Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 133 of 284
Found at i:44380569 original size:30 final size:31
Alignment explanation
Indices: 44380516--44380575 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
44380506 AAAAATAAAA
*
44380516 TGAGATTGAAAAAGAGAACG-AAAAGAAATC
1 TGAGAGTGAAAAAGAGAACGAAAAAGAAATC
*
44380546 TGAGAGTGAAAAAGA-AGATGAAAAAGAAAT
1 TGAGAGTGAAAAAGAGA-ACGAAAAAGAAAT
44380576 TGAAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 16 0.62
31 9 0.35
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.13
Consensus pattern (31 bp):
TGAGAGTGAAAAAGAGAACGAAAAAGAAATC
Found at i:44388547 original size:40 final size:40
Alignment explanation
Indices: 44388502--44388693 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
44388492 ATAACCACAA
* * *
44388502 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
44388542 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
44388582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
44388622 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
44388662 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
44388694 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:44388586 original size:80 final size:80
Alignment explanation
Indices: 44388473--44388692 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
44388463 ACCCAAGTTT
* * * * * * * * *
44388473 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
44388536 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
44388552 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
44388616 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
44388632 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
44388693 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:44402625 original size:29 final size:29
Alignment explanation
Indices: 44402586--44402644 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44402576 TATGAATTAC
44402586 AACATTATTGCAGTATTATTATCATAACA
1 AACATTATTGCAGTATTATTATCATAACA
44402615 AACATTATTGCAGTATTATTATCATAACA
1 AACATTATTGCAGTATTATTATCATAACA
44402644 A
1 A
44402645 CTTACCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (29 bp):
AACATTATTGCAGTATTATTATCATAACA
Found at i:44409712 original size:42 final size:42
Alignment explanation
Indices: 44409600--44409722 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 42
44409590 TACCATACCA
* * * *
44409600 ATGCCATATCCCATA-TATGGTCTTACATGTAA-TCCCGTATCG
1 ATGCCATAACCCA-AGTATGGTCTTACACG-AAGTCTCATATCG
** *
44409642 ATGCCAATAAATC-AGCTATGGCCTTACACGAAGTCTCATATCG
1 ATGCC-ATAACCCAAG-TATGGTCTTACACGAAGTCTCATATCG
*
44409685 ATGCCATAACCCAAGTATGGTCTTACACGTAGTCTCAT
1 ATGCCATAACCCAAGTATGGTCTTACACGAAGTCTCAT
44409723 TAACCCTAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 33 0.51
43 31 0.48
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATAACCCAAGTATGGTCTTACACGAAGTCTCATATCG
Found at i:44413512 original size:22 final size:22
Alignment explanation
Indices: 44413487--44413532 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
44413477 GTAAAGGATA
44413487 CTTGTTCTTTATAGTTACCTTG
1 CTTGTTCTTTATAGTTACCTTG
44413509 CTTGTTCTTTATAGTTACCTTG
1 CTTGTTCTTTATAGTTACCTTG
44413531 CT
1 CT
44413533 GAGCAGTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.54
Consensus pattern (22 bp):
CTTGTTCTTTATAGTTACCTTG
Found at i:44417041 original size:42 final size:42
Alignment explanation
Indices: 44416930--44417041 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
44416920 TACCATACCA
* *
44416930 ATGCCATATCCCAGATATGATCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAAATATGATCTTACATGTAATCTCATATCG
* * * *
44416972 ATGTCAATAGCCCAACTATGGTCTTACATG-AAGTCTCATATCG
1 ATG-CCATATCCCAAATATGATCTTACATGTAA-TCTCATATCG
*
44417015 ATGCCATATCCCAAATATGTTCTTACA
1 ATGCCATATCCCAAATATGATCTTACA
44417042 CATAGTCTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGATCTTACATGTAATCTCATATCG
Found at i:44421638 original size:14 final size:15
Alignment explanation
Indices: 44421621--44421651 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44421611 AATTCTTTCA
44421621 ATTCTATA-GGAGCT
1 ATTCTATACGGAGCT
44421635 ATTCTATACGGAGCT
1 ATTCTATACGGAGCT
44421650 AT
1 AT
44421652 AGATATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (15 bp):
ATTCTATACGGAGCT
Found at i:44425961 original size:27 final size:27
Alignment explanation
Indices: 44425931--44425999 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
44425921 TAAATTGTAC
* *
44425931 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
44425958 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTACAT
*
44425985 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44426000 GACTCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTACAT
Found at i:44430666 original size:48 final size:47
Alignment explanation
Indices: 44430595--44430689 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 47
44430585 AAAACACTCT
44430595 TTCGTCGATATCAAACTCAATATCTTTTCTTTTCAGATCCGTATAAG
1 TTCGTCGATATCAAACTCAATATCTTTTCTTTTCAGATCCGTATAAG
44430642 NTTCGTCGATATCAAACTCAATATCTTTTCTTTTCAGATCCGTATAAG
1 -TTCGTCGATATCAAACTCAATATCTTTTCTTTTCAGATCCGTATAAG
44430690 AGTTCTGACG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (47 bp):
TTCGTCGATATCAAACTCAATATCTTTTCTTTTCAGATCCGTATAAG
Found at i:44433499 original size:39 final size:39
Alignment explanation
Indices: 44433445--44433611 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
44433435 TTCAGTGATG
*
44433445 ATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
*
44433484 ATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
* *
44433523 ATTATATCCAGACTTAAGGTCTGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
* * *
44433562 ATTATAACCAGACTTAAGGTCCACAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
* *
44433601 AATATGTCCGG
1 ATTATATCCGG
44433612 GCTAAAATCC
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGA
Found at i:44433638 original size:78 final size:78
Alignment explanation
Indices: 44433464--44433676 Score: 200
Period size: 78 Copynumber: 2.7 Consensus size: 78
44433454 GGACTTAGGG
* * * * * *
44433464 TCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATA
1 TCCGCAGGCTATGAGCTGGAATTATAACCAGACTTAAGGTCCACAGGCTATGTGCTGGAAATATA
**
44433529 TCCAGACTTAAGG
66 TCCAGACTTAAAA
* * *
44433542 TCTGCAGGCTATGTGCTGGAATTATAACCAGACTTAAGGTCCACAGGCTATGTGCTGGAAATATG
1 TCCGCAGGCTATGAGCTGGAATTATAACCAGACTTAAGGTCCACAGGCTATGTGCTGGAAATATA
* *
44433607 TCCGGGC-TAAAA
66 TCCAGACTTAAAA
* * ** **
44433619 TCCCGTAGGCT-TCGAGCTGGTATTAT-ACCAGGTTTAAATTTCCACAGGCT-TGTGCTGG
1 T-CCGCAGGCTAT-GAGCTGGAATTATAACCAGACTT-AAGGTCCACAGGCTATGTGCTGG
44433677 TAATTAGTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 20 0.18
78 93 0.82
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (78 bp):
TCCGCAGGCTATGAGCTGGAATTATAACCAGACTTAAGGTCCACAGGCTATGTGCTGGAAATATA
TCCAGACTTAAAA
Found at i:44442743 original size:18 final size:18
Alignment explanation
Indices: 44442720--44442762 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
44442710 TTTGCATATG
44442720 GCTTACTAAGCTCTTAAA
1 GCTTACTAAGCTCTTAAA
*
44442738 GCTTACTAAGCTTTTAAA
1 GCTTACTAAGCTCTTAAA
44442756 GCTTACT
1 GCTTACT
44442763 TTATGTGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (18 bp):
GCTTACTAAGCTCTTAAA
Found at i:44450958 original size:19 final size:21
Alignment explanation
Indices: 44450934--44450973 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44450924 AAATAGTTGA
44450934 TGATTG-A-TGGCATGTTTTG
1 TGATTGAATTGGCATGTTTTG
44450953 TGATTGAATTGGCATGTTTTG
1 TGATTGAATTGGCATGTTTTG
44450974 GTTGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.17, C:0.05, G:0.30, T:0.47
Consensus pattern (21 bp):
TGATTGAATTGGCATGTTTTG
Found at i:44454930 original size:48 final size:48
Alignment explanation
Indices: 44454810--44454946 Score: 163
Period size: 48 Copynumber: 2.8 Consensus size: 48
44454800 AAGAGATTTC
* *
44454810 GTGTAAGACCATGTCTGGGACATGGCATTGGC-ATCCGAGATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATTGGCGAT--GATATATGTGCCA
* **
44454859 GTGTAA-AGCCATGTCTGGAACATGGCATCAGCGATGATATATGTGCCA
1 GTGTAAGA-CCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCA
*
44454907 -TCGTAAGACCAAGTCTGGGACATGGCATTGGCGATGATAT
1 GT-GTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
44454947 GTGGAATCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
48 44 0.59
49 28 0.37
50 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCA
Found at i:44457368 original size:23 final size:22
Alignment explanation
Indices: 44457338--44457381 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
44457328 TCTCAATTCA
*
44457338 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
44457360 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
44457382 ATATGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:44458128 original size:42 final size:43
Alignment explanation
Indices: 44458024--44458132 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
44458014 TATACAATGC
* * *
