTTATTAAACTCATCTTAGTTAATTATTGATTTCC
Found at i:44579385 original size:24 final size:22
Alignment explanation
Indices: 44579358--44579419 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
44579348 TGTTACATTT
44579358 CTTAAAGAAGAGCATTACTCATCA
1 CTTAAAGAAGAGCATTA--CATCA
*
44579382 CTT-AA-AAGAGCTGTTACATCA
1 CTTAAAGAAGAGC-ATTACATCA
* *
44579403 TTTAAAGGAGAGCATTA
1 CTTAAAGAAGAGCATTA
44579420 TATATCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 7 0.23
22 11 0.35
23 10 0.32
24 3 0.10
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (22 bp):
CTTAAAGAAGAGCATTACATCA
Found at i:44587106 original size:43 final size:43
Alignment explanation
Indices: 44587059--44587141 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
44587049 GAAATTATAA
*
44587059 ATCCGAACTTGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
1 ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
* * * **
44587102 ATCCGAGCTCGTTGAGTGGTCTGAGTTTGTTATGGATGTG
1 ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTG
44587142 TTACATGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTGGTCCGACTTCATTATGGATGTGAGC
Found at i:44591335 original size:25 final size:25
Alignment explanation
Indices: 44591307--44591449 Score: 98
Period size: 25 Copynumber: 5.8 Consensus size: 25
44591297 TCCCAATATA
* * *
44591307 TGGCTCTCTTGAGCTTCCTGTTATT
1 TGGCTCTCTTGAGCTTCCCGATAAT
*
44591332 TGGCTCT-TACGAGCTTCCCGATAAT
1 TGGCTCTCT-TGAGCTTCCCGATAAT
*
44591357 TGGCTCTCATGAGCTTCCCGATTAA-
1 TGGCTCTCTTGAGCTTCCCGA-TAAT
***
44591382 TGGCTCTAAAGAGCTTTCCCGAT-AT
1 TGGCTCTCTTGAGC-TTCCCGATAAT
* * * *
44591407 TGGCTCACATGAGCTTCCTGTTAA-
1 TGGCTCTCTTGAGCTTCCCGATAAT
*
44591431 CGGCTCT-TATGAGCTTCCC
1 TGGCTCTCT-TGAGCTTCCC
44591450 ATTACATGGC
Statistics
Matches: 94, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
24 22 0.23
25 62 0.66
26 10 0.11
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.35
Consensus pattern (25 bp):
TGGCTCTCTTGAGCTTCCCGATAAT
Found at i:44591370 original size:50 final size:48
Alignment explanation
Indices: 44591297--44591449 Score: 180
Period size: 50 Copynumber: 3.1 Consensus size: 48
44591287 CTTATGAGAA
* * * *
44591297 TCCCAATATATGGCTCTCTTGAGCTTCCTGTTATTTGGCTCTTACGAGCT
1 TCCCGATAT-TGGCTCTCATGAGCTTCCTGTTA-ATGGCTCTTAAGAGCT
* *
44591347 TCCCGATAATTGGCTCTCATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
1 TCCCGAT-ATTGGCTCTCATGAGCTTCCTG-TTAATGGCTCTTAAGAGC-T
* * *
44591398 TCCCGATATTGGCTCACATGAGCTTCCTGTTAACGGCTCTTATGAGCT
1 TCCCGATATTGGCTCTCATGAGCTTCCTGTTAATGGCTCTTAAGAGCT
44591446 TCCC
1 TCCC
44591450 ATTACATGGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
48 5 0.06
49 15 0.17
50 56 0.63
51 13 0.15
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (48 bp):
TCCCGATATTGGCTCTCATGAGCTTCCTGTTAATGGCTCTTAAGAGCT
Found at i:44591435 original size:24 final size:25
Alignment explanation
Indices: 44591408--44591474 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
44591398 TCCCGATATT
**
44591408 GGCTCACATGAGCTTCCTGTTA-AC
1 GGCTCACATGAGCTTCCCATTACAC
** *
44591432 GGCTCTTATGAGCTTCCCATTACAT
1 GGCTCACATGAGCTTCCCATTACAC
*
44591457 GGCCCACATGAGCTTCCC
1 GGCTCACATGAGCTTCCC
44591475 GTTTCATGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.28
Consensus pattern (25 bp):
GGCTCACATGAGCTTCCCATTACAC
Found at i:44591470 original size:99 final size:101
Alignment explanation
Indices: 44591297--44591485 Score: 242
Period size: 99 Copynumber: 1.9 Consensus size: 101
44591287 CTTATGAGAA
* * ** *
44591297 TCCCAATATATGGCTCTCTTGAGCTTCCTGTTATTTGGCTCTTACGAGCTTCCCGATAATTGGCT
1 TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGATAATTGGCC
*
44591362 CTCATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
66 CACATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
* *
44591398 TCCCGATAT-TGGCTCACATGAGCTTCCTGTTA-ACGGCTCTTATGAGCTTCCC-ATTACA-TGG
1 TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGA-TA-ATTGG
* *
44591459 CCCACATGAGCTTCCCGTTTCATGGCT
64 CCCACATGAGCTTCCCGATTAATGGCT
44591486 TGAAAAAGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
98 1 0.01
99 45 0.59
100 22 0.29
101 8 0.11
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (101 bp):
TCCCAATATATGGCTCACATGAGCTTCCTGTTATACGGCTCTTACGAGCTTCCCGATAATTGGCC
CACATGAGCTTCCCGATTAATGGCTCTAAAGAGCTT
Done.