44458024 CAAC-GTCCCAGACGTGGTCTTACATGTAATCAAACATCGACG
1 CAACTGTCCCAGACATGGTCTTACACGAAATCAAACATCGACG
* *
44458066 CAACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT-GACG
1 CAACTGTCCCAGACATGGTCTTACACGAAATCAAACATCGACG
*
44458108 TCGA-TGTCCCAGACATGGTCTTACA
1 -CAACTGTCCCAGACATGGTCTTACA
44458133 TGTCAAACAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
CAACTGTCCCAGACATGGTCTTACACGAAATCAAACATCGACG
Found at i:44458733 original size:28 final size:28
Alignment explanation
Indices: 44458677--44458728 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
44458667 CATTTCATTT
* *
44458677 ATTTCACATTTTAGTCCCTTATTTACAA
1 ATTTCACAATTTAGTCCCATATTTACAA
44458705 ATTTCACAATTTAG-CCCAT-TTTAC
1 ATTTCACAATTTAGTCCCATATTTAC
44458729 TCAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 4 0.18
28 13 0.59
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTTCACAATTTAGTCCCATATTTACAA
Found at i:44462846 original size:40 final size:40
Alignment explanation
Indices: 44462772--44462992 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
44462762 AACCCAAGTA
* * * *
44462772 CCTTCAGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
44462811 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
44462851 CC-TCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
44462890 CCTTCGGGACTTAGCCTGGATATAATGAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
44462930 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
44462970 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
44462993 CATTCGAATA
Statistics
Matches: 160, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 46 0.29
40 111 0.69
41 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:44462975 original size:80 final size:80
Alignment explanation
Indices: 44462772--44462992 Score: 313
Period size: 79 Copynumber: 2.8 Consensus size: 80
44462762 AACCCAAGTA
* * * * *
44462772 CCTTCAGGATTTAG-CCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
44462835 GTCAATAGCACAAAAG
65 ATCAATAGCACAAAAG
*
44462851 CC-TCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCTGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
* *
44462915 TGAATAGCACAAATG
66 TCAATAGCACAAAAG
* *
44462930 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
44462993 CATTCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
78 9 0.07
79 59 0.46
80 59 0.46
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TCAATAGCACAAAAG
Found at i:44463791 original size:293 final size:292
Alignment explanation
Indices: 44463265--44463849 Score: 1012
Period size: 293 Copynumber: 2.0 Consensus size: 292
44463255 TTCATTACTC
* *
44463265 GAAGACTTACCTCAAATGTTGTTGAACGACTTCAACGGCTATTCGATTACTTTTTCCTTTCCCTT
1 GAAGACTTACCTCAAATGTTGTCGAACGACTTCAACGGCTATTCAATTACTTTTTCCTTTCCCTT
* *
44463330 ATCTGAAATTGCCCCCCTATGCTCTTGAGCTTGATTCAACAAATTTTAAACTAGTCATTAATCGA
66 ATCTGAAATTGCCCCCCTATGCTCTTGAGCTTAATTCAACAAATTTTAAAATAGTCATTAATCGA
44463395 CTATTCAAGTATTACTTTCAGAATATAATACATATAGATTTGACTTTCACACACATAGATTATAG
131 CTATTCAAGTATTACTTTCAGAATATAATACATATAGATTTGACTTTCACACACATAGATTATAG
44463460 TAAGCTTTATAAAAATCAATAAATAATTCATTAGCAAATTTTCATTAATGTTTACAATATAATTA
196 TAAGCTTTATAAAAATCAATAAATAATTCATTAGCAAATTTTCATTAATGTTTACAATATAATTA
*
44463525 CAATTTCCCTATAAGCTGACTTCCTGAGCAAT
261 CAATTTCCCGATAAGCTGACTTCCTGAGCAAT
** *
44463557 GAAGACTTACCTCGGATGTTGTCGAACGACTTCAATGGCTATTCAATTACTTTTTCC-TTCCCTT
1 GAAGACTTACCTCAAATGTTGTCGAACGACTTCAACGGCTATTCAATTACTTTTTCCTTTCCC-T
* * ** *
44463621 TATC-GGATTTAGTTCCCCTTTGCTCTTGAGCTTAAGTTCAACAAATTTTAAAATAGTCATTAAT
65 TATCTGAAATT-GCCCCCCTATGCTCTTGAGCTTAA-TTCAACAAATTTTAAAATAGTCATTAAT
44463685 CGACTATTCAAGTATTACTTTCAGAATATAATACATATAGATTTGACTTTCACACACATAGATTA
128 CGACTATTCAAGTATTACTTTCAGAATATAATACATATAGATTTGACTTTCACACACATAGATTA
44463750 TAGTAAGCTTTATAAAAATCAATAAATAATTCATTAGCAAATTTTCATTAATGTTTACAATATAA
193 TAGTAAGCTTTATAAAAATCAATAAATAATTCATTAGCAAATTTTCATTAATGTTTACAATATAA
44463815 TTACAATTTCCCGATAAGCTGACTTCCTGAGCAAT
258 TTACAATTTCCCGATAAGCTGACTTCCTGAGCAAT
44463850 AGTCACTAAA
Statistics
Matches: 277, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
291 9 0.03
292 77 0.28
293 191 0.69
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.37
Consensus pattern (292 bp):
GAAGACTTACCTCAAATGTTGTCGAACGACTTCAACGGCTATTCAATTACTTTTTCCTTTCCCTT
ATCTGAAATTGCCCCCCTATGCTCTTGAGCTTAATTCAACAAATTTTAAAATAGTCATTAATCGA
CTATTCAAGTATTACTTTCAGAATATAATACATATAGATTTGACTTTCACACACATAGATTATAG
TAAGCTTTATAAAAATCAATAAATAATTCATTAGCAAATTTTCATTAATGTTTACAATATAATTA
CAATTTCCCGATAAGCTGACTTCCTGAGCAAT
Found at i:44464118 original size:158 final size:158
Alignment explanation
Indices: 44463816--44464128 Score: 565
Period size: 158 Copynumber: 2.0 Consensus size: 158
44463806 ACAATATAAT
44463816 TACAATTTCCCGATAAGCTGACTTCCTGAGCAATAGTCACTAAAGTTTTTATAACTGGAGCTACG
1 TACAATTTCCCGATAAGCTGACTTCCTGAGCAATAGTCACTAAAGTTTTTATAACTGGAGCTACG
*
44463881 AAACTCCAAATCAATTGCCGTAAATTTTTCTTGACAGAAGACTCATTTATCTATTATCCATAAAA
66 AAACTCCAAATCAATTGCCGTAAATTTTCCTTGACAGAAGACTCATTTATCTATTATCCATAAAA
* *
44463946 TTTTAAAAAGTTTTATTTTAGCCCAACG
131 TTGTAAAAAGTTTTAGTTTAGCCCAACG
44463974 TACAATTTCCCGATAAGCTGACTTCCTGAGCAATAGTCACTAAAGTTTTTATAACTGGAGCTACG
1 TACAATTTCCCGATAAGCTGACTTCCTGAGCAATAGTCACTAAAGTTTTTATAACTGGAGCTACG
44464039 AAACTCCAAATCAATTGCCGTAAATTTTCCTTGACAGAAGACTCATTTATCTATTATCCAT-AAA
66 AAACTCCAAATCAATTGCCGTAAATTTTCCTTGACAGAAGACTCATTTATCTATTATCCATAAAA
* *
44464103 TATGTCAAAATTTTTAGTTTAGCCCA
131 T-TGTAAAAAGTTTTAGTTTAGCCCA
44464129 TCAATACCAG
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 4 0.03
158 145 0.97
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (158 bp):
TACAATTTCCCGATAAGCTGACTTCCTGAGCAATAGTCACTAAAGTTTTTATAACTGGAGCTACG
AAACTCCAAATCAATTGCCGTAAATTTTCCTTGACAGAAGACTCATTTATCTATTATCCATAAAA
TTGTAAAAAGTTTTAGTTTAGCCCAACG
Found at i:44468441 original size:39 final size:40
Alignment explanation
Indices: 44468327--44468511 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
44468317 GCTACTCGTT
* *
44468327 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44468367 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44468407 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
44468446 CAAATGCCTT-TGGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44468487 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44468512 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44475510 original size:48 final size:48
Alignment explanation
Indices: 44475433--44475530 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
44475423 TGAAACACGC
* *
44475433 ACCGCTCTTCATTCGGCACTCTCCAAAGTGAAATTTGTTACAGCTTTT
1 ACCGCTCTTCATTCGACACTCTCCAAAGTGAAATTTGTTACAGCTCTT
* * **
44475481 ACCGCTCTTCATTCGATAGTCTCTGAAGTGAAATTTGTTACAGCTCTT
1 ACCGCTCTTCATTCGACACTCTCCAAAGTGAAATTTGTTACAGCTCTT
44475529 AC
1 AC
44475531 ACTTCAGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (48 bp):
ACCGCTCTTCATTCGACACTCTCCAAAGTGAAATTTGTTACAGCTCTT
Found at i:44482545 original size:69 final size:69
Alignment explanation
Indices: 44482463--44482614 Score: 279
Period size: 69 Copynumber: 2.2 Consensus size: 69
44482453 TGTATTACTT
44482463 ACATATAAACTTACATCTCATTTAATATCAAGGCAATAACATTAAATTAAACATTGCCTTATTAA
1 ACATATAAACTTACATCTCATTTAATATCAAGGCAATAACATTAAATTAAACATTGCCTTATTAA
44482528 AAAC
66 AAAC
*
44482532 ACATATAAACTTACATCTCATTTAATATCAAGGCAATAACATTAAATTACACATTGCCTTATTAA
1 ACATATAAACTTACATCTCATTTAATATCAAGGCAATAACATTAAATTAAACATTGCCTTATTAA
44482597 AAAC
66 AAAC
*
44482601 -CATATGAACTTACA
1 ACATATAAACTTACA
44482615 ATTTCCCATA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
68 13 0.16
69 68 0.84
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (69 bp):
ACATATAAACTTACATCTCATTTAATATCAAGGCAATAACATTAAATTAAACATTGCCTTATTAA
AAAC
Found at i:44485881 original size:60 final size:60
Alignment explanation
Indices: 44485809--44485925 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
44485799 TTAGCCAATT
44485809 AGTACAGTTTATTCATTAAAATTTCCCCTGTTTCACATTCTGACAATTCTGACCTCTGTG
1 AGTACAGTTTATTCATTAAAATTTCCCCTGTTTCACATTCTGACAATTCTGACCTCTGTG
* *
44485869 AGTACAGTTTATTCCTTAAAATTTCCCCTGTTTCACATTCTGACAGTTCTGACCTCT
1 AGTACAGTTTATTCATTAAAATTTCCCCTGTTTCACATTCTGACAATTCTGACCTCT
44485926 CTTCACTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (60 bp):
AGTACAGTTTATTCATTAAAATTTCCCCTGTTTCACATTCTGACAATTCTGACCTCTGTG
Found at i:44489371 original size:40 final size:40
Alignment explanation
Indices: 44489313--44489390 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
44489303 ACTGCCTTAA
*
44489313 ATCATCATCCTTTGGTATACACATCCTCCCATGGAAACGC
1 ATCATCATCCTTTGGTATACACATCCTCCCATAGAAACGC
* * * *
44489353 ATCATCGTCTTTTTGTATACACATTCTCCCATAGAAAC
1 ATCATCATCCTTTGGTATACACATCCTCCCATAGAAAC
44489391 TCAACACTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.32
Consensus pattern (40 bp):
ATCATCATCCTTTGGTATACACATCCTCCCATAGAAACGC
Found at i:44494238 original size:29 final size:29
Alignment explanation
Indices: 44494172--44494267 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
44494162 AAGTATACAT
* *
44494172 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
44494200 ATATTCATATGGCTCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
44494229 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
44494258 ACATTTATAT
1 ACATTCATAT
44494268 ACATGCTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 20 0.33
29 40 0.67
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:44499519 original size:26 final size:27
Alignment explanation
Indices: 44499470--44499533 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
44499460 ATTTACTAAA
* *
44499470 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
44499497 ATACCCCTAGGTA-CAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
*
44499523 ATACCCTTAGG
1 ATACCCCTAGG
44499534 GTTAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATACCCCTAGGTATCAAAATTACCATT
Found at i:44499712 original size:27 final size:27
Alignment explanation
Indices: 44499682--44499742 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
44499672 CTCTACTACA
* *
44499682 AATATCTATTTCCGATGGCTCTGCCAC
1 AATATCTATATCCGATGACTCTGCCAC
* * * *
44499709 AATATCTGTATCTGGTGACTCTGTCAC
1 AATATCTATATCCGATGACTCTGCCAC
44499736 AATATCT
1 AATATCT
44499743 GTTCTGGCAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (27 bp):
AATATCTATATCCGATGACTCTGCCAC
Found at i:44507071 original size:40 final size:40
Alignment explanation
Indices: 44507014--44507089 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
44507004 CCAGCATGAT
* * *
44507014 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCACGGATACATCACTAGCACGAA
* *
44507054 TGCTCTTCGGAACTTAGCCCGGATACATCGCTAGCA
1 TGCTCTTCGGAACTTAGCACGGATACATCACTAGCA
44507090 TTCTATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCACGGATACATCACTAGCACGAA
Found at i:44507256 original size:223 final size:223
Alignment explanation
Indices: 44506868--44507313 Score: 874
Period size: 223 Copynumber: 2.0 Consensus size: 223
44506858 CTTAACCGAG
44506868 TCTATAAACATCATGTATGTACACTTTTAAACATATCATCTCGTTTAAATTTGAATTTGTATAGT
1 TCTATAAACATCATGTATGTACACTTTTAAACATATCATCTCGTTTAAATTTGAATTTGTATAGT
44506933 AGTGAGCACTTAAACTTTGCTCAAATTACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATAC
66 AGTGAGCACTTAAACTTTGCTCAAATTACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATAC
44506998 ACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCG
131 ACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCG
*
44507063 GAACTTAGCCCGGATACATCGCTAGCAT
196 GAACTTAGCCCGGATACATCACTAGCAT
44507091 TCTATAAACATCATGTATGTACACTTTTAAACATATCATCTCGTTTAAATTTGAATTTGTATAGT
1 TCTATAAACATCATGTATGTACACTTTTAAACATATCATCTCGTTTAAATTTGAATTTGTATAGT
44507156 AGTGAGCACTTAAACTTTGCTCAAATTACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATAC
66 AGTGAGCACTTAAACTTTGCTCAAATTACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATAC
44507221 ACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCG
131 ACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCG
*
44507286 GGACTTAGCCCGGATACATCACTAGCAT
196 GAACTTAGCCCGGATACATCACTAGCAT
44507314 GAATGCTCTT
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 221 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (223 bp):
TCTATAAACATCATGTATGTACACTTTTAAACATATCATCTCGTTTAAATTTGAATTTGTATAGT
AGTGAGCACTTAAACTTTGCTCAAATTACCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATAC
ACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCG
GAACTTAGCCCGGATACATCACTAGCAT
Found at i:44507294 original size:40 final size:40
Alignment explanation
Indices: 44507237--44507416 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
44507227 CCAGCATGAT
* *
44507237 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44507277 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
44507317 TGCTCTTCGGGACTTAGCCCGGATTTAGTAATTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
44507358 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
44507398 AGC-CTTCGGGACTTAGCCC
1 TGCTCTTCGGGACTTAGCCC
44507417 AGACATCATT
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 94 0.81
41 19 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44507764 original size:29 final size:29
Alignment explanation
Indices: 44507725--44507803 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44507715 CTTAATAATC
*
44507725 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44507755 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44507784 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44507804 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44509749 original size:37 final size:37
Alignment explanation
Indices: 44509699--44509777 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
44509689 TTATTACGAA
* ** *
44509699 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44509736 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44509773 GTCTT
1 GTCTT
44509778 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44509970 original size:49 final size:49
Alignment explanation
Indices: 44509896--44510701 Score: 1439
Period size: 49 Copynumber: 16.5 Consensus size: 49
44509886 CCCTTCGGGA
* * * * *
44509896 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44509943 CCTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44509992 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510041 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510090 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510188 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510237 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510286 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510335 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510384 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510433 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44510482 CTTATCACATATATATACACTTTCACATTCATCACATCGCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACAT--CGGCCATTAGGC
44510533 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44510580 CTTA-C-CACATATATACACTTTCACATTCATCACATCGGCCATTATAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-T-TAGGC
44510629 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44510676 CTTATCACATAAATATACACTTTCAC
1 CTTATCACATATATATACACTTTCAC
44510702 GTATACACAC
Statistics
Matches: 737, Mismatches: 10, Indels: 22
0.96 0.01 0.03
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 70 0.09
48 3 0.00
49 640 0.87
50 1 0.00
51 21 0.03
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44514219 original size:43 final size:43
Alignment explanation
Indices: 44514172--44514257 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
44514162 ATATTGATTC
** *
44514172 CGATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGACTACAAGTAAAACCAC-GTCTGGGAC-GTTGGCAT
*
44514215 CGATATGTGACTACATGTAAAACCACGTCTGGGACGTTGGCAT
1 CGATATGTGACTACAAGTAAAACCACGTCTGGGACGTTGGCAT
44514258 TGTACGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CGATATGTGACTACAAGTAAAACCACGTCTGGGACGTTGGCAT
Found at i:44520667 original size:62 final size:62
Alignment explanation
Indices: 44520569--44520687 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
44520559 GAACATCTTT
44520569 CCCTAATTAACATGTGATTAAAGACTGATTAAGAGGGTTCAAGAACTCAAATTAATTTTGAA
1 CCCTAATTAACATGTGATTAAAGACTGATTAAGAGGGTTCAAGAACTCAAATTAATTTTGAA
* * * *
44520631 CCCTAATTAACATGTGATTAAAGGCTGATCT-GGAGGGTTTAAGAGCTCAAATTAATT
1 CCCTAATTAACATGTGATTAAAGACTGAT-TAAGAGGGTTCAAGAACTCAAATTAATT
44520688 CTGGGAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (62 bp):
CCCTAATTAACATGTGATTAAAGACTGATTAAGAGGGTTCAAGAACTCAAATTAATTTTGAA
Found at i:44531291 original size:26 final size:26
Alignment explanation
Indices: 44531262--44531369 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
44531252 TGGTACAAAT
44531262 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44531288 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44531314 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44531340 TGATAATGGTTTCGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44531366 TGAT
1 TGAT
44531370 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44534368 original size:51 final size:51
Alignment explanation
Indices: 44534306--44534408 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
44534296 ACTTAGTGAG
* * *
44534306 AAAACATATTCATTGGTAAATATAGCTCATTTCTCTAACTTTATCATTTCT
1 AAAACACATTCATTAGTAAATATAGCTCATTTCTCTAACTTCATCATTTCT
* * *
44534357 AAAACACATTCATTAGTAAATGTAGCTCATTTCTGTAACTTCATTATTTCT
1 AAAACACATTCATTAGTAAATATAGCTCATTTCTCTAACTTCATCATTTCT
44534408 A
1 A
44534409 TTCATTTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (51 bp):
AAAACACATTCATTAGTAAATATAGCTCATTTCTCTAACTTCATCATTTCT
Found at i:44548915 original size:24 final size:24
Alignment explanation
Indices: 44548863--44548915 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
44548853 GAGAATATCA
*
44548863 AGGAGGAAATCGTGGAGAGGATTG
1 AGGAGAAAATCGTGGAGAGGATTG
* *
44548887 GGGAGAAAATTGTGGAGAGGAATT-
1 AGGAGAAAATCGTGGAGAGG-ATTG
44548911 AGGAG
1 AGGAG
44548916 TTTGATGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.45, T:0.17
Consensus pattern (24 bp):
AGGAGAAAATCGTGGAGAGGATTG
Found at i:44550045 original size:19 final size:19
Alignment explanation
Indices: 44550010--44550058 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
44550000 TTGGACCGTT
44550010 ATGGGCCATGTTGGGCCAAA
1 ATGGGCCATGTTGGGCC-AA
*
44550030 ATGGGCCATG-TGGGCCTA
1 ATGGGCCATGTTGGGCCAA
44550048 ATGGGCTCATG
1 ATGGGC-CATG
44550059 GGCTCCACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 10 0.37
20 10 0.37
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.22
Consensus pattern (19 bp):
ATGGGCCATGTTGGGCCAA
Found at i:44550502 original size:27 final size:26
Alignment explanation
Indices: 44550462--44550535 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
44550452 ATGGAGGAAG
44550462 TACTGTACTGGTGGCTATGCCACAAT
1 TACTGTACTGGTGGCTATGCCACAAT
* *
44550488 TACTGATACTGGTGGCTTTGCCACACT
1 TACTG-TACTGGTGGCTATGCCACAAT
* *
44550515 TACTGTTTCTGGTAGCTATGC
1 TACTG-TACTGGTGGCTATGC
44550536 TGCATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:44553914 original size:67 final size:64
Alignment explanation
Indices: 44553771--44553954 Score: 212
Period size: 64 Copynumber: 2.8 Consensus size: 64
44553761 ATATAGTTCG
* * * * *
44553771 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGAACCACCCATGCGACCTAGCTACA-TATATCCCGT
44553833 A
64 A
* * *
44553834 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACTTAGAACCACCCATGCGACCTAGCTACATATATCCCG
44553899 TA
63 TA
* *
44553901 GCTCTCTTGTCTACATGGTGTACACTTAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGAACCACCCATGCGACCTAGCTACAT
44553955 CATAATGTCT
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.28
66 23 0.23
67 29 0.28
68 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:44556221 original size:19 final size:19
Alignment explanation
Indices: 44556186--44556223 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44556176 TTGTAAAGCC
*
44556186 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTAGGCCCA
44556205 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
44556224 ATGTGGCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:44578888 original size:24 final size:25
Alignment explanation
Indices: 44578861--44578910 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
44578851 TGGTGTTTTT
*
44578861 TATTTTTATGT-AATTTTTTAAAAA
1 TATTTTTATGTAAAATTTTTAAAAA
* *
44578885 TATTTTTCTTTAAAATTTTTAAAAA
1 TATTTTTATGTAAAATTTTTAAAAA
44578910 T
1 T
44578911 TGAAGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTTTATGTAAAATTTTTAAAAA
Found at i:44581010 original size:18 final size:19
Alignment explanation
Indices: 44580973--44581010 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44580963 TACATTCTAG
* *
44580973 ATGTTTTTAGTAAGTTTAT
1 ATGTTTCTAATAAGTTTAT
44580992 ATGTTTCTAATAA-TTTAT
1 ATGTTTCTAATAAGTTTAT
44581010 A
1 A
44581011 AAATATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (19 bp):
ATGTTTCTAATAAGTTTAT
Found at i:44582420 original size:35 final size:35
Alignment explanation
Indices: 44582346--44582427 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
44582336 AACTTTTAAT
* * *
44582346 TAAA-AAATTAATTTATTCTTGAATCTAAAGTAAA
1 TAAATAAATTAATTTATTCTTAAATCAAAAATAAA
*
44582380 TAAATAAATTAATTTATTTTTAAAT-AAAAATAAA
1 TAAATAAATTAATTTATTCTTAAATCAAAAATAAA
44582414 TAAAATACAATTAA
1 T-AAATA-AATTAA
44582428 ACTCACACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.29
35 23 0.56
36 6 0.15
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (35 bp):
TAAATAAATTAATTTATTCTTAAATCAAAAATAAA
Found at i:44583007 original size:29 final size:30
Alignment explanation
Indices: 44582975--44583032 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
44582965 TTTTAAAATA
*
44582975 TTTAATTGGTATTTAAATTT-TTTTTTATG
1 TTTAATTGGTATTTAAATTTCTATTTTATG
* *
44583004 TTTAGTTGGTATTTGAATTTCTATTTTAT
1 TTTAATTGGTATTTAAATTTCTATTTTAT
44583033 CATTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (30 bp):
TTTAATTGGTATTTAAATTTCTATTTTATG
Found at i:44584243 original size:18 final size:19
Alignment explanation
Indices: 44584220--44584255 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44584210 TTATATGAAT
44584220 TTTAAA-TAAAATAAAAAA
1 TTTAAATTAAAATAAAAAA
*
44584238 TTTAAATTAAATTAAAAA
1 TTTAAATTAAAATAAAAA
44584256 CAAATTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAATTAAAATAAAAAA
Found at i:44584389 original size:23 final size:23
Alignment explanation
Indices: 44584357--44584407 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
44584347 CTTCAAAATG
44584357 TATTTAA-TTTCAAATAATATTTT
1 TATTTAATTTTCAAAT-ATATTTT
* *
44584380 TATTTCATTTTTAAATATATTTT
1 TATTTAATTTTCAAATATATTTT
44584403 T-TTTA
1 TATTTA
44584408 TCTATGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.58
24 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTAATTTTCAAATATATTTT
Found at i:44584446 original size:25 final size:25
Alignment explanation
Indices: 44584412--44584462 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
44584402 TTTTTATCTA
44584412 TGAAAGTAGCACTTTCATGTAAGTT
1 TGAAAGTAGCACTTTCATGTAAGTT
44584437 TGAAAGTAGCACTTTCATGTAAGTT
1 TGAAAGTAGCACTTTCATGTAAGTT
44584462 T
1 T
44584463 AACATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (25 bp):
TGAAAGTAGCACTTTCATGTAAGTT
Found at i:44585477 original size:51 final size:49
Alignment explanation
Indices: 44585273--44585497 Score: 172
Period size: 51 Copynumber: 4.4 Consensus size: 49
44585263 GGTCGGCATA
* * *
44585273 AGAGATGTAAAAAAAAAAA-TTGGGTGCTGGCCATGTAATGGCCGACATT
1 AGAGATGTAAAAAAAAAAATTTGGGTGCTGGCCATTTAAGGGCCG-CACT
* * * *
44585322 AGAGATGTAAAAAAGAAAAAAAAATTGGGTGCTGCCCATTTAATGGCTAGCACT
1 AGAGATGT---AAA-AAAAAAAATTTGGGTGCTGGCCATTTAAGGGC-CGCACT
* **
44585376 AGAGATGTAAAAAAAAAGATTTTTTTTGGGTGCTGGCCA--GCAGGTG--GCACT
1 AGAGATGTAAAAAAAAA-A----ATTTGGGTGCTGGCCATTTAAGG-GCCGCACT
* *
44585427 AGAGATGTAAAACAAAAAAATTTGGGTGTTGTCCATTTAAGGGCCAGCACT
1 AGAGATGTAAAA-AAAAAAATTTGGGTGCTGGCCATTTAAGGGCC-GCACT
44585478 AGAGATGTAAAAAAACAAAA
1 AGAGATGTAAAAAAA-AAAA
44585498 GATTTTTTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 36
0.74 0.08 0.19
Matches are distributed among these distances:
47 13 0.09
48 1 0.01
49 11 0.08
50 9 0.06
51 43 0.30
52 8 0.06
53 10 0.07
54 33 0.23
55 14 0.10
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (49 bp):
AGAGATGTAAAAAAAAAAATTTGGGTGCTGGCCATTTAAGGGCCGCACT
Found at i:44585497 original size:54 final size:52
Alignment explanation
Indices: 44585281--44585502 Score: 170
Period size: 54 Copynumber: 4.3 Consensus size: 52
44585271 TAAGAGATGT
* * *
44585281 AAAAAAAAAAA-TTGGGTGCTGGCCATGTAATGGCCGACATTAGAGATGTAAA
1 AAAAAAAAAAATTTGGGTGCTGGCCATTTAAGGGCCG-CACTAGAGATGTAAA
* * * *
44585333 AAAGAAAAAAAAATTGGGTGCTGCCCATTTAATGGCTAGCACTAGAGATGTAAA
1 AAA-AAAAAAAATTTGGGTGCTGGCCATTTAAGGGC-CGCACTAGAGATGTAAA
**** **
44585387 AAAAAAGATTTTTTTTGGGTGCTGGCCA--GCAGGTG--GCACTAGAGATGT--A
1 AAAAAA-A-AAAATTTGGGTGCTGGCCATTTAAGG-GCCGCACTAGAGATGTAAA
* * *
44585436 AAACAAAAAAATTTGGGTGTTGTCCATTTAAGGGCCAGCACTAGAGATGTAAA
1 AAAAAAAAAAATTTGGGTGCTGGCCATTTAAGGGCC-GCACTAGAGATGTAAA
* *
44585489 AAAACAAAAGATTT
1 AAAAAAAAAAATTT
44585503 TTTTTGGGTG
Statistics
Matches: 132, Mismatches: 25, Indels: 25
0.73 0.14 0.14
Matches are distributed among these distances:
47 13 0.10
48 2 0.02
49 9 0.07
51 26 0.20
52 3 0.02
53 25 0.19
54 40 0.30
55 14 0.11
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (52 bp):
AAAAAAAAAAATTTGGGTGCTGGCCATTTAAGGGCCGCACTAGAGATGTAAA
Found at i:44585987 original size:11 final size:11
Alignment explanation
Indices: 44585971--44585995 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44585961 TCTATTTGAG
44585971 TTTTTGTTTGC
1 TTTTTGTTTGC
44585982 TTTTTGTTTGC
1 TTTTTGTTTGC
44585993 TTT
1 TTT
44585996 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTTTGTTTGC
Found at i:44587282 original size:18 final size:18
Alignment explanation
Indices: 44587259--44587294 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44587249 TCGATTCAAG
44587259 TATAAAGTGTCATATCGA
1 TATAAAGTGTCATATCGA
44587277 TATAAAGTGTCATATCGA
1 TATAAAGTGTCATATCGA
44587295 AAGGCATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
TATAAAGTGTCATATCGA
Found at i:44592290 original size:28 final size:28
Alignment explanation
Indices: 44592258--44592313 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44592248 GAGATATGGC
44592258 TCATATTAATGTAGGTTGTAAACCTACT
1 TCATATTAATGTAGGTTGTAAACCTACT
44592286 TCATATTAATGTAGGTTGTAAACCTACT
1 TCATATTAATGTAGGTTGTAAACCTACT
44592314 ATTGGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
TCATATTAATGTAGGTTGTAAACCTACT
Found at i:44598645 original size:46 final size:45
Alignment explanation
Indices: 44598507--44598680 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 45
44598497 CAGGAGGTAA
*** * *
44598507 GAACCTAAACCTGTATTCTCTAGTTTGCAACATATGTAAGAGCTAG
1 GAACCTAAACCTGTATTCTCTAGTCCACAACATATGT-AGAACTGG
* * *
44598553 GAACCTAAACCTGTATTCTCAAGTCTACAACATATGCAGAAGCTGG
1 GAACCTAAACCTGTATTCTCTAGTCCACAACATATGTAGAA-CTGG
* * * *
44598599 GAACCTAAATCTGTATTCTCCAGTCCGCAACATATATAGGAACTGG
1 GAACCTAAACCTGTATTCTCTAGTCCACAACATATGTA-GAACTGG
* * ** *
44598645 GAACTTGAATATGTATTCTCTAATCCACAACATATG
1 GAACCTAAACCTGTATTCTCTAGTCCACAACATATG
44598681 CAAGAGCTGA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
45 3 0.03
46 101 0.94
47 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
GAACCTAAACCTGTATTCTCTAGTCCACAACATATGTAGAACTGG
Found at i:44598689 original size:92 final size:92
Alignment explanation
Indices: 44598506--44598694 Score: 220
Period size: 92 Copynumber: 2.1 Consensus size: 92
44598496 ACAGGAGGTA
* ** * * *
44598506 AGAACCTAAACCTGTATTCTCTAGTTTGCAACATATGTAAGAGCTAGGAACCTAAACCTGTATTC
1 AGAACCTAAACCTGTATTCTCCAGTCCGCAACATATATAAGAACTAGGAACCTAAACATGTATTC
*
44598571 TCAAGTCTACAACATATGCAGAAGCTG
66 TCAAGTCCACAACATATGCAGAAGCTG
* * * * * * *
44598598 GGAACCTAAATCTGTATTCTCCAGTCCGCAACATATATAGGAACTGGGAACTTGAATATGTATTC
1 AGAACCTAAACCTGTATTCTCCAGTCCGCAACATATATAAGAACTAGGAACCTAAACATGTATTC
44598663 TCTAA-TCCACAACATATGCA-AGAGCTG
66 TC-AAGTCCACAACATATGCAGA-AGCTG
44598690 AGAAC
1 AGAAC
44598695 TTGGGCAAGA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
91 1 0.01
92 77 0.96
93 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (92 bp):
AGAACCTAAACCTGTATTCTCCAGTCCGCAACATATATAAGAACTAGGAACCTAAACATGTATTC
TCAAGTCCACAACATATGCAGAAGCTG
Found at i:44598695 original size:46 final size:45
Alignment explanation
Indices: 44598534--44598697 Score: 132
Period size: 46 Copynumber: 3.6 Consensus size: 45
44598524 CTCTAGTTTG
* * * * ** *
44598534 CAACATATGTAAGAGCTAGGAACCTAAACCTGTATTCTCAAGTCTA
1 CAACATATGCAAGAGCTGGGAACTTGAATATGTATTCTCAA-TCCA
* * * * *
44598580 CAACATATGC-AGAAGCTGGGAACCTAAATCTGTATTCTCCAGTCCG
1 CAACATATGCAAG-AGCTGGGAACTTGAATATGTATTCT-CAATCCA
** * *
44598626 CAACATATATAGGAACTGGGAACTTGAATATGTATTCTCTAATCCA
1 CAACATATGCAAGAGCTGGGAACTTGAATATGTATTCTC-AATCCA
*
44598672 CAACATATGCAAGAGCTGAGAACTTG
1 CAACATATGCAAGAGCTGGGAACTTG
44598698 GGCAAGAACT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
45 3 0.03
46 88 0.94
47 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (45 bp):
CAACATATGCAAGAGCTGGGAACTTGAATATGTATTCTCAATCCA
Found at i:44600907 original size:27 final size:27
Alignment explanation
Indices: 44600877--44600941 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
44600867 TAAATAGGGT
*
44600877 TGTAATGGAATAAGATTGTAATAGGAC
1 TGTAATGGAATAAGACTGTAATAGGAC
* *
44600904 TGTAATGAAATGAGACTGTAATAGGAC
1 TGTAATGGAATAAGACTGTAATAGGAC
*
44600931 TGCAATGGAAT
1 TGTAATGGAAT
44600942 GGAATAAGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (27 bp):
TGTAATGGAATAAGACTGTAATAGGAC
Found at i:44608258 original size:20 final size:20
Alignment explanation
Indices: 44608224--44608274 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
44608214 AGGCTGAGAA
*
44608224 ATTATTTTTAT-TGTTTTAAT
1 ATTA-TTTTATGTGTTATAAT
*
44608244 ATTATTTTATGTGTTATAGT
1 ATTATTTTATGTGTTATAAT
*
44608264 ATGATTTTATG
1 ATTATTTTATG
44608275 AGTGCATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (20 bp):
ATTATTTTATGTGTTATAAT
Found at i:44616381 original size:79 final size:82
Alignment explanation
Indices: 44616270--44616454 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
44616260 GCTACTCGTT
* * *
44616270 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
44616333 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
44616350 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
44616413 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
44616430 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44616455 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:44616454 original size:40 final size:40
Alignment explanation
Indices: 44616251--44616454 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
44616241 CGGAATTTAA
** *
44616251 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
44616291 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44616331 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44616370 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44616410 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44616450 CCGGA
1 CCGGA
44616455 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44621856 original size:29 final size:29
Alignment explanation
Indices: 44621821--44621894 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
44621811 GTTGTGAGAT
* *
44621821 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44621850 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44621879 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44621895 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44624327 original size:28 final size:28
Alignment explanation
Indices: 44624287--44624379 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
44624277 GCAATCAAAT
* *
44624287 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
44624315 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
44624343 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
44624371 ATGACACTT
1 ATGGCACTT
44624380 CGTATGCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:44624393 original size:28 final size:28
Alignment explanation
Indices: 44624287--44624394 Score: 135
Period size: 28 Copynumber: 3.9 Consensus size: 28
44624277 GCAATCAAAT
* * *
44624287 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
44624315 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
44624343 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* * * *
44624371 ATGACACTTCGTATGCAAAATATT
1 ATGGCACTTAGTGTGCGAAATATT
44624395 AAATGATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:44624709 original size:40 final size:40
Alignment explanation
Indices: 44624610--44624714 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
44624600 GGGCTTCAAG
* * *
44624610 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * **
44624651 TCTAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
44624691 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
44624715 TTGATAAAAG
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:44630324 original size:26 final size:25
Alignment explanation
Indices: 44630254--44630326 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
44630244 TTTTATCTCA
* *
44630254 ATTTTACCCCCAGTAAAAGTTTGACG
1 ATTTTA-CCCCAGTAAAATTTTAACG
44630280 ATTTTA-CCCAGGATAAAATTTTAACG
1 ATTTTACCCCA-G-TAAAATTTTAACG
44630306 ATTTTACCCCTAGTAAAATTT
1 ATTTTACCCC-AGTAAAATTT
44630327 CGAGAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 4 0.10
25 1 0.02
26 31 0.76
27 4 0.10
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (25 bp):
ATTTTACCCCAGTAAAATTTTAACG
Found at i:44636007 original size:48 final size:48
Alignment explanation
Indices: 44635936--44636075 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
44635926 TTAGGGGTTA
*
44635936 CATTGAGTTAGCTTCGGGCCATGATATTGGCACTCT-GGGTGCGAGATT
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACT-TAGGGTGCGAGATT
* * * * * *
44635984 CATTGAGTTGGCTTCAGGCCATGATATTTGAAATTCGGGTGTGAGATT
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAGATT
* *
44636032 CACTGAGTTGGCTTCGGGGCATGATATTGGCACTTAGGGTGCGA
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGA
44636076 AACTTCCGAG
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 76 0.99
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.31
Consensus pattern (48 bp):
CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAGATT
Found at i:44648862 original size:21 final size:20
Alignment explanation
Indices: 44648838--44648876 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44648828 GTGTAAATGT
44648838 AGTAACATAATTGTCATTTTA
1 AGTAACATAA-TGTCATTTTA
**
44648859 AGTAATTTAATGTCATTT
1 AGTAACATAATGTCATTT
44648877 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
AGTAACATAATGTCATTTTA
Found at i:44655820 original size:12 final size:12
Alignment explanation
Indices: 44655803--44655827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44655793 ATTCCGAAGT
44655803 ATATATATATAC
1 ATATATATATAC
44655815 ATATATATATAC
1 ATATATATATAC
44655827 A
1 A
44655828 CATAAGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAC
Found at i:44655821 original size:14 final size:14
Alignment explanation
Indices: 44655802--44655831 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44655792 CATTCCGAAG
*
44655802 TATATATATATACA
1 TATATATATACACA
44655816 TATATATATACACA
1 TATATATATACACA
44655830 TA
1 TA
44655832 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATATATACACA
Found at i:44656362 original size:27 final size:28
Alignment explanation
Indices: 44656278--44656371 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
44656268 CATGAGATTG
* * * *
44656278 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44656307 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44656335 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44656362 GCACTGAGTG
1 GCACTAAGTG
44656372 CGCGGACTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.33
28 22 0.37
29 18 0.30
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44656386 original size:27 final size:27
Alignment explanation
Indices: 44656306--44656388 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
44656296 TAAATTGTAC
* * *
44656306 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGCGCGA-CTTGAATATAT
* * *
44656334 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGCGCGACTTGAATATAT
*
44656361 AGCACTGAGTGCGCGGACTT-AATATAT
1 AGCACTAAGTGCGC-GACTTGAATATAT
44656388 A
1 A
44656389 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGCGCGACTTGAATATAT
Found at i:44662480 original size:40 final size:41
Alignment explanation
Indices: 44662435--44662519 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
44662425 AATTTCACCA
44662435 AATTCCAAG-CATGATCATCCACTAACCTTAAAATTGGTTG
1 AATTCCAAGCCATGATCATCCACTAACCTTAAAATTGGTTG
44662475 AATTCCAAGCCATGATCATCCACTAACCTTAAAATTGGTTG
1 AATTCCAAGCCATGATCATCCACTAACCTTAAAATTGGTTG
44662516 AATT
1 AATT
44662520 ACTACTTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 9 0.20
41 35 0.80
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (41 bp):
AATTCCAAGCCATGATCATCCACTAACCTTAAAATTGGTTG
Found at i:44670380 original size:38 final size:38
Alignment explanation
Indices: 44670323--44670430 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
44670313 GGCACGAAGG
* * * *
44670323 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
* *
44670361 CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
**
44670399 CCCGGATATTTTACCAGCACGAAGCCTGTGGG
1 CCCGGATATAATACCAGCACGAAGCCTGTGGG
44670431 TCTTTATGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
Found at i:44691489 original size:48 final size:48
Alignment explanation
Indices: 44691436--44691623 Score: 139
Period size: 48 Copynumber: 4.1 Consensus size: 48
44691426 CATATAGTAA
*
44691436 GATGCCAATGCCATATCCCAGATATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * *
44691484 GATGCC-A----ATAGCCCAGCTATGGTCTTAAATGATG-TCTCATAT-
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATG-GGATCACATATC
* * * * * ** *
44691526 --TG---ATGCCATGTCTCAAACATGGTCTTACACGAAATCACATATT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
*
44691569 GATGCCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
*
44691617 GAGGCCA
1 GATGCCA
44691624 TACTCAGATA
Statistics
Matches: 102, Mismatches: 26, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
38 1 0.01
40 2 0.02
42 23 0.23
43 28 0.27
44 1 0.01
45 2 0.02
47 1 0.01
48 44 0.43
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:44691525 original size:43 final size:43
Alignment explanation
Indices: 44691443--44691642 Score: 133
Period size: 42 Copynumber: 4.6 Consensus size: 43
44691433 TAAGATGCCA
* *
44691443 ATGCC-ATATCCCAGATATGGTCTTATATGGGATCACATATCG
1 ATGCCAATAGCCCAGATATGGTCTTAAATGGGATCACATATCG
* * * *
44691485 ATGCCAATAGCCCAGCTATGGTCTTAAATGATG-TCTCATATTG
1 ATGCCAATAGCCCAGATATGGTCTTAAATG-GGATCACATATCG
* * * * * ** *
44691528 ATGCC-AT-GTCTCAAACATGGTCTTACACGAAATCACATATTG
1 ATGCCAATAG-CCCAGATATGGTCTTAAATGGGATCACATATCG
* *
44691570 ATGCCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCC--A---ATAGCCCAGATATGGTCTTAAATGGGATCACATATCG
* *
44691618 AGGCC-ATA-CTCAGATATGGTCTTAA
1 ATGCCAATAGCCCAGATATGGTCTTAA
44691643 CGAAACCACA
Statistics
Matches: 121, Mismatches: 26, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
41 16 0.13
42 38 0.31
43 34 0.28
44 1 0.01
48 32 0.26
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGCCAATAGCCCAGATATGGTCTTAAATGGGATCACATATCG
Found at i:44693706 original size:36 final size:35
Alignment explanation
Indices: 44693658--44693760 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 35
44693648 CTGTTATAAG
*
44693658 GGAGGTTCGCTAGATTGCTTACATGGCATGACCCAA
1 GGAGGTCCGCTAGATT-CTTACATGGCATGACCCAA
* * * *
44693694 TGAGGTCTGCTAGATTTTCTACATGGCATAACCCAA
1 GGAGGTCCGCTAGATTCT-TACATGGCATGACCCAA
* * *
44693730 GGAGGTCCACTAGATTACCTACATAGCATGA
1 GGAGGTCCGCTAGATT-CTTACATGGCATGA
44693761 TTTAGGGAGG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
35 1 0.02
36 52 0.98
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (35 bp):
GGAGGTCCGCTAGATTCTTACATGGCATGACCCAA
Found at i:44695712 original size:40 final size:40
Alignment explanation
Indices: 44695668--44695744 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
44695658 ACTTTTTACT
44695668 TATTAATTATAAACTTATTTAGTAACGAAGTCATTCCGCC
1 TATTAATTATAAACTTATTTAGTAACGAAGTCATTCCGCC
44695708 TATTAATTATAAACTTATTTAGTAACGAAGTCATTCC
1 TATTAATTATAAACTTATTTAGTAACGAAGTCATTCC
44695745 ACTATAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (40 bp):
TATTAATTATAAACTTATTTAGTAACGAAGTCATTCCGCC
Found at i:44698196 original size:25 final size:25
Alignment explanation
Indices: 44698168--44698218 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
44698158 CTATTAATGT
44698168 TGTCCATACAAGCTTCCTAGACAAC
1 TGTCCATACAAGCTTCCTAGACAAC
*
44698193 TGTCCATGCAAGCTTCCTAGACAAC
1 TGTCCATACAAGCTTCCTAGACAAC
44698218 T
1 T
44698219 CATTTAAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.25
Consensus pattern (25 bp):
TGTCCATACAAGCTTCCTAGACAAC
Found at i:44700311 original size:13 final size:12
Alignment explanation
Indices: 44700269--44700311 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
44700259 AAACTCTTTT
*
44700269 TCTTTTTCATTC
1 TCTTTTTCAATC
*
44700281 TCTTTTTTAATC
1 TCTTTTTCAATC
44700293 TCTTTTTCAATC
1 TCTTTTTCAATC
*
44700305 TCATTTT
1 TCTTTTT
44700312 GTTTCCTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTTTCAATC
Found at i:44700425 original size:15 final size:14
Alignment explanation
Indices: 44700405--44700461 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 14
44700395 CTTTCTTGCC
44700405 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTT-A
44700420 TCTCTTTTTGCTTTTCA
1 TCTC-TTTT-CTTTT-A
44700437 TCT-TTTTCTTTTA
1 TCTCTTTTCTTTTA
*
44700450 TC-GTTTTCTTTT
1 TCTCTTTTCTTTT
44700462 TACAAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 12 0.32
14 5 0.13
15 8 0.21
16 4 0.11
17 9 0.24
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.70
Consensus pattern (14 bp):
TCTCTTTTCTTTTA
Found at i:44701310 original size:16 final size:17
Alignment explanation
Indices: 44701289--44701335 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
44701279 ACACAACTCT
44701289 TTTTTTTTAACTTAGA-
1 TTTTTTTTAACTTAGAC
*
44701305 TTTTTTTTAACTTCGAC
1 TTTTTTTTAACTTAGAC
44701322 TTTTTTTTATACTT
1 TTTTTTTTA-ACTT
44701336 CTCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 15 0.54
17 9 0.32
18 4 0.14
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTTTTAACTTAGAC
Found at i:44701347 original size:18 final size:17
Alignment explanation
Indices: 44701289--44701346 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
44701279 ACACAACTCT
*
44701289 TTTTTTTTAACTTAGA-
1 TTTTTTTTAACTTCGAC
44701305 TTTTTTTTAACTTCGAC
1 TTTTTTTTAACTTCGAC
*
44701322 TTTTTTTTATACTTC-TC
1 TTTTTTTTA-ACTTCGAC
44701339 TTTTTTTT
1 TTTTTTTT
44701347 TCAATTACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
16 15 0.39
17 18 0.47
18 5 0.13
ACGTcount: A:0.16, C:0.12, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTTTTTAACTTCGAC
Found at i:44724547 original size:47 final size:46
Alignment explanation
Indices: 44724472--44724689 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 46
44724462 AATTTCTTGT
* ** *
44724472 GTGCCAGTGTAAGACATGTCTCGGACATGCATCAGACACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GACACAGAGACGA
* * *
44724518 GTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACACAGAGACGA
* **
44724566 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACACAGAGACGA
* * * * **
44724610 TGATAGCCAGTGTAAGATATGTTTGGGACACGCATCGGCTA-AGAG--TT
1 -G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-ACAGAGACGA
* * *
44724657 GTGCTAGTGTAAGACAAGTCTAGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
44724690 AGCACGTATA
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 30 0.22
45 2 0.01
46 23 0.17
47 62 0.45
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACACAGAGACGA
Found at i:44724637 original size:94 final size:91
Alignment explanation
Indices: 44724472--44724742 Score: 253
Period size: 94 Copynumber: 2.9 Consensus size: 91
44724462 AATTTCTTGT
* **
44724472 GTGCCAGTGTAAGACATGTCTCGGACATGCATCAGACACATTATGAGTGCCAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGACACACGATGAGTGCCAGTATAAGACCATG
*
44724537 TCTGGGACATGGCATCGGCATAGAGACG-A
66 TCTGGGACA-CGCATCGGC-TA-AGA-GTA
* * * * * *
44724566 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGA-TA
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGACAC-ACGATGAGT-GCCAGTATAAGACCA
* *
44724629 TGTTTGGGACACGCATCGGCTAAGAGTT
64 TGTCTGGGACACGCATCGGCTAAGAGTA
* * ** * *
44724657 GTGCTAGTGTAAGACAAGTCTAGGACATGCATCAG-CACGTATATATGAGAGCTAGTATAAGACC
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGACAC--A-CGATGAGTGCCAGTATAAGACC
*
44724721 ATGTCTGGGACATGGCATCGGC
63 ATGTCTGGGACA-CGCATCGGC
44724743 CTCGATGATG
Statistics
Matches: 144, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
90 3 0.02
91 35 0.24
92 16 0.11
93 19 0.13
94 55 0.38
95 16 0.11
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCAGACACACGATGAGTGCCAGTATAAGACCATG
TCTGGGACACGCATCGGCTAAGAGTA
Found at i:44725445 original size:13 final size:13
Alignment explanation
Indices: 44725427--44725451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44725417 TCCTTTTGTC
44725427 CACATGGGCATGA
1 CACATGGGCATGA
44725440 CACATGGGCATG
1 CACATGGGCATG
44725452 TGTGTAGGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (13 bp):
CACATGGGCATGA
Found at i:44732093 original size:49 final size:47
Alignment explanation
Indices: 44731938--44732117 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 47
44731928 TTTTTTGTGT
* *
44731938 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGATGATGATA
* * * *
44731985 GCCAGTGTAACACGTGTCTGGGACATGCATCAGCACGTAT-AT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-T-TGATGATGATA
* * *
44732033 ACTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTTGATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGATGATGATA
44732082 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
44732118 AACTTATCCC
Statistics
Matches: 110, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
47 32 0.29
48 17 0.15
49 54 0.49
50 7 0.06
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGATGATGATA
Found at i:44734104 original size:37 final size:37
Alignment explanation
Indices: 44734054--44734161 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
44734044 ACCTTTAGCT
*
44734054 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGAAGTTATCGGGTCTTACC
* *
44734091 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGAAGTTATCGGGTCTTACC
*
44734128 CGGGCAAAATCTCCACACGAAGTTATCGGGTCTT
1 CGGACAAAATCTCCACACGAAGTTATCGGGTCTT
44734162 TAGAGCTCGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGAAGTTATCGGGTCTTACC
Found at i:44734405 original size:49 final size:49
Alignment explanation
Indices: 44734280--44734501 Score: 312
Period size: 47 Copynumber: 4.7 Consensus size: 49
44734270 CCCTTCGGGA
* * * * *
44734280 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44734327 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44734374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44734423 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44734470 CTTGTCACATATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
44734502 TCAAATATAC
Statistics
Matches: 155, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
46 1 0.01
47 87 0.56
49 67 0.43
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44734442 original size:96 final size:96
Alignment explanation
Indices: 44734280--44734501 Score: 376
Period size: 96 Copynumber: 2.3 Consensus size: 96
44734270 CCCTTCGGGA
* * *
44734280 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
44734343 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
44734374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
44734439 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44734470 CTTGTCACATATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
44734502 TCAAATATAC
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
94 10 0.08
95 1 0.01
96 109 0.91
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44738162 original size:57 final size:58
Alignment explanation
Indices: 44738045--44738189 Score: 141
Period size: 57 Copynumber: 2.5 Consensus size: 58
44738035 GCCACACATT
* * * * * *
44738045 TTACAATAGGATTACCAATCCAGGCTAAATCCTATCCATAGCATATGCTCTAGAGAGC
1 TTACATTAGGATTACCAATCCGGGCTAAATCCAATCCATAACATAAGCTCAAGAGAGC
* * * *
44738103 TTA-ATTTGGATTACCCATCCGGGCTAAATCCAATCTATAAC-TAAAGCTCAAGAGGGC
1 TTACATTAGGATTACCAATCCGGGCTAAATCCAATCCATAACAT-AAGCTCAAGAGAGC
* ** *
44738160 TTACATTAGAATTACCTGTCTGGGCTAAAT
1 TTACATTAGGATTACCAATCCGGGCTAAAT
44738190 TCTTTCTACA
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
56 1 0.01
57 45 0.64
58 24 0.34
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (58 bp):
TTACATTAGGATTACCAATCCGGGCTAAATCCAATCCATAACATAAGCTCAAGAGAGC
Found at i:44740208 original size:19 final size:19
Alignment explanation
Indices: 44740174--44740210 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44740164 AGCCCTCAAA
*
44740174 ATGATTTTATCCAATTTTG
1 ATGATTTTATCAAATTTTG
*
44740193 ATGATTTTATTAAATTTT
1 ATGATTTTATCAAATTTT
44740211 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (19 bp):
ATGATTTTATCAAATTTTG
Found at i:44740518 original size:21 final size:22
Alignment explanation
Indices: 44740492--44740536 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
44740482 ACGTCGAGAC
44740492 ATCTGAAAAGTATTA-CAAACA
1 ATCTGAAAAGTATTATCAAACA
** *
44740513 ATCTGATTAGTATTATTAAACA
1 ATCTGAAAAGTATTATCAAACA
44740535 AT
1 AT
44740537 AATATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (22 bp):
ATCTGAAAAGTATTATCAAACA
Found at i:44743778 original size:32 final size:32
Alignment explanation
Indices: 44743726--44743859 Score: 144
Period size: 32 Copynumber: 4.1 Consensus size: 32
44743716 TACCCAAATG
* * *
44743726 GTACAACTTAAAAAGATTATGTACACTTTGTGT
1 GTAC-ACTTGAAAAGGTTAGGTACACTTTGTGT
*
44743759 GTACACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACACTTGAAAAGGTTAGGTACACTTTGTGT
*
44743791 GTACACTTGGAAAA-GTTAGGTATACTTTGTGT
1 GTACACTT-GAAAAGGTTAGGTACACTTTGTGT
* * ** *
44743823 ATACCATTTGAAAAGGAAAGGTATACTTTGTGT
1 GTA-CACTTGAAAAGGTTAGGTACACTTTGTGT
44743856 GTAC
1 GTAC
44743860 CACTCGGAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
32 58 0.65
33 31 0.35
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:44743795 original size:65 final size:65
Alignment explanation
Indices: 44743726--44743859 Score: 155
Period size: 65 Copynumber: 2.1 Consensus size: 65
44743716 TACCCAAATG
* * ** *
44743726 GTACAACTT-AAAAAGATTATGTACACTTTGTGTGTA-CACTTGAAAAGGTTATGTACACTTTGT
1 GTAC-ACTTGAAAAAG-TTAGGTACACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTTTGT
44743789 GT
64 GT
* * * *
44743791 GTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACACTTGAAAAAGTTAGGTACACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTTTGTGT
44743856 GTAC
1 GTAC
44743860 CACTCGGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
64 21 0.36
65 37 0.64
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (65 bp):
GTACACTTGAAAAAGTTAGGTACACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTTTGTGT
Found at i:44749029 original size:27 final size:28
Alignment explanation
Indices: 44748945--44749042 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
44748935 CATGAGATTG
* * * *
44748945 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
44748974 GCACTAAGTATGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44749002 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44749029 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44749043 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44749053 original size:27 final size:27
Alignment explanation
Indices: 44748973--44749055 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
44748963 TAAATTGTAC
* * *
44748973 AGCACTAAGTATGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44749001 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44749028 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44749055 A
1 A
44749056 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44749056 original size:29 final size:27
Alignment explanation
Indices: 44748945--44749056 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
44748935 CATGAGATTG
** * *
44748945 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
44748974 GCACTAAGTATGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
44749002 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
44749029 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
44749057 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:44751871 original size:40 final size:39
Alignment explanation
Indices: 44751840--44752049 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
44751830 GGACTAAGAT
* *
44751840 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
44751880 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
44751920 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
44751960 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
44752000 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
44752039 CCGAAGGCATT
1 CCGAAGGCATT
44752050 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:44752003 original size:120 final size:120
Alignment explanation
Indices: 44751787--44752049 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
44751777 TTGAATGCTG
* *
44751787 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
44751851 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
44751907 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
44751970 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
44752026 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44752050 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:44752069 original size:79 final size:80
Alignment explanation
Indices: 44751788--44752084 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
44751778 TGAATGCTGT
* ** * * * **
44751788 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
44751851 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
44751868 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
44751932 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
44751948 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
44752012 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
44752027 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
44752085 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:44760055 original size:59 final size:59
Alignment explanation
Indices: 44759977--44760090 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
44759967 CATGTGGACC
* *
44759977 TATGTATGGCAAAACCCTAGTTGGTCCATGGTAACCAC-AAAATAGGTAAAGTTTATCTA
1 TATGTATGACAAAACCCTAGTTGGTCCAT-GAAACCACAAAAATAGGTAAAGTTTATCTA
** * *
44760036 TATGTATGACAAGGCCCTAGTTGGTCCATGAAACCCCAAAAATAGGTAAGGTTTA
1 TATGTATGACAAAACCCTAGTTGGTCCATGAAACCACAAAAATAGGTAAAGTTTA
44760091 CTTTGAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 6 0.12
59 42 0.88
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (59 bp):
TATGTATGACAAAACCCTAGTTGGTCCATGAAACCACAAAAATAGGTAAAGTTTATCTA
Found at i:44763790 original size:64 final size:66
Alignment explanation
Indices: 44763709--44763870 Score: 186
Period size: 67 Copynumber: 2.5 Consensus size: 66
44763699 AGACATTATG
* * * *
44763709 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACAATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACAATGTAGACAAGAGAGCTACGAGATA
*
44763772 T
66 A
* * * *
44763773 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACAATGTAGACAAGAGAGCTACGAGAT
44763838 AA
65 AA
* *
44763840 AT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
44763871 TTCACCACGT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
64 24 0.30
66 24 0.30
67 32 0.40
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACAATGTAGACAAGAGAGCTACGAGATA
A
Found at i:44764246 original size:13 final size:13
Alignment explanation
Indices: 44764228--44764253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44764218 ATATTATAAT
44764228 TATTTTATGTTAA
1 TATTTTATGTTAA
44764241 TATTTTATGTTAA
1 TATTTTATGTTAA
44764254 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:44765697 original size:21 final size:21
Alignment explanation
Indices: 44765673--44765714 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
44765663 AAGTCCCGAA
*
44765673 GGCATTTGTGCTAGTTACTAT
1 GGCATTTGTGCTAGTGACTAT
44765694 GGCATTTGTGCTAGTGACTAT
1 GGCATTTGTGCTAGTGACTAT
44765715 ATCTGGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (21 bp):
GGCATTTGTGCTAGTGACTAT
Found at i:44765708 original size:61 final size:61
Alignment explanation
Indices: 44765633--44765754 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
44765623 AAGATCCGAA
*
44765633 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44765694 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
44765755 ATCCAGGCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (61 bp):
GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:44765749 original size:40 final size:40
Alignment explanation
Indices: 44765694--44765854 Score: 236
Period size: 40 Copynumber: 4.0 Consensus size: 40
44765684 TAGTTACTAT
44765694 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAA
**
44765734 GGCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAA
* *
44765774 GGCATCTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAA
* * *
44765814 GGCATTTGTGCGAGTTG-CTATATC-CGGCTAAATCCCGAA
1 GGCATTTGTGCTAG-TGACTATATCTGGGCTAAGTCCCGAA
44765853 GG
1 GG
44765855 TACTTGGGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.14
40 93 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAA
Found at i:44765835 original size:80 final size:79
Alignment explanation
Indices: 44765694--44765854 Score: 261
Period size: 80 Copynumber: 2.0 Consensus size: 79
44765684 TAGTTACTAT
* *
44765694 GGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
1 GGCATCTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
*
44765759 AGGCTAAGTCCCGAA
66 -GGCTAAATCCCGAA
*
44765774 GGCATCTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATC
1 GGCATCTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATC
44765838 CGGCTAAATCCCGAA
65 CGGCTAAATCCCGAA
44765853 GG
1 GG
44765855 TACTTGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
79 15 0.20
80 59 0.78
81 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (79 bp):
GGCATCTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC
GGCTAAATCCCGAA
Found at i:44782026 original size:17 final size:18
Alignment explanation
Indices: 44781996--44782029 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44781986 AAAAAATTAA
*
44781996 TTATGTTTATTTAATTTT
1 TTATGTTTAATTAATTTT
44782014 TTAT-TTTAATTAATTT
1 TTATGTTTAATTAATTT
44782030 ACTTTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATGTTTAATTAATTTT
Found at i:44782366 original size:83 final size:83
Alignment explanation
Indices: 44782208--44782364 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 83
44782198 TTAGGAGGTT
* * * * * * *
44782208 AAAATGCAATTTTAATATATATTAATTTATAATTTCTTTATTTATAAGAGGATTGACTTGAAATT
1 AAAATACAATTTTAATATATATTAATTTATAATTTCTTTATTCATAAGAGAACTAAATTGAAAGT
*
44782273 TTTTCATTTTGAGGGACC
66 TTATCATTTTGAGGGACC
* * *
44782291 AAAATACAATTTTACTATATATTAATTTATAATTT-TTCTATTCGTAAGATAACTAAATT-AAAG
1 AAAATACAATTTTAATATATATTAATTTATAATTTCTT-TATTCATAAGAGAACTAAATTGAAAG
44782354 TTTATCATTTT
65 TTTATCATTTT
44782365 TGGGAGGCTA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
82 15 0.24
83 47 0.76
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (83 bp):
AAAATACAATTTTAATATATATTAATTTATAATTTCTTTATTCATAAGAGAACTAAATTGAAAGT
TTATCATTTTGAGGGACC
Found at i:44782419 original size:2 final size:2
Alignment explanation
Indices: 44782412--44782437 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44782402 TCTACTTTTC
44782412 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44782438 TACTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44784654 original size:27 final size:26
Alignment explanation
Indices: 44784606--44784661 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
44784596 GCAGCAACTA
*
44784606 ATTAAATTTGTCTCTAAGCTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
44784632 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
44784659 ATT
1 ATT
44784662 TAAGCTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 15 0.56
28 4 0.15
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:44789978 original size:11 final size:11
Alignment explanation
Indices: 44789962--44790001 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44789952 TTCCAATCAC
44789962 TTTTTTTCGAT
1 TTTTTTTCGAT
* *
44789973 TTTTTTT-AAA
1 TTTTTTTCGAT
44789983 TTTTTTTCGAT
1 TTTTTTTCGAT
44789994 TTTTTTTC
1 TTTTTTTC
44790002 AACTTCGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (11 bp):
TTTTTTTCGAT
Found at i:44790008 original size:17 final size:16
Alignment explanation
Indices: 44789988--44790021 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44789978 TTAAATTTTT
*
44789988 TTCGATTTTTTTTCAAC
1 TTCGAATTTTTTT-AAC
44790005 TTCGAATTTTTTTAAC
1 TTCGAATTTTTTTAAC
44790021 T
1 T
44790022 ACAAAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.59
Consensus pattern (16 bp):
TTCGAATTTTTTTAAC
Found at i:44791379 original size:27 final size:26
Alignment explanation
Indices: 44791331--44791386 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
44791321 GCAGCAACTA
*
44791331 ATTAAATTTGTCTCTAAGCTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
44791357 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
44791384 ATT
1 ATT
44791387 TAAGCTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 15 0.56
28 4 0.15
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:44791854 original size:16 final size:16
Alignment explanation
Indices: 44791833--44791903 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
44791823 ATTTGGTTCA
* *
44791833 CTGTAATGGAATAGGG
1 CTGTAATAGAATAGAG
*
44791849 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
*
44791865 CTGTAATAAAATAGAG
1 CTGTAATAGAATAGAG
* *
44791881 ATGTAATAGAATAGAA
1 CTGTAATAGAATAGAG
44791897 CTGTAAT
1 CTGTAAT
44791904 CAATAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:44792109 original size:14 final size:14
Alignment explanation
Indices: 44792073--44792113 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
44792063 GTTATTAAAT
*
44792073 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
44792086 -TTATTAAAAATAA
1 TTTAATAAAAATAA
44792099 TTTAATAAAAATAA
1 TTTAATAAAAATAA
44792113 T
1 T
44792114 AAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Done.